Pieter Dorrestein

Title(s)Professor, School of Pharmacy and Pharmaceutical Science
SchoolVc-health Sciences-schools
Address9500 Gilman Drive #
La Jolla CA 92093
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    Collapse Biography 
    Collapse Education and Training
    Ph.D.Cornell University

    Collapse Overview 

    Collapse Research 
    Collapse Research Activities and Funding
    Reuse of Public Metabolomics Data
    NIH R03CA211211Sep 15, 2016 - Aug 31, 2018
    Role: Principal Investigator
    Unified Computation Tools for Natural Products Research
    NIH R01GM107550Sep 5, 2013 - Apr 30, 2025
    Role: Principal Investigator
    Experiment based genome mining of ribosomal natural products
    NIH R01GM097509Apr 1, 2012 - Feb 28, 2017
    Role: Principal Investigator
    Synapt ion mobility mass spectrometer
    NIH S10RR029121Jun 15, 2011 - Jun 14, 2012
    Role: Principal Investigator
    The chemical and genetic basis of interspecies interactions
    NIH R01AI095125Mar 7, 2011 - Feb 29, 2016
    Role: Principal Investigator
    Real-Time Imaging of metabolic Communication
    NIH R01GM094802Sep 1, 2010 - Aug 31, 2015
    Role: Principal Investigator
    New approaches to sequencing of complex peptides.
    NIH R01GM086283Sep 25, 2008 - Aug 31, 2012
    Role: Principal Investigator
    Enzymology of NRPS and PKS proteins by mass spectrometry
    NIH F32GM073323Mar 16, 2005 - Mar 15, 2008
    Role: Principal Investigator

    Collapse Bibliographic 
    Collapse Publications
    Publications listed below are automatically derived from MEDLINE/PubMed and other sources, which might result in incorrect or missing publications. Researchers can login to make corrections and additions, or contact us for help. to make corrections and additions.
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    Altmetrics Details PMC Citations indicate the number of times the publication was cited by articles in PubMed Central, and the Altmetric score represents citations in news articles and social media. (Note that publications are often cited in additional ways that are not shown here.) Fields are based on how the National Library of Medicine (NLM) classifies the publication's journal and might not represent the specific topic of the publication. Translation tags are based on the publication type and the MeSH terms NLM assigns to the publication. Some publications (especially newer ones and publications not in PubMed) might not yet be assigned Field or Translation tags.) Click a Field or Translation tag to filter the publications.
    1. The changing metabolic landscape of bile acids - keys to metabolism and immune regulation. Nat Rev Gastroenterol Hepatol. 2024 Apr 04. Mohanty I, Allaband C, Mannochio-Russo H, El Abiead Y, Hagey LR, Knight R, Dorrestein PC. PMID: 38575682.
      View in: PubMed   Mentions:    Fields:    
    2. Peripheral neuronal activation shapes the microbiome and alters gut physiology. Cell Rep. 2024 Mar 21; 43(4):113953. Griffiths JA, Yoo BB, Thuy-Boun P, Cantu VJ, Weldon KC, Challis C, Sweredoski MJ, Chan KY, Thron TM, Sharon G, Moradian A, Humphrey G, Zhu Q, Shaffer JP, Wolan DW, Dorrestein PC, Knight R, Gradinaru V, Mazmanian SK. PMID: 38517896.
      View in: PubMed   Mentions:    Fields:    
    3. The underappreciated diversity of bile acid modifications. Cell. 2024 Mar 28; 187(7):1801-1818.e20. Mohanty I, Mannochio-Russo H, Schweer JV, El Abiead Y, Bittremieux W, Xing S, Schmid R, Zuffa S, Vasquez F, Muti VB, Zemlin J, Tovar-Herrera OE, Moraïs S, Desai D, Amin S, Koo I, Turck CW, Mizrahi I, Kris-Etherton PM, Petersen KS, Fleming JA, Huan T, Patterson AD, Siegel D, Hagey LR, Wang M, Aron AT, Dorrestein PC. PMID: 38471500.
      View in: PubMed   Mentions:    Fields:    Translation:HumansAnimals
    4. Coral thermal stress and bleaching enrich and restructure reef microbial communities via altered organic matter exudation. Commun Biol. 2024 Feb 13; 7(1):160. Sparagon WJ, Arts MGI, Quinlan ZA, Wegley Kelly L, Koester I, Comstock J, Bullington JA, Carlson CA, Dorrestein PC, Aluwihare LI, Haas AF, Nelson CE. PMID: 38351328; PMCID: PMC10864316.
      View in: PubMed   Mentions: Translation:Animals
    5. A conserved interdomain microbial network underpins cadaver decomposition despite environmental variables. Nat Microbiol. 2024 Mar; 9(3):595-613. Burcham ZM, Belk AD, McGivern BB, Bouslimani A, Ghadermazi P, Martino C, Shenhav L, Zhang AR, Shi P, Emmons A, Deel HL, Xu ZZ, Nieciecki V, Zhu Q, Shaffer M, Panitchpakdi M, Weldon KC, Cantrell K, Ben-Hur A, Reed SC, Humphry GC, Ackermann G, McDonald D, Chan SHJ, Connor M, Boyd D, Smith J, Watson JMS, Vidoli G, Steadman D, Lynne AM, Bucheli S, Dorrestein PC, Wrighton KC, Carter DO, Knight R, Metcalf JL. PMID: 38347104; PMCID: PMC10914610.
      View in: PubMed   Mentions:    Fields:    Translation:HumansAnimalsCellsPHPublic Health
    6. Bile salt hydrolase catalyses formation of amine-conjugated bile acids. Nature. 2024 Feb; 626(8000):859-863. Rimal B, Collins SL, Tanes CE, Rocha ER, Granda MA, Solanki S, Hoque NJ, Gentry EC, Koo I, Reilly ER, Hao F, Paudel D, Singh V, Yan T, Kim MS, Bittinger K, Zackular JP, Krausz KW, Desai D, Amin S, Coleman JP, Shah YM, Bisanz JE, Gonzalez FJ, Vanden Heuvel JP, Wu GD, Zemel BS, Dorrestein PC, Weinert EE, Patterson AD. PMID: 38326609; PMCID: PMC10881385.
      View in: PubMed   Mentions: 1     Fields:    Translation:HumansCells
    7. Co-occurrence network analysis reveals the alterations of the skin microbiome and metabolome in adults with mild to moderate atopic dermatitis. mSystems. 2024 Mar 19; 9(3):e0111923. P Gomes PW, Mannochio-Russo H, Mao J, Zhao HN, Ancira J, Tipton CD, Dorrestein PC, Li M. PMID: 38319107; PMCID: PMC10949451.
      View in: PubMed   Mentions:    Fields:    Translation:HumansCells
    8. microbeMASST: a taxonomically informed mass spectrometry search tool for microbial metabolomics data. Nat Microbiol. 2024 Feb; 9(2):336-345. Zuffa S, Schmid R, Bauermeister A, P Gomes PW, Caraballo-Rodriguez AM, El Abiead Y, Aron AT, Gentry EC, Zemlin J, Meehan MJ, Avalon NE, Cichewicz RH, Buzun E, Terrazas MC, Hsu CY, Oles R, Ayala AV, Zhao J, Chu H, Kuijpers MCM, Jackrel SL, Tugizimana F, Nephali LP, Dubery IA, Madala NE, Moreira EA, Costa-Lotufo LV, Lopes NP, Rezende-Teixeira P, Jimenez PC, Rimal B, Patterson AD, Traxler MF, Pessotti RC, Alvarado-Villalobos D, Tamayo-Castillo G, Chaverri P, Escudero-Leyva E, Quiros-Guerrero LM, Bory AJ, Joubert J, Rutz A, Wolfender JL, Allard PM, Sichert A, Pontrelli S, Pullman BS, Bandeira N, Gerwick WH, Gindro K, Massana-Codina J, Wagner BC, Forchhammer K, Petras D, Aiosa N, Garg N, Liebeke M, Bourceau P, Kang KB, Gadhavi H, de Carvalho LPS, Silva Dos Santos M, Pérez-Lorente AI, Molina-Santiago C, Romero D, Franke R, Brönstrup M, Vera Ponce de León A, Pope PB, La Rosa SL, La Barbera G, Roager HM, Laursen MF, Hammerle F, Siewert B, Peintner U, Licona-Cassani C, Rodriguez-Orduña L, Rampler E, Hildebrand F, Koellensperger G, Schoeny H, Hohenwallner K, Panzenboeck L, Gregor R, O'Neill EC, Roxborough ET, Odoi J, Bale NJ, Ding S, Sinninghe Damsté JS, Guan XL, Cui JJ, Ju KS, Silva DB, Silva FMR, da Silva GF, Koolen HHF, Grundmann C, Clement JA, Mohimani H, Broders K, McPhail KL, Ober-Singleton SE, Rath CM, McDonald D, Knight R, Wang M, Dorrestein PC. PMID: 38316926; PMCID: PMC10847041.
      View in: PubMed   Mentions: 4     Fields:    Translation:Humans
    9. Weighting Low-Intensity MS/MS Ions and m/z Frequency for Spectral Library Annotation. J Am Soc Mass Spectrom. 2024 Feb 07; 35(2):266-274. Engler Hart C, Kind T, Dorrestein PC, Healey D, Domingo-Fernández D. PMID: 38271611; PMCID: PMC10854760.
      View in: PubMed   Mentions:    Fields:    
    10. Functional metabolomics of the human scalp: a metabolic niche for Staphylococcus epidermidis. mSystems. 2024 Feb 20; 9(2):e0035623. Nothias L-F, Schmid R, Garlet A, Cameron H, Leoty-Okombi S, André-Frei V, Fuchs R, Dorrestein PC, Ternes P. PMID: 38206014; PMCID: PMC10878091.
      View in: PubMed   Mentions:    Fields:    Translation:HumansCells
    11. Fast mass spectrometry search and clustering of untargeted metabolomics data. Nat Biotechnol. 2024 Jan 02. Mongia M, Yasaka TM, Liu Y, Guler M, Lu L, Bhagwat A, Behsaz B, Wang M, Dorrestein PC, Mohimani H. PMID: 38168990.
      View in: PubMed   Mentions:    Fields:    
    12. Open access repository-scale propagated nearest neighbor suspect spectral library for untargeted metabolomics. Nat Commun. 2023 Dec 20; 14(1):8488. Bittremieux W, Avalon NE, Thomas SP, Kakhkhorov SA, Aksenov AA, Gomes PWP, Aceves CM, Caraballo-Rodríguez AM, Gauglitz JM, Gerwick WH, Huan T, Jarmusch AK, Kaddurah-Daouk RF, Kang KB, Kim HW, Kondic T, Mannochio-Russo H, Meehan MJ, Melnik AV, Nothias LF, O'Donovan C, Panitchpakdi M, Petras D, Schmid R, Schymanski EL, van der Hooft JJJ, Weldon KC, Yang H, Xing S, Zemlin J, Wang M, Dorrestein PC. PMID: 38123557; PMCID: PMC10733301.
      View in: PubMed   Mentions: 3     Fields:    
    13. Reverse metabolomics for the discovery of chemical structures from humans. Nature. 2024 Feb; 626(7998):419-426. Gentry EC, Collins SL, Panitchpakdi M, Belda-Ferre P, Stewart AK, Carrillo Terrazas M, Lu HH, Zuffa S, Yan T, Avila-Pacheco J, Plichta DR, Aron AT, Wang M, Jarmusch AK, Hao F, Syrkin-Nikolau M, Vlamakis H, Ananthakrishnan AN, Boland BS, Hemperly A, Vande Casteele N, Gonzalez FJ, Clish CB, Xavier RJ, Chu H, Baker ES, Patterson AD, Knight R, Siegel D, Dorrestein PC. PMID: 38052229; PMCID: PMC10849969.
      View in: PubMed   Mentions: 1     Fields:    Translation:HumansAnimalsCells
    14. A Modified Mediterranean Ketogenic Diet mitigates modifiable risk factors of Alzheimer's Disease: a serum and CSF-based metabolic analysis. medRxiv. 2023 Nov 27. Schweickart A, Batra R, Neth BJ, Martino C, Shenhav L, Zhang AR, Shi P, Karu N, Huynh K, Meikle PJ, Schimmel L, Dilmore AH, Blennow K, Zetterberg H, Blach C, Dorrestein PC, Knight R, Alzheimer’s Gut Microbiome Project Consortium, Craft S, Kaddurah-Daouk R, Krumsiek J. PMID: 38076824; PMCID: PMC10705656.
      View in: PubMed   Mentions:
    15. Author Correction: Enhancing untargeted metabolomics using metadata-based source annotation. Nat Biotechnol. 2023 Nov; 41(11):1656. Gauglitz JM, West KA, Bittremieux W, Williams CL, Weldon KC, Panitchpakdi M, Di Ottavio F, Aceves CM, Brown E, Sikora NC, Jarmusch AK, Martino C, Tripathi A, Meehan MJ, Dorrestein K, Shaffer JP, Coras R, Vargas F, Goldasich LD, Schwartz T, Bryant M, Humphrey G, Johnson AJ, Spengler K, Belda-Ferre P, Diaz E, McDonald D, Zhu Q, Elijah EO, Wang M, Marotz C, Sprecher KE, Vargas-Robles D, Withrow D, Ackermann G, Herrera L, Bradford BJ, Marques LMM, Amaral JG, Silva RM, Veras FP, Cunha TM, Oliveira RDR, Louzada-Junior P, Mills RH, Piotrowski PK, Servetas SL, Da Silva SM, Jones CM, Lin NJ, Lippa KA, Jackson SA, Daouk RK, Galasko D, Dulai PS, Kalashnikova TI, Wittenberg C, Terkeltaub R, Doty MM, Kim JH, Rhee KE, Beauchamp-Walters J, Wright KP, Dominguez-Bello MG, Manary M, Oliveira MF, Boland BS, Lopes NP, Guma M, Swafford AD, Dutton RJ, Knight R, Dorrestein PC. PMID: 37853256.
      View in: PubMed   Mentions: 2     Fields:    
    16. Using Multidimensional Separations to Distinguish Isomeric Amino Acid-Bile Acid Conjugates and Assess Their Presence and Perturbations in Model Systems. Anal Chem. 2023 10 17; 95(41):15357-15366. Stewart AK, Foley MH, Dougherty MK, McGill SK, Gulati AS, Gentry EC, Hagey LR, Dorrestein PC, Theriot CM, Dodds JN, Baker ES. PMID: 37796494; PMCID: PMC10613829.
      View in: PubMed   Mentions:    Fields:    Translation:HumansAnimalsCells
    17. Ex vivo study of molecular changes of stained teeth following hydrogen peroxide and peroxymonosulfate treatments. Sci Rep. 2023 09 28; 13(1):16349. P Gomes PW, Zuffa S, Bauermeister A, Caraballo-Rodríguez AM, Zhao HN, Mannochio-Russo H, Dogo-Isonagie C, Patel O, Pimenta P, Gronlund J, Lavender S, Pilch S, Maloney V, North M, Dorrestein PC. PMID: 37770593; PMCID: PMC10539445.
      View in: PubMed   Mentions:    Fields:    Translation:Humans
    18. Microbiomes and metabolomes of dominant coral reef primary producers illustrate a potential role for immunolipids in marine symbioses. Commun Biol. 2023 08 31; 6(1):896. Mannochio-Russo H, Swift SOI, Nakayama KK, Wall CB, Gentry EC, Panitchpakdi M, Caraballo-Rodriguez AM, Aron AT, Petras D, Dorrestein K, Dorrestein TK, Williams TM, Nalley EM, Altman-Kurosaki NT, Martinelli M, Kuwabara JY, Darcy JL, Bolzani VS, Wegley Kelly L, Mora C, Yew JY, Amend AS, McFall-Ngai M, Hynson NA, Dorrestein PC, Nelson CE. PMID: 37653089; PMCID: PMC10471604.
      View in: PubMed   Mentions: Translation:Animals
    19. Portosystemic shunt placement reveals blood signatures for the development of hepatic encephalopathy through mass spectrometry. Nat Commun. 2023 08 31; 14(1):5303. Dantas Machado AC, Ramos SF, Gauglitz JM, Fassler AM, Petras D, Aksenov AA, Kim UB, Lazarowicz M, Barnard Giustini A, Aryafar H, Vodkin I, Warren C, Dorrestein PC, Zarrinpar A, Zarrinpar A. PMID: 37652904; PMCID: PMC10471626.
      View in: PubMed   Mentions: 1     Fields:    Translation:Humans
    20. Urine Excretion, Organ Distribution, and Placental Transfer of 6PPD and 6PPD-Quinone in Mice and Potential Developmental Toxicity through Nuclear Receptor Pathways. Environ Sci Technol. 2023 09 12; 57(36):13429-13438. Zhao HN, Thomas SP, Zylka MJ, Dorrestein PC, Hu W. PMID: 37642336.
      View in: PubMed   Mentions:    Fields:    Translation:HumansAnimalsCells
    21. Paired microbiome and metabolome analyses associate bile acid changes with colorectal cancer progression. Cell Rep. 2023 08 29; 42(8):112997. Fu T, Huan T, Rahman G, Zhi H, Xu Z, Oh TG, Guo J, Coulter S, Tripathi A, Martino C, McCarville JL, Zhu Q, Cayabyab F, Low B, He M, Xing S, Vargas F, Yu RT, Atkins A, Liddle C, Ayres J, Raffatellu M, Dorrestein PC, Downes M, Knight R, Evans RM. PMID: 37611587; PMCID: PMC10903535.
      View in: PubMed   Mentions: 2     Fields:    Translation:Animals
    22. DeepSAT: Learning Molecular Structures from Nuclear Magnetic Resonance Data. J Cheminform. 2023 Aug 07; 15(1):71. Kim HW, Zhang C, Reher R, Wang M, Alexander KL, Nothias LF, Han YK, Shin H, Lee KY, Lee KH, Kim MJ, Dorrestein PC, Gerwick WH, Cottrell GW. PMID: 37550756; PMCID: PMC10406729.
      View in: PubMed   Mentions:
    23. A Taxonomically-informed Mass Spectrometry Search Tool for Microbial Metabolomics Data. Res Sq. 2023 Aug 03. Zuffa S, Schmid R, Bauermeister A, Gomes PWP, Caraballo-Rodriguez AM, Abiead YE, Aron AT, Gentry EC, Zemlin J, Meehan MJ, Avalon NE, Cichewicz RH, Buzun E, Terrazas MC, Hsu CY, Oles R, Ayala AV, Zhao J, Chu H, Kuijpers MCM, Jackrel SL, Tugizimana F, Nephali LP, Dubery IA, Madala NE, Moreira EA, Costa-Lotufo LV, Lopes NP, Rezende-Teixeira P, Jimenez PC, Rimal B, Patterson AD, Traxler MF, de Cassia Pessotti R, Alvarado-Villalobos D, Tamayo-Castillo G, Chaverri P, Escudero-Leyva E, Quiros-Guerrero LM, Bory AJ, Joubert J, Rutz A, Wolfender JL, Allard PM, Sichert A, Pontrelli S, Pullman BS, Bandeira N, Gerwick WH, Gindro K, Massana-Codina J, Wagner BC, Forchhammer K, Petras D, Aiosa N, Garg N, Liebeke M, Bourceau P, Kang KB, Gadhavi H, de Carvalho LPS, Dos Santos MS, Pérez-Lorente AI, Molina-Santiago C, Romero D, Franke R, Brönstrup M, de León AVP, Pope PB, Rosa SL, Barbera G, Roager HM, Laursen MF, Hammerle F, Siewert B, Peintner U, Licona-Cassani C, Rodriguez-Orduña L, Rampler E, Hildebrand F, Koellensperger G, Schoeny H, Hohenwallner K, Panzenboeck L, Gregor R, O'Neill EC, Roxborough ET, Odoi J, Bale NJ, Ding S, Sinninghe Damsté JS, Guan XL, Cui JJ, Ju KS, Silva DB, Silva FMR, da Silva GF, Koolen HHF, Grundmann C, Clement JA, Mohimani H, Broders K, McPhail KL, Ober-Singleton SE, Rath CM, McDonald D, Knight R, Wang M, Dorrestein PC. PMID: 37577622; PMCID: PMC10418563.
      View in: PubMed   Mentions:
    24. Trachymyrmex septentrionalis ants promote fungus garden hygiene using Trichoderma-derived metabolite cues. Proc Natl Acad Sci U S A. 2023 Jun 20; 120(25):e2219373120. Kyle KE, Puckett SP, Caraballo-Rodríguez AM, Rivera-Chávez J, Samples RM, Earp CE, Raja HA, Pearce CJ, Ernst M, van der Hooft JJJ, Adams ME, Oberlies NH, Dorrestein PC, Klassen JL, Balunas MJ. PMID: 37319116; PMCID: PMC10288546.
      View in: PubMed   Mentions: 4     Fields:    Translation:Animals
    25. Effects of a ketogenic and low-fat diet on the human metabolome, microbiome, and foodome in adults at risk for Alzheimer's disease. Alzheimers Dement. 2023 11; 19(11):4805-4816. Dilmore AH, Martino C, Neth BJ, West KA, Zemlin J, Rahman G, Panitchpakdi M, Meehan MJ, Weldon KC, Blach C, Schimmel L, Kaddurah-Daouk R, Dorrestein PC, Knight R, Craft S, Alzheimer's Gut Microbiome Project Consortium. PMID: 37017243; PMCID: PMC10551050.
      View in: PubMed   Mentions: 11     Fields:    Translation:Humans
    26. Integrative analysis of multimodal mass spectrometry data in MZmine 3. Nat Biotechnol. 2023 04; 41(4):447-449. Schmid R, Heuckeroth S, Korf A, Smirnov A, Myers O, Dyrlund TS, Bushuiev R, Murray KJ, Hoffmann N, Lu M, Sarvepalli A, Zhang Z, Fleischauer M, Dührkop K, Wesner M, Hoogstra SJ, Rudt E, Mokshyna O, Brungs C, Ponomarov K, Mutabdžija L, Damiani T, Pudney CJ, Earll M, Helmer PO, Fallon TR, Schulze T, Rivas-Ubach A, Bilbao A, Richter H, Nothias LF, Wang M, Orešic M, Weng JK, Böcker S, Jeibmann A, Hayen H, Karst U, Dorrestein PC, Petras D, Du X, Pluskal T. PMID: 36859716; PMCID: PMC10496610.
      View in: PubMed   Mentions: 53     Fields:    
    27. Bile salt hydrolases shape the bile acid landscape and restrict Clostridioides difficile growth in the murine gut. Nat Microbiol. 2023 04; 8(4):611-628. Foley MH, Walker ME, Stewart AK, O'Flaherty S, Gentry EC, Patel S, Beaty VV, Allen G, Pan M, Simpson JB, Perkins C, Vanhoy ME, Dougherty MK, McGill SK, Gulati AS, Dorrestein PC, Baker ES, Redinbo MR, Barrangou R, Theriot CM. PMID: 36914755; PMCID: PMC10066039.
      View in: PubMed   Mentions: 17     Fields:    Translation:HumansAnimalsCells
    28. Plasma metabolites with mechanistic and clinical links to the neurovascular disease cavernous angioma. Commun Med (Lond). 2023 Mar 03; 3(1):35. Srinath A, Xie B, Li Y, Sone JY, Romanos S, Chen C, Sharma A, Polster S, Dorrestein PC, Weldon KC, DeBiasse D, Moore T, Lightle R, Koskimäki J, Zhang D, Stadnik A, Piedad K, Hagan M, Shkoukani A, Carrión-Penagos J, Bi D, Shen L, Shenkar R, Ji Y, Sidebottom A, Pamer E, Gilbert JA, Kahn ML, D'Souza M, Sulakhe D, Awad IA, Girard R. PMID: 36869161; PMCID: PMC9984539.
      View in: PubMed   Mentions:
    29. Bacterial and Chemical Evidence of Coastal Water Pollution from the Tijuana River in Sea Spray Aerosol. Environ Sci Technol. 2023 03 14; 57(10):4071-4081. Pendergraft MA, Belda-Ferre P, Petras D, Morris CK, Mitts BA, Aron AT, Bryant M, Schwartz T, Ackermann G, Humphrey G, Kaandorp E, Dorrestein PC, Knight R, Prather KA. PMID: 36862087; PMCID: PMC10018732.
      View in: PubMed   Mentions: 2     Fields:    Translation:HumansCellsPHPublic Health
    30. Improving annotation propagation on molecular networks through random walks: introducing ChemWalker. Bioinformatics. 2023 03 01; 39(3). Borelli TC, Arini GS, Feitosa LGP, Dorrestein PC, Lopes NP, da Silva RR. PMID: 36864626; PMCID: PMC9991053.
      View in: PubMed   Mentions:    Fields:    
    31. The Gut Microbial Bile Acid Modulation and Its Relevance to Digestive Health and Diseases. Gastroenterology. 2023 06; 164(7):1069-1085. Fogelson KA, Dorrestein PC, Zarrinpar A, Knight R. PMID: 36841488; PMCID: PMC10205675.
      View in: PubMed   Mentions: 6     Fields:    Translation:Humans
    32. The Molecular Effect of Wearing Silver-Threaded Clothing on the Human Skin. mSystems. 2023 02 23; 8(1):e0092222. Melnik AV, Callewaert C, Dorrestein K, Broadhead R, Minich JJ, Ernst M, Humphrey G, Ackermann G, Gathercole R, Aksenov AA, Knight R, Dorrestein PC. PMID: 36722970; PMCID: PMC9948701.
      View in: PubMed   Mentions: 1     Fields:    Translation:HumansCells
    33. Unified and Standardized Mass Spectrometry Data Processing in Python Using spectrum_utils. J Proteome Res. 2023 02 03; 22(2):625-631. Bittremieux W, Levitsky L, Pilz M, Sachsenberg T, Huber F, Wang M, Dorrestein PC. PMID: 36688502.
      View in: PubMed   Mentions: 2     Fields:    
    34. Pre- and Post-Portosystemic Shunt Placement Metabolomics Reveal Molecular Signatures for the Development of Hepatic Encephalopathy. medRxiv. 2023 Jan 04. Dantas Machado AC, Ramos SF, Gauglitz JM, Carpenter AM, Petras D, Aksenov AA, Kim UB, Lazarowicz M, Giustini AB, Aryafar H, Vodkin I, Warren C, Dorrestein PC, Zarrinpar A, Zarrinpar A. PMID: 36711444; PMCID: PMC9882439.
      View in: PubMed   Mentions:
    35. Multifactor Quality and Safety Analysis of Antimicrobial Drugs Sold by Online Pharmacies That Do Not Require a Prescription: Multiphase Observational, Content Analysis, and Product Evaluation Study. JMIR Public Health Surveill. 2022 Dec 23; 8(12):e41834. Mackey TK, Jarmusch AK, Xu Q, Sun K, Lu A, Aguirre S, Lim J, Bhakta S, Dorrestein PC. PMID: 36563038.
      View in: PubMed   Mentions: 1  
    36. ConCISE: Consensus Annotation Propagation of Ion Features in Untargeted Tandem Mass Spectrometry Combining Molecular Networking and In Silico Metabolite Structure Prediction. Metabolites. 2022 Dec 16; 12(12). Quinlan ZA, Koester I, Aron AT, Petras D, Aluwihare LI, Dorrestein PC, Nelson CE, Wegley Kelly L. PMID: 36557313.
      View in: PubMed   Mentions: 3  
    37. Standardized multi-omics of Earth's microbiomes reveals microbial and metabolite diversity. Nat Microbiol. 2022 12; 7(12):2128-2150. Shaffer JP, Nothias LF, Thompson LR, Sanders JG, Salido RA, Couvillion SP, Brejnrod AD, Lejzerowicz F, Haiminen N, Huang S, Lutz HL, Zhu Q, Martino C, Morton JT, Karthikeyan S, Nothias-Esposito M, Dührkop K, Böcker S, Kim HW, Aksenov AA, Bittremieux W, Minich JJ, Marotz C, Bryant MM, Sanders K, Schwartz T, Humphrey G, Vásquez-Baeza Y, Tripathi A, Parida L, Carrieri AP, Beck KL, Das P, González A, McDonald D, Ladau J, Karst SM, Albertsen M, Ackermann G, DeReus J, Thomas T, Petras D, Shade A, Stegen J, Song SJ, Metz TO, Swafford AD, Dorrestein PC, Jansson JK, Gilbert JA, Knight R, Earth Microbiome Project 500 (EMP500) Consortium. PMID: 36443458; PMCID: PMC9712116.
      View in: PubMed   Mentions: 17     Fields:    Translation:Animals
    38. The critical role that spectral libraries play in capturing the metabolomics community knowledge. Metabolomics. 2022 11 19; 18(12):94. Bittremieux W, Wang M, Dorrestein PC. PMID: 36409434; PMCID: PMC10284100.
      View in: PubMed   Mentions: 12     Fields:    
    39. NPOmix: A machine learning classifier to connect mass spectrometry fragmentation data to biosynthetic gene clusters. PNAS Nexus. 2022 Nov; 1(5):pgac257. Leão TF, Wang M, da Silva R, Gurevich A, Bauermeister A, Gomes PWP, Brejnrod A, Glukhov E, Aron AT, Louwen JJR, Kim HW, Reher R, Fiore MF, van der Hooft JJJ, Gerwick L, Gerwick WH, Bandeira N, Dorrestein PC. PMID: 36712343; PMCID: PMC9802219.
      View in: PubMed   Mentions: 2  
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    82. Chemical Gradients of Plant Substrates in an Atta texana Fungus Garden. mSystems. 2021 Aug 31; 6(4):e0060121. Caraballo-Rodríguez AM, Puckett SP, Kyle KE, Petras D, da Silva R, Nothias LF, Ernst M, van der Hooft JJJ, Tripathi A, Wang M, Balunas MJ, Klassen JL, Dorrestein PC. PMID: 34342533; PMCID: PMC8409729.
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    93. Gastrointestinal Surgery for Inflammatory Bowel Disease Persistently Lowers Microbiome and Metabolome Diversity. Inflamm Bowel Dis. 2021 04 15; 27(5):603-616. Fang X, Vázquez-Baeza Y, Elijah E, Vargas F, Ackermann G, Humphrey G, Lau R, Weldon KC, Sanders JG, Panitchpakdi M, Carpenter C, Jarmusch AK, Neill J, Miralles A, Dulai P, Singh S, Tsai M, Swafford AD, Smarr L, Boyle DL, Palsson BO, Chang JT, Dorrestein PC, Sandborn WJ, Knight R, Boland BS. PMID: 33026068; PMCID: PMC8047854.
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    94. Assessment of the microbiome during bacteriophage therapy in combination with systemic antibiotics to treat a case of staphylococcal device infection. Microbiome. 2021 04 14; 9(1):92. Mu A, McDonald D, Jarmusch AK, Martino C, Brennan C, Bryant M, Humphrey GC, Toronczak J, Schwartz T, Nguyen D, Ackermann G, D'Onofrio A, Strathdee SA, Schooley RT, Dorrestein PC, Knight R, Aslam S. PMID: 33853672; PMCID: PMC8048313.
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    95. Specialized Metabolites from Ribosome Engineered Strains of Streptomyces clavuligerus. Metabolites. 2021 Apr 13; 11(4). Shaikh AA, Nothias LF, Srivastava SK, Dorrestein PC, Tahlan K. PMID: 33924621; PMCID: PMC8069389.
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    96. Influence of Intermittent Hypoxia/Hypercapnia on Atherosclerosis, Gut Microbiome, and Metabolome. Front Physiol. 2021; 12:663950. Xue J, Allaband C, Zhou D, Poulsen O, Martino C, Jiang L, Tripathi A, Elijah E, Dorrestein PC, Knight R, Zarrinpar A, Haddad GG. PMID: 33897472; PMCID: PMC8060652.
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    97. A community resource for paired genomic and metabolomic data mining. Nat Chem Biol. 2021 04; 17(4):363-368. Schorn MA, Verhoeven S, Ridder L, Huber F, Acharya DD, Aksenov AA, Aleti G, Moghaddam JA, Aron AT, Aziz S, Bauermeister A, Bauman KD, Baunach M, Beemelmanns C, Beman JM, Berlanga-Clavero MV, Blacutt AA, Bode HB, Boullie A, Brejnrod A, Bugni TS, Calteau A, Cao L, Carrión VJ, Castelo-Branco R, Chanana S, Chase AB, Chevrette MG, Costa-Lotufo LV, Crawford JM, Currie CR, Cuypers B, Dang T, de Rond T, Demko AM, Dittmann E, Du C, Drozd C, Dujardin JC, Dutton RJ, Edlund A, Fewer DP, Garg N, Gauglitz JM, Gentry EC, Gerwick L, Glukhov E, Gross H, Gugger M, Guillén Matus DG, Helfrich EJN, Hempel BF, Hur JS, Iorio M, Jensen PR, Kang KB, Kaysser L, Kelleher NL, Kim CS, Kim KH, Koester I, König GM, Leao T, Lee SR, Lee YY, Li X, Little JC, Maloney KN, Männle D, Martin H C, McAvoy AC, Metcalf WW, Mohimani H, Molina-Santiago C, Moore BS, Mullowney MW, Muskat M, Nothias LF, O'Neill EC, Parkinson EI, Petras D, Piel J, Pierce EC, Pires K, Reher R, Romero D, Roper MC, Rust M, Saad H, Saenz C, Sanchez LM, Sørensen SJ, Sosio M, Süssmuth RD, Sweeney D, Tahlan K, Thomson RJ, Tobias NJ, Trindade-Silva AE, van Wezel GP, Wang M, Weldon KC, Zhang F, Ziemert N, Duncan KR, Crüsemann M, Rogers S, Dorrestein PC, Medema MH, van der Hooft JJJ. PMID: 33589842; PMCID: PMC7987574.
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    98. EMPress Enables Tree-Guided, Interactive, and Exploratory Analyses of Multi-omic Data Sets. mSystems. 2021 Mar 16; 6(2). Cantrell K, Fedarko MW, Rahman G, McDonald D, Yang Y, Zaw T, Gonzalez A, Janssen S, Estaki M, Haiminen N, Beck KL, Zhu Q, Sayyari E, Morton JT, Armstrong G, Tripathi A, Gauglitz JM, Marotz C, Matteson NL, Martino C, Sanders JG, Carrieri AP, Song SJ, Swafford AD, Dorrestein PC, Andersen KG, Parida L, Kim HC, Vázquez-Baeza Y, Knight R. PMID: 33727399; PMCID: PMC8546999.
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    99. Open Science Resources for the Mass Spectrometry-Based Analysis of SARS-CoV-2. J Proteome Res. 2021 03 05; 20(3):1464-1475. Bittremieux W, Adams C, Laukens K, Dorrestein PC, Bandeira N. PMID: 33605735.
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    100. Tiny Earth: A Big Idea for STEM Education and Antibiotic Discovery. mBio. 2021 02 16; 12(1). Hurley A, Chevrette MG, Acharya DD, Lozano GL, Garavito M, Heinritz J, Balderrama L, Beebe M, DenHartog ML, Corinaldi K, Engels R, Gutierrez A, Jona O, Putnam JHI, Rhodes B, Tsang T, Hernandez S, Bascom-Slack C, Blum JE, Price PA, Davis D, Klein J, Pultorak J, Sullivan NL, Mouncey NJ, Dorrestein PC, Miller S, Broderick NA, Handelsman J. PMID: 33593964; PMCID: PMC8545114.
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    101. Convergent evolution of pain-inducing defensive venom components in spitting cobras. Science. 2021 01 22; 371(6527):386-390. Kazandjian TD, Petras D, Robinson SD, van Thiel J, Greene HW, Arbuckle K, Barlow A, Carter DA, Wouters RM, Whiteley G, Wagstaff SC, Arias AS, Albulescu LO, Plettenberg Laing A, Hall C, Heap A, Penrhyn-Lowe S, McCabe CV, Ainsworth S, da Silva RR, Dorrestein PC, Richardson MK, Gutiérrez JM, Calvete JJ, Harrison RA, Vetter I, Undheim EAB, Wüster W, Casewell NR. PMID: 33479150; PMCID: PMC7610493.
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    102. Identifying the effect of vancomycin on health care-associated methicillin-resistant Staphylococcus aureus strains using bacteriological and physiological media. Gigascience. 2021 01 09; 10(1). Rajput A, Poudel S, Tsunemoto H, Meehan M, Szubin R, Olson CA, Seif Y, Lamsa A, Dillon N, Vrbanac A, Sugie J, Dahesh S, Monk JM, Dorrestein PC, Knight R, Pogliano J, Nizet V, Feist AM, Palsson BO. PMID: 33420779; PMCID: PMC7794652.
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    103. A Multi-Omics Characterization of the Natural Product Potential of Tropical Filamentous Marine Cyanobacteria. Mar Drugs. 2021 Jan 06; 19(1). Leão T, Wang M, Moss N, da Silva R, Sanders J, Nurk S, Gurevich A, Humphrey G, Reher R, Zhu Q, Belda-Ferre P, Glukhov E, Whitner S, Alexander KL, Rex R, Pevzner P, Dorrestein PC, Knight R, Bandeira N, Gerwick WH, Gerwick L. PMID: 33418911; PMCID: PMC7825088.
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    104. Effects of Immunization With the Soil-Derived Bacterium Mycobacterium vaccae on Stress Coping Behaviors and Cognitive Performance in a "Two Hit" Stressor Model. Front Physiol. 2020; 11:524833. Foxx CL, Heinze JD, González A, Vargas F, Baratta MV, Elsayed AI, Stewart JR, Loupy KM, Arnold MR, Flux MC, Sago SA, Siebler PH, Milton LN, Lieb MW, Hassell JE, Smith DG, Lee KAK, Appiah SA, Schaefer EJ, Panitchpakdi M, Sikora NC, Weldon KC, Stamper CE, Schmidt D, Duggan DA, Mengesha YM, Ogbaselassie M, Nguyen KT, Gates CA, Schnabel K, Tran L, Jones JD, Vitaterna MH, Turek FW, Fleshner M, Dorrestein PC, Knight R, Wright KP, Lowry CA. PMID: 33469429; PMCID: PMC7813891.
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    105. Reply to: Examining microbe-metabolite correlations by linear methods. Nat Methods. 2021 01; 18(1):40-41. Morton JT, McDonald D, Aksenov AA, Nothias LF, Foulds JR, Quinn RA, Badri MH, Swenson TL, Van Goethem MW, Northen TR, Vazquez-Baeza Y, Wang M, Bokulich NA, Watters A, Song SJ, Bonneau R, Dorrestein PC, Knight R. PMID: 33398188.
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    106. Non-targeted tandem mass spectrometry enables the visualization of organic matter chemotype shifts in coastal seawater. Chemosphere. 2021 May; 271:129450. Petras D, Minich JJ, Cancelada LB, Torres RR, Kunselman E, Wang M, White ME, Allen EE, Prather KA, Aluwihare LI, Dorrestein PC. PMID: 33460888; PMCID: PMC7969459.
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    107. Molecular Networking: A Useful Tool for the Identification of New Psychoactive Substances in Seizures by LC-HRMS. Front Chem. 2020; 8:572952. Vincenti F, Montesano C, Di Ottavio F, Gregori A, Compagnone D, Sergi M, Dorrestein P. PMID: 33324608; PMCID: PMC7723841.
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    108. Systematic classification of unknown metabolites using high-resolution fragmentation mass spectra. Nat Biotechnol. 2021 04; 39(4):462-471. Dührkop K, Nothias LF, Fleischauer M, Reher R, Ludwig M, Hoffmann MA, Petras D, Gerwick WH, Rousu J, Dorrestein PC, Böcker S. PMID: 33230292.
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    109. Multiomics Analysis Provides Insight into the Laboratory Evolution of Escherichia coli toward the Metabolic Usage of Fluorinated Indoles. ACS Cent Sci. 2021 Jan 27; 7(1):81-92. Agostini F, Sinn L, Petras D, Schipp CJ, Kubyshkin V, Berger AA, Dorrestein PC, Rappsilber J, Budisa N, Koksch B. PMID: 33532571; PMCID: PMC7844855.
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    110. A Cutibacterium acnes antibiotic modulates human skin microbiota composition in hair follicles. Sci Transl Med. 2020 11 18; 12(570). Claesen J, Spagnolo JB, Ramos SF, Kurita KL, Byrd AL, Aksenov AA, Melnik AV, Wong WR, Wang S, Hernandez RD, Donia MS, Dorrestein PC, Kong HH, Segre JA, Linington RG, Fischbach MA, Lemon KP. PMID: 33208503; PMCID: PMC8478231.
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    111. Can Statistical Evaluation Tools for Chromatographic Method Development Assist in the Natural Products Workflow? A Case Study on Selected Species of the Plant Family Malpighiaceae. J Nat Prod. 2020 11 25; 83(11):3239-3249. Mannochio-Russo H, Bueno PCP, Bauermeister A, de Almeida RF, Dorrestein PC, Cavalheiro AJ, Bolzani VS. PMID: 33196207.
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    112. Chemically informed analyses of metabolomics mass spectrometry data with Qemistree. Nat Chem Biol. 2021 02; 17(2):146-151. Tripathi A, Vázquez-Baeza Y, Gauglitz JM, Wang M, Dührkop K, Nothias-Esposito M, Acharya DD, Ernst M, van der Hooft JJJ, Zhu Q, McDonald D, Brejnrod AD, Gonzalez A, Handelsman J, Fleischauer M, Ludwig M, Böcker S, Nothias LF, Knight R, Dorrestein PC. PMID: 33199911; PMCID: PMC8189545.
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    113. Studying Charge Migration Fragmentation of Sodiated Precursor Ions in Collision-Induced Dissociation at the Library Scale. J Am Soc Mass Spectrom. 2021 Jan 06; 32(1):180-186. Ludwig M, Broeckling CD, Dorrestein PC, Dührkop K, Schymanski EL, Böcker S, Nothias LF. PMID: 33186010.
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    114. Heterologous Expression of Cryptomaldamide in a Cyanobacterial Host. ACS Synth Biol. 2020 12 18; 9(12):3364-3376. Taton A, Ecker A, Diaz B, Moss NA, Anderson B, Reher R, Leão TF, Simkovsky R, Dorrestein PC, Gerwick L, Gerwick WH, Golden JW. PMID: 33180461; PMCID: PMC8514081.
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    115. Fungal-bacterial interaction selects for quorum sensing mutants with increased production of natural antifungal compounds. Commun Biol. 2020 11 12; 3(1):670. Albarracín Orio AG, Petras D, Tobares RA, Aksenov AA, Wang M, Juncosa F, Sayago P, Moyano AJ, Dorrestein PC, Smania AM. PMID: 33184402; PMCID: PMC7661731.
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    116. Auto-deconvolution and molecular networking of gas chromatography-mass spectrometry data. Nat Biotechnol. 2021 02; 39(2):169-173. Aksenov AA, Laponogov I, Zhang Z, Doran SLF, Belluomo I, Veselkov D, Bittremieux W, Nothias LF, Nothias-Esposito M, Maloney KN, Misra BB, Melnik AV, Smirnov A, Du X, Jones KL, Jones KL, Dorrestein K, Panitchpakdi M, Ernst M, van der Hooft JJJ, Gonzalez M, Carazzone C, Amézquita A, Callewaert C, Morton JT, Quinn RA, Bouslimani A, Orio AA, Petras D, Smania AM, Couvillion SP, Burnet MC, Nicora CD, Zink E, Metz TO, Artaev V, Humston-Fulmer E, Gregor R, Meijler MM, Mizrahi I, Eyal S, Anderson B, Dutton R, Lugan R, Boulch PL, Guitton Y, Prevost S, Poirier A, Dervilly G, Le Bizec B, Fait A, Persi NS, Song C, Gashu K, Coras R, Guma M, Manasson J, Scher JU, Barupal DK, Alseekh S, Fernie AR, Mirnezami R, Vasiliou V, Schmid R, Borisov RS, Kulikova LN, Knight R, Wang M, Hanna GB, Dorrestein PC, Veselkov K. PMID: 33169034; PMCID: PMC7971188.
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    117. Reduced Independence in Daily Living Is Associated with the Gut Microbiome in People with HIV and HCV. mSystems. 2020 Oct 13; 5(5). Taylor BC, Weldon KC, Ellis RJ, Franklin D, McDonald D, Humphrey G, Bryant M, Toronczak J, Schwartz T, Iudicello J, Heaton R, Grant I, Gianella S, Letendre S, Swafford A, Dorrestein PC, Knight R. PMID: 33051377; PMCID: PMC7567581.
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    118. Metabolites from Microbes Isolated from the Skin of the Panamanian Rocket Frog Colostethus panamansis (Anura: Dendrobatidae). Metabolites. 2020 Oct 13; 10(10). Martin H C, Ibáñez R, Nothias LF, Caraballo-Rodríguez AM, Dorrestein PC, Gutiérrez M. PMID: 33065987; PMCID: PMC7601193.
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    119. Evaluating Organism-Wide Changes in the Metabolome and Microbiome following a Single Dose of Antibiotic. mSystems. 2020 Oct 06; 5(5). Vrbanac A, Patras KA, Jarmusch AK, Mills RH, Shing SR, Quinn RA, Vargas F, Gonzalez DJ, Dorrestein PC, Knight R, Nizet V. PMID: 33024048; PMCID: PMC7542558.
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    120. Depression in Individuals Coinfected with HIV and HCV Is Associated with Systematic Differences in the Gut Microbiome and Metabolome. mSystems. 2020 Sep 29; 5(5). Taylor BC, Weldon KC, Ellis RJ, Franklin D, Groth T, Gentry EC, Tripathi A, McDonald D, Humphrey G, Bryant M, Toronczak J, Schwartz T, Oliveira MF, Heaton R, Grant I, Gianella S, Letendre S, Swafford A, Dorrestein PC, Knight R. PMID: 32994287; PMCID: PMC7527136.
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    121. Mortality Risk Profiling of Staphylococcus aureus Bacteremia by Multi-omic Serum Analysis Reveals Early Predictive and Pathogenic Signatures. Cell. 2020 09 03; 182(5):1311-1327.e14. Wozniak JM, Mills RH, Olson J, Caldera JR, Sepich-Poore GD, Carrillo-Terrazas M, Tsai CM, Vargas F, Knight R, Dorrestein PC, Liu GY, Nizet V, Sakoulas G, Rose W, Gonzalez DJ. PMID: 32888495; PMCID: PMC7494005.
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    122. Genome Mining, Microbial Interactions, and Molecular Networking Reveals New Dibromoalterochromides from Strains of Pseudoalteromonas of Coiba National Park-Panama. Mar Drugs. 2020 Sep 03; 18(9). Atencio LA, Boya P CA, Martin H C, Mejía LC, Dorrestein PC, Gutiérrez M. PMID: 32899199; PMCID: PMC7551054.
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    123. Feature-based molecular networking in the GNPS analysis environment. Nat Methods. 2020 09; 17(9):905-908. Nothias LF, Petras D, Schmid R, Dührkop K, Rainer J, Sarvepalli A, Protsyuk I, Ernst M, Tsugawa H, Fleischauer M, Aicheler F, Aksenov AA, Alka O, Allard PM, Barsch A, Cachet X, Caraballo-Rodriguez AM, Da Silva RR, Dang T, Garg N, Gauglitz JM, Gurevich A, Isaac G, Jarmusch AK, Kameník Z, Kang KB, Kessler N, Koester I, Korf A, Le Gouellec A, Ludwig M, Martin H C, McCall LI, McSayles J, Meyer SW, Mohimani H, Morsy M, Moyne O, Neumann S, Neuweger H, Nguyen NH, Nothias-Esposito M, Paolini J, Phelan VV, Pluskal T, Quinn RA, Rogers S, Shrestha B, Tripathi A, van der Hooft JJJ, Vargas F, Weldon KC, Witting M, Yang H, Zhang Z, Zubeil F, Kohlbacher O, Böcker S, Alexandrov T, Bandeira N, Wang M, Dorrestein PC. PMID: 32839597; PMCID: PMC7885687.
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    124. ReDU: a framework to find and reanalyze public mass spectrometry data. Nat Methods. 2020 09; 17(9):901-904. Jarmusch AK, Wang M, Aceves CM, Advani RS, Aguirre S, Aksenov AA, Aleti G, Aron AT, Bauermeister A, Bolleddu S, Bouslimani A, Caraballo Rodriguez AM, Chaar R, Coras R, Elijah EO, Ernst M, Gauglitz JM, Gentry EC, Husband M, Jarmusch SA, Jones KL, Jones KL, Kamenik Z, Le Gouellec A, Lu A, McCall LI, McPhail KL, Meehan MJ, Melnik AV, Menezes RC, Montoya Giraldo YA, Nguyen NH, Nothias LF, Nothias-Esposito M, Panitchpakdi M, Petras D, Quinn RA, Sikora N, van der Hooft JJJ, Vargas F, Vrbanac A, Weldon KC, Knight R, Bandeira N, Dorrestein PC. PMID: 32807955; PMCID: PMC7968862.
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    125. Virulence as a Side Effect of Interspecies Interaction in Vibrio Coral Pathogens. mBio. 2020 07 21; 11(4). Rubio-Portillo E, Martin-Cuadrado AB, Caraballo-Rodríguez AM, Rohwer F, Dorrestein PC, Antón J. PMID: 32694137; PMCID: PMC7374056.
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    126. High-Resolution Longitudinal Dynamics of the Cystic Fibrosis Sputum Microbiome and Metabolome through Antibiotic Therapy. mSystems. 2020 Jun 23; 5(3). Raghuvanshi R, Vasco K, Vázquez-Baeza Y, Jiang L, Morton JT, Li D, Gonzalez A, DeRight Goldasich L, Humphrey G, Ackermann G, Swafford AD, Conrad D, Knight R, Dorrestein PC, Quinn RA. PMID: 32576651; PMCID: PMC7311317.
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    127. Paroxetine Administration Affects Microbiota and Bile Acid Levels in Mice. Front Psychiatry. 2020; 11:518. Dethloff F, Vargas F, Elijah E, Quinn R, Park DI, Herzog DP, Müller MB, Gentry EC, Knight R, Gonzalez A, Dorrestein PC, Turck CW. PMID: 32581888; PMCID: PMC7287167.
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    128. A multiomic analysis of in situ coral-turf algal interactions. Proc Natl Acad Sci U S A. 2020 06 16; 117(24):13588-13595. Roach TNF, Little M, Arts MGI, Huckeba J, Haas AF, George EE, Quinn RA, Cobián-Güemes AG, Naliboff DS, Silveira CB, Vermeij MJA, Kelly LW, Dorrestein PC, Rohwer F. PMID: 32482859; PMCID: PMC7306781.
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    129. Protocol for community-created public MS/MS reference spectra within the Global Natural Products Social Molecular Networking infrastructure. Rapid Commun Mass Spectrom. 2020 May 30; 34(10):e8725. Vargas F, Weldon KC, Sikora N, Wang M, Zhang Z, Gentry EC, Panitchpakdi MW, Caraballo-Rodríguez AM, Dorrestein PC, Jarmusch AK. PMID: 31930757.
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    130. Reproducible molecular networking of untargeted mass spectrometry data using GNPS. Nat Protoc. 2020 06; 15(6):1954-1991. Aron AT, Gentry EC, McPhail KL, Nothias LF, Nothias-Esposito M, Bouslimani A, Petras D, Gauglitz JM, Sikora N, Vargas F, van der Hooft JJJ, Ernst M, Kang KB, Aceves CM, Caraballo-Rodríguez AM, Koester I, Weldon KC, Bertrand S, Roullier C, Sun K, Tehan RM, Boya P CA, Christian MH, Gutiérrez M, Ulloa AM, Tejeda Mora JA, Mojica-Flores R, Lakey-Beitia J, Vásquez-Chaves V, Zhang Y, Calderón AI, Tayler N, Keyzers RA, Tugizimana F, Ndlovu N, Aksenov AA, Jarmusch AK, Schmid R, Truman AW, Bandeira N, Wang M, Dorrestein PC. PMID: 32405051.
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    131. Linking genomics and metabolomics to chart specialized metabolic diversity. Chem Soc Rev. 2020 Jun 07; 49(11):3297-3314. van der Hooft JJJ, Mohimani H, Bauermeister A, Dorrestein PC, Duncan KR, Medema MH. PMID: 32393943.
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    132. A Genomic Toolkit for the Mechanistic Dissection of Intractable Human Gut Bacteria. Cell Host Microbe. 2020 06 10; 27(6):1001-1013.e9. Bisanz JE, Soto-Perez P, Noecker C, Aksenov AA, Lam KN, Kenney GE, Bess EN, Haiser HJ, Kyaw TS, Yu FB, Rekdal VM, Ha CWY, Devkota S, Balskus EP, Dorrestein PC, Allen-Vercoe E, Turnbaugh PJ. PMID: 32348781; PMCID: PMC7292766.
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    133. Enhanced Characterization of Drug Metabolism and the Influence of the Intestinal Microbiome: A Pharmacokinetic, Microbiome, and Untargeted Metabolomics Study. Clin Transl Sci. 2020 09; 13(5):972-984. Jarmusch AK, Vrbanac A, Momper JD, Ma JD, Alhaja M, Liyanage M, Knight R, Dorrestein PC, Tsunoda SM. PMID: 32216086; PMCID: PMC7485946.
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    134. Consumption of Fermented Foods Is Associated with Systematic Differences in the Gut Microbiome and Metabolome. mSystems. 2020 Mar 17; 5(2). Taylor BC, Lejzerowicz F, Poirel M, Shaffer JP, Jiang L, Aksenov A, Litwin N, Humphrey G, Martino C, Miller-Montgomery S, Dorrestein PC, Veiga P, Song SJ, McDonald D, Derrien M, Knight R. PMID: 32184365; PMCID: PMC7380580.
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    135. Interleukin-17 Inhibition in Spondyloarthritis Is Associated With Subclinical Gut Microbiome Perturbations and a Distinctive Interleukin-25-Driven Intestinal Inflammation. Arthritis Rheumatol. 2020 04; 72(4):645-657. Manasson J, Wallach DS, Guggino G, Stapylton M, Badri MH, Solomon G, Reddy SM, Coras R, Aksenov AA, Jones DR, Girija PV, Neimann AL, Heguy A, Segal LN, Dorrestein PC, Bonneau R, Guma M, Ciccia F, Ubeda C, Clemente JC, Scher JU. PMID: 31729183; PMCID: PMC7113119.
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    136. Metabolome-Informed Microbiome Analysis Refines Metadata Classifications and Reveals Unexpected Medication Transfer in Captive Cheetahs. mSystems. 2020 Mar 10; 5(2). Gauglitz JM, Morton JT, Tripathi A, Hansen S, Gaffney M, Carpenter C, Weldon KC, Shah R, Parampil A, Fidgett AL, Swafford AD, Knight R, Dorrestein PC. PMID: 32156796; PMCID: PMC7065514.
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    137. Dietary prebiotics alter novel microbial dependent fecal metabolites that improve sleep. Sci Rep. 2020 03 02; 10(1):3848. Thompson RS, Vargas F, Dorrestein PC, Chichlowski M, Berg BM, Fleshner M. PMID: 32123201; PMCID: PMC7051969.
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    138. Perspective: Dietary Biomarkers of Intake and Exposure-Exploration with Omics Approaches. Adv Nutr. 2020 03 01; 11(2):200-215. Maruvada P, Lampe JW, Wishart DS, Barupal D, Chester DN, Dodd D, Djoumbou-Feunang Y, Dorrestein PC, Dragsted LO, Draper J, Duffy LC, Dwyer JT, Emenaker NJ, Fiehn O, Gerszten RE, B Hu F, Karp RW, Klurfeld DM, Laughlin MR, Little AR, Lynch CJ, Moore SC, Nicastro HL, O'Brien DM, Ordovás JM, Osganian SK, Playdon M, Prentice R, Raftery D, Reisdorph N, Roche HM, Ross SA, Sang S, Scalbert A, Srinivas PR, Zeisel SH. PMID: 31386148; PMCID: PMC7442414.
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    139. Global chemical effects of the microbiome include new bile-acid conjugations. Nature. 2020 03; 579(7797):123-129. Quinn RA, Melnik AV, Vrbanac A, Fu T, Patras KA, Christy MP, Bodai Z, Belda-Ferre P, Tripathi A, Chung LK, Downes M, Welch RD, Quinn M, Humphrey G, Panitchpakdi M, Weldon KC, Aksenov A, da Silva R, Avila-Pacheco J, Clish C, Bae S, Mallick H, Franzosa EA, Lloyd-Price J, Bussell R, Thron T, Nelson AT, Wang M, Leszczynski E, Vargas F, Gauglitz JM, Meehan MJ, Gentry E, Arthur TD, Komor AC, Poulsen O, Boland BS, Chang JT, Sandborn WJ, Lim M, Garg N, Lumeng JC, Xavier RJ, Kazmierczak BI, Jain R, Egan M, Rhee KE, Ferguson D, Raffatellu M, Vlamakis H, Haddad GG, Siegel D, Huttenhower C, Mazmanian SK, Evans RM, Nizet V, Knight R, Dorrestein PC. PMID: 32103176; PMCID: PMC7252668.
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    141. Repeated sleep disruption in mice leads to persistent shifts in the fecal microbiome and metabolome. PLoS One. 2020; 15(2):e0229001. Bowers SJ, Vargas F, González A, He S, Jiang P, Dorrestein PC, Knight R, Wright KP, Lowry CA, Fleshner M, Vitaterna MH, Turek FW. PMID: 32078624; PMCID: PMC7032712.
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    142. Emerging Priorities for Microbiome Research. Front Microbiol. 2020; 11:136. Cullen CM, Aneja KK, Beyhan S, Cho CE, Woloszynek S, Convertino M, McCoy SJ, Zhang Y, Anderson MZ, Alvarez-Ponce D, Smirnova E, Karstens L, Dorrestein PC, Li H, Sen Gupta A, Cheung K, Powers JG, Zhao Z, Rosen GL. PMID: 32140140; PMCID: PMC7042322.
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    144. Cryptic Species Account for the Seemingly Idiosyncratic Secondary Metabolism of Sarcophyton glaucum Specimens Collected in Palau. J Nat Prod. 2020 03 27; 83(3):693-705. Maloney KN, Botts RT, Davis TS, Okada BK, Maloney EM, Leber CA, Alvarado O, Brayton C, Caraballo-Rodríguez AM, Chari JV, Chicoine B, Crompton JC, Davis SR, Gromek SM, Kurnianda V, Quach K, Samples RM, Shieh V, Sultana CM, Tanaka J, Dorrestein PC, Balunas MJ, McFadden CS. PMID: 31971803.
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    145. The emergence of microbiome centres. Nat Microbiol. 2020 01; 5(1):2-3. Martiny JBH, Whiteson KL, Bohannan BJM, David LA, Hynson NA, McFall-Ngai M, Rawls JF, Schmidt TM, Abdo Z, Blaser MJ, Bordenstein S, Bréchot C, Bull CT, Dorrestein P, Eisen JA, Garcia-Pichel F, Gilbert J, Hofmockel KS, Holtz ML, Knight R, Mark Welch DB, McDonald D, Methé B, Mouncey NJ, Mueller NT, Pfister CA, Proctor L, Sachs JL. PMID: 31857734.
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    148. De Novo Peptide Sequencing Reveals Many Cyclopeptides in the Human Gut and Other Environments. Cell Syst. 2020 01 22; 10(1):99-108.e5. Behsaz B, Mohimani H, Gurevich A, Prjibelski A, Fisher M, Vargas F, Smarr L, Dorrestein PC, Mylne JS, Pevzner PA. PMID: 31864964.
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    153. Home chemical and microbial transitions across urbanization. Nat Microbiol. 2020 01; 5(1):108-115. McCall LI, Callewaert C, Zhu Q, Song SJ, Bouslimani A, Minich JJ, Ernst M, Ruiz-Calderon JF, Cavallin H, Pereira HS, Novoselac A, Hernandez J, Rios R, Branch OH, Blaser MJ, Paulino LC, Dorrestein PC, Knight R, Dominguez-Bello MG. PMID: 31686026; PMCID: PMC7895447.
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    154. Optimizing sequencing protocols for leaderboard metagenomics by combining long and short reads. Genome Biol. 2019 10 31; 20(1):226. Sanders JG, Nurk S, Salido RA, Minich J, Xu ZZ, Zhu Q, Martino C, Fedarko M, Arthur TD, Chen F, Boland BS, Humphrey GC, Brennan C, Sanders K, Gaffney J, Jepsen K, Khosroheidari M, Green C, Liyanage M, Dang JW, Phelan VV, Quinn RA, Bankevich A, Chang JT, Rana TM, Conrad DJ, Sandborn WJ, Smarr L, Dorrestein PC, Pevzner PA, Knight R. PMID: 31672156; PMCID: PMC6822431.
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    155. MetaMiner: A Scalable Peptidogenomics Approach for Discovery of Ribosomal Peptide Natural Products with Blind Modifications from Microbial Communities. Cell Syst. 2019 12 18; 9(6):600-608.e4. Cao L, Gurevich A, Alexander KL, Naman CB, Leão T, Glukhov E, Luzzatto-Knaan T, Vargas F, Quinn R, Bouslimani A, Nothias LF, Singh NK, Sanders JG, Benitez RAS, Thompson LR, Hamid MN, Morton JT, Mikheenko A, Shlemov A, Korobeynikov A, Friedberg I, Knight R, Venkateswaran K, Gerwick WH, Gerwick L, Dorrestein PC, Pevzner PA, Mohimani H. PMID: 31629686; PMCID: PMC6952069.
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    156. Molecular and Microbial Microenvironments in Chronically Diseased Lungs Associated with Cystic Fibrosis. mSystems. 2019 Sep 24; 4(5). Melnik AV, Vázquez-Baeza Y, Aksenov AA, Hyde E, McAvoy AC, Wang M, da Silva RR, Protsyuk I, Wu JV, Bouslimani A, Lim YW, Luzzatto-Knaan T, Comstock W, Quinn RA, Wong R, Humphrey G, Ackermann G, Spivey T, Brouha SS, Bandeira N, Lin GY, Rohwer F, Conrad DJ, Alexandrov T, Knight R, Dorrestein PC, Garg N. PMID: 31551401; PMCID: PMC6759567.
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    158. Cytotoxic Microcolin Lipopeptides from the Marine Cyanobacterium Moorea producens. J Nat Prod. 2019 09 27; 82(9):2608-2619. Yu HB, Glukhov E, Li Y, Iwasaki A, Gerwick L, Dorrestein PC, Jiao BH, Gerwick WH. PMID: 31468974.
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    160. Trait-like vulnerability of higher-order cognition and ability to maintain wakefulness during combined sleep restriction and circadian misalignment. Sleep. 2019 08 01; 42(8). Sprecher KE, Ritchie HK, Burke TM, Depner CM, Smits AN, Dorrestein PC, Fleshner M, Knight R, Lowry CA, Turek FW, Vitaterna MH, Wright KP. PMID: 31070769; PMCID: PMC6941712.
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    161. Untargeted mass spectrometry-based metabolomics approach unveils molecular changes in raw and processed foods and beverages. Food Chem. 2020 Jan 01; 302:125290. Gauglitz JM, Aceves CM, Aksenov AA, Aleti G, Almaliti J, Bouslimani A, Brown EA, Campeau A, Caraballo-Rodríguez AM, Chaar R, da Silva RR, Demko AM, Di Ottavio F, Elijah E, Ernst M, Ferguson LP, Holmes X, Jarmusch AK, Jiang L, Kang KB, Koester I, Kwan B, Li J, Li Y, Melnik AV, Molina-Santiago C, Ni B, Oom AL, Panitchpakdi MW, Petras D, Quinn R, Sikora N, Spengler K, Teke B, Tripathi A, Ul-Hasan S, van der Hooft JJJ, Vargas F, Vrbanac A, Vu AQ, Wang SC, Weldon K, Wilson K, Wozniak JM, Yoon M, Bandeira N, Dorrestein PC. PMID: 31404873.
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    162. MolNetEnhancer: Enhanced Molecular Networks by Integrating Metabolome Mining and Annotation Tools. Metabolites. 2019 Jul 16; 9(7). Ernst M, Kang KB, Caraballo-Rodríguez AM, Nothias LF, Wandy J, Chen C, Wang M, Rogers S, Medema MH, Dorrestein PC, van der Hooft JJJ. PMID: 31315242; PMCID: PMC6680503.
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    164. The impact of skin care products on skin chemistry and microbiome dynamics. BMC Biol. 2019 06 12; 17(1):47. Bouslimani A, da Silva R, Kosciolek T, Janssen S, Callewaert C, Amir A, Dorrestein K, Melnik AV, Zaramela LS, Kim JN, Humphrey G, Schwartz T, Sanders K, Brennan C, Luzzatto-Knaan T, Ackermann G, McDonald D, Zengler K, Knight R, Dorrestein PC. PMID: 31189482; PMCID: PMC6560912.
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    165. Initial Development toward Non-Invasive Drug Monitoring via Untargeted Mass Spectrometric Analysis of Human Skin. Anal Chem. 2019 07 02; 91(13):8062-8069. Jarmusch AK, Elijah EO, Vargas F, Bouslimani A, da Silva RR, Ernst M, Wang M, Del Rosario KK, Dorrestein PC, Tsunoda SM. PMID: 31074958.
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    166. Investigation of Premyrsinane and Myrsinane Esters in Euphorbia cupanii and Euphobia pithyusa with MS2LDA and Combinatorial Molecular Network Annotation Propagation. J Nat Prod. 2019 06 28; 82(6):1459-1470. Nothias-Esposito M, Nothias LF, Da Silva RR, Retailleau P, Zhang Z, Leyssen P, Roussi F, Touboul D, Paolini J, Dorrestein PC, Litaudon M. PMID: 31181921.
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    167. Early-Career Scientists Shaping the World. mSystems. 2019 May 07; 4(3). Cristea IM, Dorrestein PC, Eisen JA, Gilbert JA, Huber JA, Jansson JK, Knight R, Pollard KS, Raes J, Silver PA, Webster NS, Xu J. PMID: 31219787; PMCID: PMC6533378.
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    168. Consent insufficient for data release-Response. Science. 2019 05 03; 364(6439):446. Amann RI, Baichoo S, Blencowe BJ, Bork P, Borodovsky M, Brooksbank C, Chain PSG, Colwell RR, Daffonchio DG, Danchin A, de Lorenzo V, Dorrestein PC, Finn RD, Fraser CM, Gilbert JA, Hallam SJ, Hugenholtz P, Ioannidis JPA, Jansson JK, Kim JF, Klenk HP, Klotz MG, Knight R, Konstantinidis KT, Kyrpides NC, Mason CE, McHardy AC, Meyer F, Ouzounis CA, Patrinos AAN, Podar M, Pollard KS, Ravel J, Muñoz AR, Roberts RJ, Rosselló-Móra R, Sansone SA, Schloss PD, Schriml LM, Setubal JC, Sorek R, Stevens RL, Tiedje JM, Turjanski A, Tyson GW, Ussery DW, Weinstock GM, White O, Whitman WB, Xenarios I. PMID: 31048484.
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    171. The extracellular matrix protects Bacillus subtilis colonies from Pseudomonas invasion and modulates plant co-colonization. Nat Commun. 2019 04 23; 10(1):1919. Molina-Santiago C, Pearson JR, Navarro Y, Berlanga-Clavero MV, Caraballo-Rodriguez AM, Petras D, García-Martín ML, Lamon G, Haberstein B, Cazorla FM, de Vicente A, Loquet A, Dorrestein PC, Romero D. PMID: 31015472; PMCID: PMC6478825.
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    172. Identification of the Bacterial Biosynthetic Gene Clusters of the Oral Microbiome Illuminates the Unexplored Social Language of Bacteria during Health and Disease. mBio. 2019 04 16; 10(2). Aleti G, Baker JL, Tang X, Alvarez R, Dinis M, Tran NC, Melnik AV, Zhong C, Ernst M, Dorrestein PC, Edlund A. PMID: 30992349; PMCID: PMC6469967.
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    173. Cystic Fibrosis Rapid Response: Translating Multi-omics Data into Clinically Relevant Information. mBio. 2019 04 16; 10(2). Cobián Güemes AG, Lim YW, Quinn RA, Conrad DJ, Benler S, Maughan H, Edwards R, Brettin T, Cantú VA, Cuevas D, Hamidi R, Dorrestein P, Rohwer F. PMID: 30992350; PMCID: PMC6469968.
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    178. Heavy metal exposure causes changes in the metabolic health-associated gut microbiome and metabolites. Environ Int. 2019 05; 126:454-467. Li X, Brejnrod AD, Ernst M, Rykær M, Herschend J, Olsen NMC, Dorrestein PC, Rensing C, Sørensen SJ. PMID: 30844581.
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    179. Viscosin-like lipopeptides from frog skin bacteria inhibit Aspergillus fumigatus and Batrachochytrium dendrobatidis detected by imaging mass spectrometry and molecular networking. Sci Rep. 2019 02 28; 9(1):3019. Martin H C, Ibáñez R, Nothias LF, Boya P CA, Reinert LK, Rollins-Smith LA, Dorrestein PC, Gutiérrez M. PMID: 30816229; PMCID: PMC6395710.
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    180. Mass Spectrometry Uncovers the Role of Surfactin as an Interspecies Recruitment Factor. ACS Chem Biol. 2019 03 15; 14(3):459-467. Luzzatto-Knaan T, Melnik AV, Dorrestein PC. PMID: 30763059.
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    181. Neutrophilic proteolysis in the cystic fibrosis lung correlates with a pathogenic microbiome. Microbiome. 2019 02 13; 7(1):23. Quinn RA, Adem S, Mills RH, Comstock W, DeRight Goldasich L, Humphrey G, Aksenov AA, Melnik AV, da Silva R, Ackermann G, Bandeira N, Gonzalez DJ, Conrad D, O'Donoghue AJ, Knight R, Dorrestein PC. PMID: 30760325; PMCID: PMC6375204.
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    182. Lugdunomycin, an Angucycline-Derived Molecule with Unprecedented Chemical Architecture. Angew Chem Int Ed Engl. 2019 02 25; 58(9):2809-2814. Wu C, van der Heul HU, Melnik AV, Lübben J, Dorrestein PC, Minnaard AJ, Choi YH, van Wezel GP. PMID: 30656821; PMCID: PMC6519343.
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    183. Toward unrestricted use of public genomic data. Science. 2019 01 25; 363(6425):350-352. Amann RI, Baichoo S, Blencowe BJ, Bork P, Borodovsky M, Brooksbank C, Chain PSG, Colwell RR, Daffonchio DG, Danchin A, de Lorenzo V, Dorrestein PC, Finn RD, Fraser CM, Gilbert JA, Hallam SJ, Hugenholtz P, Ioannidis JPA, Jansson JK, Kim JF, Klenk HP, Klotz MG, Knight R, Konstantinidis KT, Kyrpides NC, Mason CE, McHardy AC, Meyer F, Ouzounis CA, Patrinos AAN, Podar M, Pollard KS, Ravel J, Muñoz AR, Roberts RJ, Rosselló-Móra R, Sansone SA, Schloss PD, Schriml LM, Setubal JC, Sorek R, Stevens RL, Tiedje JM, Turjanski A, Tyson GW, Ussery DW, Weinstock GM, White O, Whitman WB, Xenarios I. PMID: 30679363.
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    184. The Microbiome and Its Potential for Pharmacology. Handb Exp Pharmacol. 2019; 260:301-326. Chavira A, Belda-Ferre P, Kosciolek T, Ali F, Dorrestein PC, Knight R. PMID: 31820171.
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    185. Dereplication of microbial metabolites through database search of mass spectra. Nat Commun. 2018 10 02; 9(1):4035. Mohimani H, Gurevich A, Shlemov A, Mikheenko A, Korobeynikov A, Cao L, Shcherbin E, Nothias LF, Dorrestein PC, Pevzner PA. PMID: 30279420; PMCID: PMC6168521.
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    186. Qiita: rapid, web-enabled microbiome meta-analysis. Nat Methods. 2018 10; 15(10):796-798. Gonzalez A, Navas-Molina JA, Kosciolek T, McDonald D, Vázquez-Baeza Y, Ackermann G, DeReus J, Janssen S, Swafford AD, Orchanian SB, Sanders JG, Shorenstein J, Holste H, Petrus S, Robbins-Pianka A, Brislawn CJ, Wang M, Rideout JR, Bolyen E, Dillon M, Caporaso JG, Dorrestein PC, Knight R. PMID: 30275573; PMCID: PMC6235622.
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    187. Computational Removal of Undesired Mass Spectral Features Possessing Repeat Units via a Kendrick Mass Filter. J Am Soc Mass Spectrom. 2019 Feb; 30(2):268-277. da Silva RR, Vargas F, Ernst M, Nguyen NH, Bolleddu S, Del Rosario KK, Tsunoda SM, Dorrestein PC, Jarmusch AK. PMID: 30267361; PMCID: PMC6347485.
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    188. Niche partitioning of a pathogenic microbiome driven by chemical gradients. Sci Adv. 2018 09; 4(9):eaau1908. Quinn RA, Comstock W, Zhang T, Morton JT, da Silva R, Tran A, Aksenov A, Nothias LF, Wangpraseurt D, Melnik AV, Ackermann G, Conrad D, Klapper I, Knight R, Dorrestein PC. PMID: 30263961; PMCID: PMC6157970.
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    189. Microbiome 101: Studying, Analyzing, and Interpreting Gut Microbiome Data for Clinicians. Clin Gastroenterol Hepatol. 2019 01; 17(2):218-230. Allaband C, McDonald D, Vázquez-Baeza Y, Minich JJ, Tripathi A, Brenner DA, Loomba R, Smarr L, Sandborn WJ, Schnabl B, Dorrestein P, Zarrinpar A, Knight R. PMID: 30240894; PMCID: PMC6391518.
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    190. Author Correction: Inflammation-induced IgA+ cells dismantle anti-liver cancer immunity. Nature. 2018 09; 561(7721):E1. Shalapour S, Lin XJ, Bastian IN, Brain J, Burt AD, Aksenov AA, Vrbanac AF, Li W, Perkins A, Matsutani T, Zhong Z, Dhar D, Navas-Molina JA, Xu J, Loomba R, Downes M, Yu RT, Evans RM, Dorrestein PC, Knight R, Benner C, Anstee QM, Karin M. PMID: 29973714; PMCID: PMC7871211.
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    191. Pumilacidins from the Octocoral-Associated Bacillus sp. DT001 Display Anti-Proliferative Effects in Plasmodium falciparum. Molecules. 2018 Aug 29; 23(9). Torres-Mendoza D, Coronado LM, Pineda LM, Guzmán HM, Dorrestein PC, Spadafora C, Gutiérrez M. PMID: 30158478; PMCID: PMC6225264.
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    192. Before platelets: the production of platelet-activating factor during growth and stress in a basal marine organism. Proc Biol Sci. 2018 08 15; 285(1884). Galtier d'Auriac I, Quinn RA, Maughan H, Nothias LF, Little M, Kapono CA, Cobian A, Reyes BT, Green K, Quistad SD, Leray M, Smith JE, Dorrestein PC, Rohwer F, Deheyn DD, Hartmann AC. PMID: 30111600; PMCID: PMC6111180.
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    193. Targeted Isolation of Neuroprotective Dicoumaroyl Neolignans and Lignans from Sageretia theezans Using in Silico Molecular Network Annotation Propagation-Based Dereplication. J Nat Prod. 2018 08 24; 81(8):1819-1828. Kang KB, Park EJ, da Silva RR, Kim HW, Dorrestein PC, Sung SH. PMID: 30106290.
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    194. Are microbiome studies ready for hypothesis-driven research? Curr Opin Microbiol. 2018 08; 44:61-69. Tripathi A, Marotz C, Gonzalez A, Vázquez-Baeza Y, Song SJ, Bouslimani A, McDonald D, Zhu Q, Sanders JG, Smarr L, Dorrestein PC, Knight R. PMID: 30059804; PMCID: PMC6153026.
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    195. Best practices for analysing microbiomes. Nat Rev Microbiol. 2018 07; 16(7):410-422. Knight R, Vrbanac A, Taylor BC, Aksenov A, Callewaert C, Debelius J, Gonzalez A, Kosciolek T, McCall LI, McDonald D, Melnik AV, Morton JT, Navas J, Quinn RA, Sanders JG, Swafford AD, Thompson LR, Tripathi A, Xu ZZ, Zaneveld JR, Zhu Q, Caporaso JG, Dorrestein PC. PMID: 29795328.
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    196. The role of inter-species interactions in Salinispora specialized metabolism. Microbiology (Reading). 2018 07; 164(7):946-955. Patin NV, Floros DJ, Hughes CC, Dorrestein PC, Jensen PR. PMID: 29877785; PMCID: PMC6152374.
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    197. Intermittent Hypoxia and Hypercapnia, a Hallmark of Obstructive Sleep Apnea, Alters the Gut Microbiome and Metabolome. mSystems. 2018 May-Jun; 3(3). Tripathi A, Melnik AV, Xue J, Poulsen O, Meehan MJ, Humphrey G, Jiang L, Ackermann G, McDonald D, Zhou D, Knight R, Dorrestein PC, Haddad GG. PMID: 29896566; PMCID: PMC5989129.
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    198. American Gut: an Open Platform for Citizen Science Microbiome Research. mSystems. 2018 May-Jun; 3(3). McDonald D, Hyde E, Debelius JW, Morton JT, Gonzalez A, Ackermann G, Aksenov AA, Behsaz B, Brennan C, Chen Y, DeRight Goldasich L, Dorrestein PC, Dunn RR, Fahimipour AK, Gaffney J, Gilbert JA, Gogul G, Green JL, Hugenholtz P, Humphrey G, Huttenhower C, Jackson MA, Janssen S, Jeste DV, Jiang L, Kelley ST, Knights D, Kosciolek T, Ladau J, Leach J, Marotz C, Meleshko D, Melnik AV, Metcalf JL, Mohimani H, Montassier E, Navas-Molina J, Nguyen TT, Peddada S, Pevzner P, Pollard KS, Rahnavard G, Robbins-Pianka A, Sangwan N, Shorenstein J, Smarr L, Song SJ, Spector T, Swafford AD, Thackray VG, Thompson LR, Tripathi A, Vázquez-Baeza Y, Vrbanac A, Wischmeyer P, Wolfe E, Zhu Q, American Gut Consortium , Knight R. PMID: 29795809; PMCID: PMC5954204.
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    199. Propagating annotations of molecular networks using in silico fragmentation. PLoS Comput Biol. 2018 04; 14(4):e1006089. da Silva RR, Wang M, Nothias LF, van der Hooft JJJ, Caraballo-Rodríguez AM, Fox E, Balunas MJ, Klassen JL, Lopes NP, Dorrestein PC. PMID: 29668671; PMCID: PMC5927460.
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    200. Experimental Chagas disease-induced perturbations of the fecal microbiome and metabolome. PLoS Negl Trop Dis. 2018 03; 12(3):e0006344. McCall LI, Tripathi A, Vargas F, Knight R, Dorrestein PC, Siqueira-Neto JL. PMID: 29529084; PMCID: PMC5864088.
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    201. Chemical signaling at the eukaryotic/prokaryotic interface. Chem Soc Rev. 2018 03 05; 47(5):1572-1573. Dorrestein PC, Balskus EP. PMID: 29479607.
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    202. Bioactivity-Based Molecular Networking for the Discovery of Drug Leads in Natural Product Bioassay-Guided Fractionation. J Nat Prod. 2018 04 27; 81(4):758-767. Nothias LF, Nothias-Esposito M, da Silva R, Wang M, Protsyuk I, Zhang Z, Sarvepalli A, Leyssen P, Touboul D, Costa J, Paolini J, Alexandrov T, Litaudon M, Dorrestein PC. PMID: 29498278.
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    203. Creating a 3D microbial and chemical snapshot of a human habitat. Sci Rep. 2018 02 27; 8(1):3669. Kapono CA, Morton JT, Bouslimani A, Melnik AV, Orlinsky K, Knaan TL, Garg N, Vázquez-Baeza Y, Protsyuk I, Janssen S, Zhu Q, Alexandrov T, Smarr L, Knight R, Dorrestein PC. PMID: 29487294; PMCID: PMC5829137.
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    204. Tundrenone: An Atypical Secondary Metabolite from Bacteria with Highly Restricted Primary Metabolism. J Am Chem Soc. 2018 02 14; 140(6):2002-2006. Puri AW, Mevers E, Ramadhar TR, Petras D, Liu D, Piel J, Dorrestein PC, Greenberg EP, Lidstrom ME, Clardy J. PMID: 29361220; PMCID: PMC5817624.
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    205. Transcriptomics-guided bottom-up and top-down venomics of neonate and adult specimens of the arboreal rear-fanged Brown Treesnake, Boiga irregularis, from Guam. J Proteomics. 2018 03 01; 174:71-84. Pla D, Petras D, Saviola AJ, Modahl CM, Sanz L, Pérez A, Juárez E, Frietze S, Dorrestein PC, Mackessy SP, Calvete JJ. PMID: 29292096.
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    206. Homospermidine Lipids: A Compound Class Specifically Formed during Fruiting Body Formation of Myxococcus xanthus DK1622. ACS Chem Biol. 2018 01 19; 13(1):273-280. Hoffmann M, Auerbach D, Panter F, Hoffmann T, Dorrestein PC, Müller R. PMID: 29185703.
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    207. 3D molecular cartography using LC-MS facilitated by Optimus and 'ili software. Nat Protoc. 2018 Jan; 13(1):134-154. Protsyuk I, Melnik AV, Nothias LF, Rappez L, Phapale P, Aksenov AA, Bouslimani A, Ryazanov S, Dorrestein PC, Alexandrov T. PMID: 29266099.
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    208. Erratum: Inflammation-induced IgA+ cells dismantle anti-liver cancer immunity. Nature. 2017 12 21; 552(7685):430. Shalapour S, Lin XJ, Bastian IN, Brain J, Burt AD, Aksenov AA, Vrbanac AF, Li W, Perkins A, Matsutani T, Zhong Z, Dhar D, Navas-Molina JA, Xu J, Loomba R, Downes M, Yu RT, Evans RM, Dorrestein PC, Knight R, Benner C, Anstee QM, Karin M. PMID: 29168501; PMCID: PMC8594569.
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    209. Significance estimation for large scale metabolomics annotations by spectral matching. Nat Commun. 2017 11 14; 8(1):1494. Scheubert K, Hufsky F, Petras D, Wang M, Nothias LF, Dührkop K, Bandeira N, Dorrestein PC, Böcker S. PMID: 29133785; PMCID: PMC5684233.
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    210. Inflammation-induced IgA+ cells dismantle anti-liver cancer immunity. Nature. 2017 11 16; 551(7680):340-345. Shalapour S, Lin XJ, Bastian IN, Brain J, Burt AD, Aksenov AA, Vrbanac AF, Li W, Perkins A, Matsutani T, Zhong Z, Dhar D, Navas-Molina JA, Xu J, Loomba R, Downes M, Yu RT, Evans RM, Dorrestein PC, Knight R, Benner C, Anstee QM, Karin M. PMID: 29144460; PMCID: PMC5884449.
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    211. Intermittent Hypoxia and Hypercapnia Accelerate Atherosclerosis, Partially via Trimethylamine-Oxide. Am J Respir Cell Mol Biol. 2017 11; 57(5):581-588. Xue J, Zhou D, Poulsen O, Imamura T, Hsiao YH, Smith TH, Malhotra A, Dorrestein P, Knight R, Haddad GG. PMID: 28678519; PMCID: PMC5705907.
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    212. Three-Dimensional Microbiome and Metabolome Cartography of a Diseased Human Lung. Cell Host Microbe. 2017 Nov 08; 22(5):705-716.e4. Garg N, Wang M, Hyde E, da Silva RR, Melnik AV, Protsyuk I, Bouslimani A, Lim YW, Wong R, Humphrey G, Ackermann G, Spivey T, Brouha SS, Bandeira N, Lin GY, Rohwer F, Conrad DJ, Alexandrov T, Knight R, Dorrestein PC. PMID: 29056429; PMCID: PMC6267898.
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    213. Meta-mass shift chemical profiling of metabolomes from coral reefs. Proc Natl Acad Sci U S A. 2017 10 31; 114(44):11685-11690. Hartmann AC, Petras D, Quinn RA, Protsyuk I, Archer FI, Ransome E, Williams GJ, Bailey BA, Vermeij MJA, Alexandrov T, Dorrestein PC, Rohwer FL. PMID: 29078340; PMCID: PMC5676912.
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    214. Total Synthesis and Biological Assessment of Novel Albicidins Discovered by Mass Spectrometric Networking. Chemistry. 2017 Nov 02; 23(61):15316-15321. von Eckardstein L, Petras D, Dang T, Cociancich S, Sabri S, Grätz S, Kerwat D, Seidel M, Pesic A, Dorrestein PC, Royer M, Weston JB, Süssmuth RD. PMID: 28876492.
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    215. Impacts of the Human Gut Microbiome on Therapeutics. Annu Rev Pharmacol Toxicol. 2018 01 06; 58:253-270. Vázquez-Baeza Y, Callewaert C, Debelius J, Hyde E, Marotz C, Morton JT, Swafford A, Vrbanac A, Dorrestein PC, Knight R. PMID: 28968189.
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    216. Mass Spectrometry-Based Chemical Cartography of a Cardiac Parasitic Infection. Anal Chem. 2017 10 03; 89(19):10414-10421. McCall LI, Morton JT, Bernatchez JA, de Siqueira-Neto JL, Knight R, Dorrestein PC, McKerrow JH. PMID: 28892370; PMCID: PMC6298790.
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    217. Environmentally Friendly Procedure Based on Supercritical Fluid Chromatography and Tandem Mass Spectrometry Molecular Networking for the Discovery of Potent Antiviral Compounds from Euphorbia semiperfoliata. J Nat Prod. 2017 10 27; 80(10):2620-2629. Nothias LF, Boutet-Mercey S, Cachet X, De La Torre E, Laboureur L, Gallard JF, Retailleau P, Brunelle A, Dorrestein PC, Costa J, Bedoya LM, Roussi F, Leyssen P, Alcami J, Paolini J, Litaudon M, Touboul D. PMID: 28925702.
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    218. The medical threat of mamba envenoming in sub-Saharan Africa revealed by genus-wide analysis of venom composition, toxicity and antivenomics profiling of available antivenoms. J Proteomics. 2018 02 10; 172:173-189. Ainsworth S, Petras D, Engmark M, Süssmuth RD, Whiteley G, Albulescu LO, Kazandjian TD, Wagstaff SC, Rowley P, Wüster W, Dorrestein PC, Arias AS, Gutiérrez JM, Harrison RA, Casewell NR, Calvete JJ. PMID: 28843532.
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    219. Discovery and Synthesis of Caracolamide A, an Ion Channel Modulating Dichlorovinylidene Containing Phenethylamide from a Panamanian Marine Cyanobacterium cf. Symploca Species. J Nat Prod. 2017 08 25; 80(8):2328-2334. Naman CB, Almaliti J, Armstrong L, Caro-Díaz EJ, Pierce ML, Glukhov E, Fenner A, Spadafora C, Debonsi HM, Dorrestein PC, Murray TF, Gerwick WH. PMID: 28783331.
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    220. Top-Down Atmospheric Ionization Mass Spectrometry Microscopy Combined With Proteogenomics. Anal Chem. 2017 08 15; 89(16):8251-8258. Hsu CC, Baker MW, Gaasterland T, Meehan MJ, Macagno ER, Dorrestein PC. PMID: 28692290.
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    221. Metabolic Fingerprints from the Human Oral Microbiome Reveal a Vast Knowledge Gap of Secreted Small Peptidic Molecules. mSystems. 2017 Jul-Aug; 2(4). Edlund A, Garg N, Mohimani H, Gurevich A, He X, Shi W, Dorrestein PC, McLean JS. PMID: 28761934; PMCID: PMC5516222.
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    222. Imaging mass spectrometry and MS/MS molecular networking reveals chemical interactions among cuticular bacteria and pathogenic fungi associated with fungus-growing ants. Sci Rep. 2017 07 17; 7(1):5604. Boya P CA, Fernández-Marín H, Mejía LC, Spadafora C, Dorrestein PC, Gutiérrez M. PMID: 28717220; PMCID: PMC5514151.
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    223. Molecular inter-kingdom interactions of endophytes isolated from Lychnophora ericoides. Sci Rep. 2017 07 14; 7(1):5373. Caraballo-Rodríguez AM, Dorrestein PC, Pupo MT. PMID: 28710400; PMCID: PMC5511137.
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    224. Coupling Targeted and Untargeted Mass Spectrometry for Metabolome-Microbiome-Wide Association Studies of Human Fecal Samples. Anal Chem. 2017 07 18; 89(14):7549-7559. Melnik AV, da Silva RR, Hyde ER, Aksenov AA, Vargas F, Bouslimani A, Protsyuk I, Jarmusch AK, Tripathi A, Alexandrov T, Knight R, Dorrestein PC. PMID: 28628333.
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    225. Multi-omics Analysis of Periodontal Pocket Microbial Communities Pre- and Posttreatment. mSystems. 2017 May-Jun; 2(3). Califf KJ, Schwarzberg-Lipson K, Garg N, Gibbons SM, Caporaso JG, Slots J, Cohen C, Dorrestein PC, Kelley ST. PMID: 28744486; PMCID: PMC5513737.
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    226. Digitizing mass spectrometry data to explore the chemical diversity and distribution of marine cyanobacteria and algae. Elife. 2017 05 11; 6. Luzzatto-Knaan T, Garg N, Wang M, Glukhov E, Peng Y, Ackermann G, Amir A, Duggan BM, Ryazanov S, Gerwick L, Knight R, Alexandrov T, Bandeira N, Gerwick WH, Dorrestein PC. PMID: 28492366; PMCID: PMC5441867.
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    227. An Elegan(t) Screen for Drug-Microbe Interactions. Cell Host Microbe. 2017 May 10; 21(5):555-556. Vrbanac A, Debelius JW, Jiang L, Morton JT, Dorrestein P, Knight R. PMID: 28494234.
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    228. The WinCF Model - An Inexpensive and Tractable Microcosm of a Mucus Plugged Bronchiole to Study the Microbiology of Lung Infections. J Vis Exp. 2017 05 08; (123). Comstock WJ, Huh E, Weekes R, Watson C, Xu T, Dorrestein PC, Quinn RA. PMID: 28518116.
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    229. A Maldiisotopic Approach to Discover Natural Products: Cryptomaldamide, a Hybrid Tripeptide from the Marine Cyanobacterium Moorea producens. J Nat Prod. 2017 05 26; 80(5):1514-1521. Kinnel RB, Esquenazi E, Leao T, Moss N, Mevers E, Pereira AR, Monroe EA, Korobeynikov A, Murray TF, Sherman D, Gerwick L, Dorrestein PC, Gerwick WH. PMID: 28448144; PMCID: PMC5748289.
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    230. Expanding the Chemical Repertoire of the Endophyte Streptomyces albospinus RLe7 Reveals Amphotericin B as an Inducer of a Fungal Phenotype. J Nat Prod. 2017 05 26; 80(5):1302-1309. Chagas FO, Caraballo-Rodríguez AM, Dorrestein PC, Pupo MT. PMID: 28375005.
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    231. Microbiome Tools for Forensic Science. Trends Biotechnol. 2017 09; 35(9):814-823. Metcalf JL, Xu ZZ, Bouslimani A, Dorrestein P, Carter DO, Knight R. PMID: 28366290.
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    232. Mass Spectrometry Based Molecular 3D-Cartography of Plant Metabolites. Front Plant Sci. 2017; 8:429. Floros DJ, Petras D, Kapono CA, Melnik AV, Ling TJ, Knight R, Dorrestein PC. PMID: 28405197; PMCID: PMC5370242.
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    233. Antimicrobials from human skin commensal bacteria protect against Staphylococcus aureus and are deficient in atopic dermatitis. Sci Transl Med. 2017 02 22; 9(378). Nakatsuji T, Chen TH, Narala S, Chun KA, Two AM, Yun T, Shafiq F, Kotol PF, Bouslimani A, Melnik AV, Latif H, Kim JN, Lockhart A, Artis K, David G, Taylor P, Streib J, Dorrestein PC, Grier A, Gill SR, Zengler K, Hata TR, Leung DY, Gallo RL. PMID: 28228596; PMCID: PMC5600545.
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    234. Erratum: Indexing the Pseudomonas specialized metabolome enabled the discovery of poaeamide B and the bananamides. Nat Microbiol. 2017 Jan 23; 2:17010. Nguyen DD, Melnik AV, Koyama N, Lu X, Schorn M, Fang J, Aguinaldo K, Lincecum TL, Ghequire MG, Carrion VJ, Cheng TL, Duggan BM, Malone JG, Mauchline TH, Sanchez LM, Kilpatrick AM, Raaijmakers JM, De Mot R, Moore BS, Medema MH, Dorrestein PC. PMID: 28112718.
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    235. Balance Trees Reveal Microbial Niche Differentiation. mSystems. 2017 Jan-Feb; 2(1). Morton JT, Sanders J, Quinn RA, McDonald D, Gonzalez A, Vázquez-Baeza Y, Navas-Molina JA, Song SJ, Metcalf JL, Hyde ER, Lladser M, Dorrestein PC, Knight R. PMID: 28144630; PMCID: PMC5264246.
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    236. From single cells to our planet-recent advances in using mass spectrometry for spatially resolved metabolomics. Curr Opin Chem Biol. 2017 02; 36:24-31. Petras D, Jarmusch AK, Dorrestein PC. PMID: 28086192.
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    237. Integrating Molecular Networking and Biological Assays To Target the Isolation of a Cytotoxic Cyclic Octapeptide, Samoamide A, from an American Samoan Marine Cyanobacterium. J Nat Prod. 2017 03 24; 80(3):625-633. Naman CB, Rattan R, Nikoulina SE, Lee J, Miller BW, Moss NA, Armstrong L, Boudreau PD, Debonsi HM, Valeriote FA, Dorrestein PC, Gerwick WH. PMID: 28055219; PMCID: PMC5758054.
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    238. Spatial Molecular Architecture of the Microbial Community of a Peltigera Lichen. mSystems. 2016 Nov-Dec; 1(6). Garg N, Zeng Y, Edlund A, Melnik AV, Sanchez LM, Mohimani H, Gurevich A, Miao V, Schiffler S, Lim YW, Luzzatto-Knaan T, Cai S, Rohwer F, Pevzner PA, Cichewicz RH, Alexandrov T, Dorrestein PC. PMID: 28028548; PMCID: PMC5183598.
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    239. Antibiotic discovery is a walk in the park. Proc Natl Acad Sci U S A. 2016 12 20; 113(51):14477-14479. Nothias LF, Knight R, Dorrestein PC. PMID: 27940910; PMCID: PMC5187748.
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    240. Natural products as mediators of disease. Nat Prod Rep. 2017 Feb 01; 34(2):194-219. Garg N, Luzzatto-Knaan T, Melnik AV, Caraballo-Rodríguez AM, Floros DJ, Petras D, Gregor R, Dorrestein PC, Phelan VV. PMID: 27874907; PMCID: PMC5299058.
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    241. Lifestyle chemistries from phones for individual profiling. Proc Natl Acad Sci U S A. 2016 11 29; 113(48):E7645-E7654. Bouslimani A, Melnik AV, Xu Z, Amir A, da Silva RR, Wang M, Bandeira N, Alexandrov T, Knight R, Dorrestein PC. PMID: 27849584; PMCID: PMC5137711.
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    242. Prioritizing Natural Product Diversity in a Collection of 146 Bacterial Strains Based on Growth and Extraction Protocols. J Nat Prod. 2017 03 24; 80(3):588-597. Crüsemann M, O'Neill EC, Larson CB, Melnik AV, Floros DJ, da Silva RR, Jensen PR, Dorrestein PC, Moore BS. PMID: 28335604; PMCID: PMC5367486.
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    243. Molecular Networking As a Drug Discovery, Drug Metabolism, and Precision Medicine Strategy. Trends Pharmacol Sci. 2017 02; 38(2):143-154. Quinn RA, Nothias LF, Vining O, Meehan M, Esquenazi E, Dorrestein PC. PMID: 27842887.
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    244. SPLASH, a hashed identifier for mass spectra. Nat Biotechnol. 2016 11 08; 34(11):1099-1101. Wohlgemuth G, Mehta SS, Mejia RF, Neumann S, Pedrosa D, Pluskal T, Schymanski EL, Willighagen EL, Wilson M, Wishart DS, Arita M, Dorrestein PC, Bandeira N, Wang M, Schulze T, Salek RM, Steinbeck C, Nainala VC, Mistrik R, Nishioka T, Fiehn O. PMID: 27824832; PMCID: PMC5515539.
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    245. Indexing the Pseudomonas specialized metabolome enabled the discovery of poaeamide B and the bananamides. Nat Microbiol. 2016 10 31; 2:16197. Nguyen DD, Melnik AV, Koyama N, Lu X, Schorn M, Fang J, Aguinaldo K, Lincecum TL, Ghequire MG, Carrion VJ, Cheng TL, Duggan BM, Malone JG, Mauchline TH, Sanchez LM, Kilpatrick AM, Raaijmakers JM, De Mot R, Moore BS, Medema MH, Dorrestein PC. PMID: 27798598; PMCID: PMC5538791.
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    246. Dereplication of peptidic natural products through database search of mass spectra. Nat Chem Biol. 2017 Jan; 13(1):30-37. Mohimani H, Gurevich A, Mikheenko A, Garg N, Nothias LF, Ninomiya A, Takada K, Dorrestein PC, Pevzner PA. PMID: 27820803; PMCID: PMC5409158.
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    247. Mass Spectrometry-Based Visualization of Molecules Associated with Human Habitats. Anal Chem. 2016 11 15; 88(22):10775-10784. Petras D, Nothias LF, Quinn RA, Alexandrov T, Bandeira N, Bouslimani A, Castro-Falcón G, Chen L, Dang T, Floros DJ, Hook V, Garg N, Hoffner N, Jiang Y, Kapono CA, Koester I, Knight R, Leber CA, Ling TJ, Luzzatto-Knaan T, McCall LI, McGrath AP, Meehan MJ, Merritt JK, Mills RH, Morton J, Podvin S, Protsyuk I, Purdy T, Satterfield K, Searles S, Shah S, Shires S, Steffen D, White M, Todoric J, Tuttle R, Wojnicz A, Sapp V, Vargas F, Yang J, Zhang C, Dorrestein PC. PMID: 27732780; PMCID: PMC6326777.
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    248. Discovery of a Mosaic-Like Biosynthetic Assembly Line with a Decarboxylative Off-Loading Mechanism through a Combination of Genome Mining and Imaging. Angew Chem Int Ed Engl. 2016 10 17; 55(43):13611-13614. Mir Mohseni M, Höver T, Barra L, Kaiser M, Dorrestein PC, Dickschat JS, Schäberle TF. PMID: 27667141.
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    249. Correction to 'Metabolomics of reef benthic interactions reveals a bioactive lipid involved in coral defence'. Proc Biol Sci. 2016 Aug 31; 283(1837). Quinn RA, Vermeij MJ, Hartmann AC, d'Auriac IG, Benler S, Haas A, Quistad SD, Lim YW, Little M, Sandin S, Smith JE, Dorrestein PC, Rohwer F. PMID: 27559065; PMCID: PMC5013801.
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    250. Metabolomics of pulmonary exacerbations reveals the personalized nature of cystic fibrosis disease. PeerJ. 2016; 4:e2174. Quinn RA, Lim YW, Mak TD, Whiteson K, Furlan M, Conrad D, Rohwer F, Dorrestein P. PMID: 27602256; PMCID: PMC4991883.
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    251. A metabolomics guided exploration of marine natural product chemical space. Metabolomics. 2016 Sep; 12(9). Floros DJ, Jensen PR, Dorrestein PC, Koyama N. PMID: 28819353; PMCID: PMC5556696.
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    252. Sharing and community curation of mass spectrometry data with Global Natural Products Social Molecular Networking. Nat Biotechnol. 2016 08 09; 34(8):828-837. Wang M, Carver JJ, Phelan VV, Sanchez LM, Garg N, Peng Y, Nguyen DD, Watrous J, Kapono CA, Luzzatto-Knaan T, Porto C, Bouslimani A, Melnik AV, Meehan MJ, Liu WT, Crüsemann M, Boudreau PD, Esquenazi E, Sandoval-Calderón M, Kersten RD, Pace LA, Quinn RA, Duncan KR, Hsu CC, Floros DJ, Gavilan RG, Kleigrewe K, Northen T, Dutton RJ, Parrot D, Carlson EE, Aigle B, Michelsen CF, Jelsbak L, Sohlenkamp C, Pevzner P, Edlund A, McLean J, Piel J, Murphy BT, Gerwick L, Liaw CC, Yang YL, Humpf HU, Maansson M, Keyzers RA, Sims AC, Johnson AR, Sidebottom AM, Sedio BE, Klitgaard A, Larson CB, P CAB, Torres-Mendoza D, Gonzalez DJ, Silva DB, Marques LM, Demarque DP, Pociute E, O'Neill EC, Briand E, Helfrich EJN, Granatosky EA, Glukhov E, Ryffel F, Houson H, Mohimani H, Kharbush JJ, Zeng Y, Vorholt JA, Kurita KL, Charusanti P, McPhail KL, Nielsen KF, Vuong L, Elfeki M, Traxler MF, Engene N, Koyama N, Vining OB, Baric R, Silva RR, Mascuch SJ, Tomasi S, Jenkins S, Macherla V, Hoffman T, Agarwal V, Williams PG, Dai J, Neupane R, Gurr J, Rodríguez AMC, Lamsa A, Zhang C, Dorrestein K, Duggan BM, Almaliti J, Allard PM, Phapale P, Nothias LF, Alexandrov T, Litaudon M, Wolfender JL, Kyle JE, Metz TO, Peryea T, Nguyen DT, VanLeer D, Shinn P, Jadhav A, Müller R, Waters KM, Shi W, Liu X, Zhang L, Knight R, Jensen PR, Palsson BO, Pogliano K, Linington RG, Gutiérrez M, Lopes NP, Gerwick WH, Moore BS, Dorrestein PC, Bandeira N. PMID: 27504778; PMCID: PMC5321674.
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    253. Microbiome-wide association studies link dynamic microbial consortia to disease. Nature. 2016 07 07; 535(7610):94-103. Gilbert JA, Quinn RA, Debelius J, Xu ZZ, Morton J, Garg N, Jansson JK, Dorrestein PC, Knight R. PMID: 27383984.
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    254. Role of secondary metabolites in the interaction between Pseudomonas fluorescens and soil microorganisms under iron-limited conditions. FEMS Microbiol Ecol. 2016 08; 92(8). Deveau A, Gross H, Palin B, Mehnaz S, Schnepf M, Leblond P, Dorrestein PC, Aigle B. PMID: 27199346; PMCID: PMC5975829.
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    255. Microbial Skin Inhabitants: Friends Forever. Cell. 2016 May 05; 165(4):771-2. Dorrestein PC, Gallo RL, Knight R. PMID: 27153488.
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    256. An Integrated Metabolomic and Genomic Mining Workflow To Uncover the Biosynthetic Potential of Bacteria. mSystems. 2016 May-Jun; 1(3). Maansson M, Vynne NG, Klitgaard A, Nybo JL, Melchiorsen J, Nguyen DD, Sanchez LM, Ziemert N, Dorrestein PC, Andersen MR, Gram L. PMID: 27822535; PMCID: PMC5069768.
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    257. Metabolomics of reef benthic interactions reveals a bioactive lipid involved in coral defence. Proc Biol Sci. 2016 Apr 27; 283(1829). Quinn RA, Vermeij MJ, Hartmann AC, Galtier d'Auriac I, Benler S, Haas A, Quistad SD, Lim YW, Little M, Sandin S, Smith JE, Dorrestein PC, Rohwer F. PMID: 27122568; PMCID: PMC4855392.
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    258. From Sample to Multi-Omics Conclusions in under 48 Hours. mSystems. 2016 Mar-Apr; 1(2). Quinn RA, Navas-Molina JA, Hyde ER, Song SJ, Vázquez-Baeza Y, Humphrey G, Gaffney J, Minich JJ, Melnik AV, Herschend J, DeReus J, Durant A, Dutton RJ, Khosroheidari M, Green C, da Silva R, Dorrestein PC, Knight R. PMID: 27822524; PMCID: PMC5069746.
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    259. Mass Spectrometry Imaging Reveals Elevated Glomerular ATP/AMP in Diabetes/obesity and Identifies Sphingomyelin as a Possible Mediator. EBioMedicine. 2016 May; 7:121-34. Miyamoto S, Hsu CC, Hamm G, Darshi M, Diamond-Stanic M, Declèves AE, Slater L, Pennathur S, Stauber J, Dorrestein PC, Sharma K. PMID: 27322466; PMCID: PMC4909366.
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    260. Deciphering ocean carbon in a changing world. Proc Natl Acad Sci U S A. 2016 Mar 22; 113(12):3143-51. Moran MA, Kujawinski EB, Stubbins A, Fatland R, Aluwihare LI, Buchan A, Crump BC, Dorrestein PC, Dyhrman ST, Hess NJ, Howe B, Longnecker K, Medeiros PM, Niggemann J, Obernosterer I, Repeta DJ, Waldbauer JR. PMID: 26951682; PMCID: PMC4812754.
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    261. Ralstonia solanacearum lipopeptide induces chlamydospore development in fungi and facilitates bacterial entry into fungal tissues. ISME J. 2016 09; 10(9):2317-30. Spraker JE, Sanchez LM, Lowe TM, Dorrestein PC, Keller NP. PMID: 26943626; PMCID: PMC4989320.
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    262. Leucanicidin and Endophenasides Result from Methyl-Rhamnosylation by the Same Tailoring Enzymes in Kitasatospora sp. MBT66. ACS Chem Biol. 2016 Feb 19; 11(2):478-90. Wu C, Medema MH, Läkamp RM, Zhang L, Dorrestein PC, Choi YH, van Wezel GP. PMID: 26675041.
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    263. Plasticity of Streptomyces coelicolor Membrane Composition Under Different Growth Conditions and During Development. Front Microbiol. 2015; 6:1465. Sandoval-Calderón M, Nguyen DD, Kapono CA, Herron P, Dorrestein PC, Sohlenkamp C. PMID: 26733994; PMCID: PMC4686642.
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    264. Tools for the Microbiome: Nano and Beyond. ACS Nano. 2016 Jan 26; 10(1):6-37. Biteen JS, Blainey PC, Cardon ZG, Chun M, Church GM, Dorrestein PC, Fraser SE, Gilbert JA, Jansson JK, Knight R, Miller JF, Ozcan A, Prather KA, Quake SR, Ruby EG, Silver PA, Taha S, van den Engh G, Weiss PS, Wong GC, Wright AT, Young TD. PMID: 26695070.
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    265. Evolution of metabolic divergence in Pseudomonas aeruginosa during long-term infection facilitates a proto-cooperative interspecies interaction. ISME J. 2016 06; 10(6):1323-36. Frydenlund Michelsen C, Hossein Khademi SM, Krogh Johansen H, Ingmer H, Dorrestein PC, Jelsbak L. PMID: 26684729; PMCID: PMC5029194.
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    266. Application of bacterial cytological profiling to crude natural product extracts reveals the antibacterial arsenal of Bacillus subtilis. J Antibiot (Tokyo). 2016 05; 69(5):353-61. Nonejuie P, Trial RM, Newton GL, Lamsa A, Ranmali Perera V, Aguilar J, Liu WT, Dorrestein PC, Pogliano J, Pogliano K. PMID: 26648120; PMCID: PMC5367885.
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    267. Microbial, host and xenobiotic diversity in the cystic fibrosis sputum metabolome. ISME J. 2016 06; 10(6):1483-98. Quinn RA, Phelan VV, Whiteson KL, Garg N, Bailey BA, Lim YW, Conrad DJ, Dorrestein PC, Rohwer FL. PMID: 26623545; PMCID: PMC5029181.
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    268. Comparative genomics and metabolic profiling of the genus Lysobacter. BMC Genomics. 2015 Nov 23; 16:991. de Bruijn I, Cheng X, de Jager V, Expósito RG, Watrous J, Patel N, Postma J, Dorrestein PC, Kobayashi D, Raaijmakers JM. PMID: 26597042; PMCID: PMC4657364.
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    269. MICROBIOME. A unified initiative to harness Earth's microbiomes. Science. 2015 Oct 30; 350(6260):507-8. Alivisatos AP, Blaser MJ, Brodie EL, Chun M, Dangl JL, Donohue TJ, Dorrestein PC, Gilbert JA, Green JL, Jansson JK, Knight R, Maxon ME, McFall-Ngai MJ, Miller JF, Pollard KS, Ruby EG, Taha SA, Unified Microbiome Initiative Consortium. PMID: 26511287.
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    270. Legonaridin, a new member of linaridin RiPP from a Ghanaian Streptomyces isolate. Org Biomol Chem. 2015 Oct 07; 13(37):9585-92. Rateb ME, Zhai Y, Ehrner E, Rath CM, Wang X, Tabudravu J, Ebel R, Bibb M, Kyeremeh K, Dorrestein PC, Hong K, Jaspars M, Deng H. PMID: 26256511.
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    271. Illuminating the dark matter in metabolomics. Proc Natl Acad Sci U S A. 2015 Oct 13; 112(41):12549-50. da Silva RR, Dorrestein PC, Quinn RA. PMID: 26430243; PMCID: PMC4611607.
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    272. Chemoenzymatic Synthesis of Acyl Coenzyme A Substrates Enables in Situ Labeling of Small Molecules and Proteins. Org Lett. 2015 Sep 18; 17(18):4452-5. Agarwal V, Diethelm S, Ray L, Garg N, Awakawa T, Dorrestein PC, Moore BS. PMID: 26333306; PMCID: PMC4720141.
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    273. Minimum Information about a Biosynthetic Gene cluster. Nat Chem Biol. 2015 Sep; 11(9):625-31. Medema MH, Kottmann R, Yilmaz P, Cummings M, Biggins JB, Blin K, de Bruijn I, Chooi YH, Claesen J, Coates RC, Cruz-Morales P, Duddela S, Düsterhus S, Edwards DJ, Fewer DP, Garg N, Geiger C, Gomez-Escribano JP, Greule A, Hadjithomas M, Haines AS, Helfrich EJ, Hillwig ML, Ishida K, Jones AC, Jones CS, Jungmann K, Kegler C, Kim HU, Kötter P, Krug D, Masschelein J, Melnik AV, Mantovani SM, Monroe EA, Moore M, Moss N, Nützmann HW, Pan G, Pati A, Petras D, Reen FJ, Rosconi F, Rui Z, Tian Z, Tobias NJ, Tsunematsu Y, Wiemann P, Wyckoff E, Yan X, Yim G, Yu F, Xie Y, Aigle B, Apel AK, Balibar CJ, Balskus EP, Barona-Gómez F, Bechthold A, Bode HB, Borriss R, Brady SF, Brakhage AA, Caffrey P, Cheng YQ, Clardy J, Cox RJ, De Mot R, Donadio S, Donia MS, van der Donk WA, Dorrestein PC, Doyle S, Driessen AJ, Ehling-Schulz M, Entian KD, Fischbach MA, Gerwick L, Gerwick WH, Gross H, Gust B, Hertweck C, Höfte M, Jensen SE, Ju J, Katz L, Kaysser L, Klassen JL, Keller NP, Kormanec J, Kuipers OP, Kuzuyama T, Kyrpides NC, Kwon HJ, Lautru S, Lavigne R, Lee CY, Linquan B, Liu X, Liu W, Luzhetskyy A, Mahmud T, Mast Y, Méndez C, Metsä-Ketelä M, Micklefield J, Mitchell DA, Moore BS, Moreira LM, Müller R, Neilan BA, Nett M, Nielsen J, O'Gara F, Oikawa H, Osbourn A, Osburne MS, Ostash B, Payne SM, Pernodet JL, Petricek M, Piel J, Ploux O, Raaijmakers JM, Salas JA, Schmitt EK, Scott B, Seipke RF, Shen B, Sherman DH, Sivonen K, Smanski MJ, Sosio M, Stegmann E, Süssmuth RD, Tahlan K, Thomas CM, Tang Y, Truman AW, Viaud M, Walton JD, Walsh CT, Weber T, van Wezel GP, Wilkinson B, Willey JM, Wohlleben W, Wright GD, Ziemert N, Zhang C, Zotchev SB, Breitling R, Takano E, Glöckner FO. PMID: 26284661; PMCID: PMC5714517.
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    274. Diversity of Aquatic Pseudomonas Species and Their Activity against the Fish Pathogenic Oomycete Saprolegnia. PLoS One. 2015; 10(8):e0136241. Liu Y, Rzeszutek E, van der Voort M, Wu CH, Thoen E, Skaar I, Bulone V, Dorrestein PC, Raaijmakers JM, de Bruijn I. PMID: 26317985; PMCID: PMC4552890.
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    275. Homogeneous matrix deposition on dried agar for MALDI imaging mass spectrometry of microbial cultures. J Am Soc Mass Spectrom. 2015 Nov; 26(11):1959-62. Hoffmann T, Dorrestein PC. PMID: 26297185.
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    276. Mass spectrometry tools and workflows for revealing microbial chemistry. Analyst. 2015 Aug 07; 140(15):4949-66. Luzzatto-Knaan T, Melnik AV, Dorrestein PC. PMID: 25996313; PMCID: PMC5444374.
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    277. Molecular and chemical dialogues in bacteria-protozoa interactions. Sci Rep. 2015 Aug 06; 5:12837. Song C, Mazzola M, Cheng X, Oetjen J, Alexandrov T, Dorrestein P, Watrous J, van der Voort M, Raaijmakers JM. PMID: 26246193; PMCID: PMC4542665.
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    278. Competitive strategies differentiate closely related species of marine actinobacteria. ISME J. 2016 Feb; 10(2):478-90. Patin NV, Duncan KR, Dorrestein PC, Jensen PR. PMID: 26241505; PMCID: PMC4737938.
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    279. Vitroprocines, new antibiotics against Acinetobacter baumannii, discovered from marine Vibrio sp. QWI-06 using mass-spectrometry-based metabolomics approach. Sci Rep. 2015 Aug 04; 5:12856. Liaw CC, Chen PC, Shih CJ, Tseng SP, Lai YM, Hsu CH, Dorrestein PC, Yang YL. PMID: 26238555; PMCID: PMC4523872.
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    280. Expanding the Described Metabolome of the Marine Cyanobacterium Moorea producens JHB through Orthogonal Natural Products Workflows. PLoS One. 2015; 10(7):e0133297. Boudreau PD, Monroe EA, Mehrotra S, Desfor S, Korobeynikov A, Sherman DH, Murray TF, Gerwick L, Dorrestein PC, Gerwick WH. PMID: 26222584; PMCID: PMC4519256.
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    281. Changes in secondary metabolic profiles of Microcystis aeruginosa strains in response to intraspecific interactions. Environ Microbiol. 2016 Feb; 18(2):384-400. Briand E, Bormans M, Gugger M, Dorrestein PC, Gerwick WH. PMID: 25980449; PMCID: PMC5083810.
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    282. Genome mining and metabolic profiling of the rhizosphere bacterium Pseudomonas sp. SH-C52 for antimicrobial compounds. Front Microbiol. 2015; 6:693. Van Der Voort M, Meijer HJ, Schmidt Y, Watrous J, Dekkers E, Mendes R, Dorrestein PC, Gross H, Raaijmakers JM. PMID: 26217324; PMCID: PMC4493835.
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    283. Combining Mass Spectrometric Metabolic Profiling with Genomic Analysis: A Powerful Approach for Discovering Natural Products from Cyanobacteria. J Nat Prod. 2015 Jul 24; 78(7):1671-82. Kleigrewe K, Almaliti J, Tian IY, Kinnel RB, Korobeynikov A, Monroe EA, Duggan BM, Di Marzo V, Sherman DH, Dorrestein PC, Gerwick L, Gerwick WH. PMID: 26149623; PMCID: PMC4681511.
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    284. Biochemical Establishment and Characterization of EncM's Flavin-N5-oxide Cofactor. J Am Chem Soc. 2015 Jul 01; 137(25):8078-85. Teufel R, Stull F, Meehan MJ, Michaudel Q, Dorrestein PC, Palfey B, Moore BS. PMID: 26067765; PMCID: PMC4720136.
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    285. Arginine methylation of HSP70 regulates retinoid acid-mediated RARβ2 gene activation. Proc Natl Acad Sci U S A. 2015 Jun 30; 112(26):E3327-36. Gao WW, Xiao RQ, Peng BL, Xu HT, Shen HF, Huang MF, Shi TT, Yi J, Zhang WJ, Wu XN, Gao X, Lin XZ, Dorrestein PC, Rosenfeld MG, Liu W. PMID: 26080448; PMCID: PMC4491752.
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    286. Meta-omics uncover temporal regulation of pathways across oral microbiome genera during in vitro sugar metabolism. ISME J. 2015 Dec; 9(12):2605-19. Edlund A, Yang Y, Yooseph S, Hall AP, Nguyen DD, Dorrestein PC, Nelson KE, He X, Lux R, Shi W, McLean JS. PMID: 26023872; PMCID: PMC4817640.
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    287. Phenotyping drug polypharmacology via eicosanoid profiling of blood. J Lipid Res. 2015 Aug; 56(8):1492-500. Song J, Liu X, Rao TS, Chang L, Meehan MJ, Blevitt JM, Wu J, Dorrestein PC, Milla ME. PMID: 26022804; PMCID: PMC4513990.
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    288. Benchmark datasets for 3D MALDI- and DESI-imaging mass spectrometry. Gigascience. 2015; 4:20. Oetjen J, Veselkov K, Watrous J, McKenzie JS, Becker M, Hauberg-Lotte L, Kobarg JH, Strittmatter N, Mróz AK, Hoffmann F, Trede D, Palmer A, Schiffler S, Steinhorst K, Aichler M, Goldin R, Guntinas-Lichius O, von Eggeling F, Thiele H, Maedler K, Walch A, Maass P, Dorrestein PC, Takats Z, Alexandrov T. PMID: 25941567; PMCID: PMC4418095.
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    289. Molecular networking and pattern-based genome mining improves discovery of biosynthetic gene clusters and their products from Salinispora species. Chem Biol. 2015 Apr 23; 22(4):460-471. Duncan KR, Crüsemann M, Lechner A, Sarkar A, Li J, Ziemert N, Wang M, Bandeira N, Moore BS, Dorrestein PC, Jensen PR. PMID: 25865308; PMCID: PMC4409930.
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    290. Molecular cartography of the human skin surface in 3D. Proc Natl Acad Sci U S A. 2015 Apr 28; 112(17):E2120-9. Bouslimani A, Porto C, Rath CM, Wang M, Guo Y, Gonzalez A, Berg-Lyon D, Ackermann G, Moeller Christensen GJ, Nakatsuji T, Zhang L, Borkowski AW, Meehan MJ, Dorrestein K, Gallo RL, Bandeira N, Knight R, Alexandrov T, Dorrestein PC. PMID: 25825778; PMCID: PMC4418856.
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    291. Mass Spectrometry Analysis of Pseudomonas aeruginosa Treated with Azithromycin. J Am Soc Mass Spectrom. 2015 Jun; 26(6):873-7. Phelan VV, Fang J, Dorrestein PC. PMID: 25801585; PMCID: PMC4425625.
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    292. Direct detection of fungal siderophores on bats with white-nose syndrome via fluorescence microscopy-guided ambient ionization mass spectrometry. PLoS One. 2015; 10(3):e0119668. Mascuch SJ, Moree WJ, Hsu CC, Turner GG, Cheng TL, Blehert DS, Kilpatrick AM, Frick WF, Meehan MJ, Dorrestein PC, Gerwick L. PMID: 25781976; PMCID: PMC4364562.
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    293. Nonribosomal peptides, key biocontrol components for Pseudomonas fluorescens In5, isolated from a Greenlandic suppressive soil. mBio. 2015 Mar 17; 6(2):e00079. Michelsen CF, Watrous J, Glaring MA, Kersten R, Koyama N, Dorrestein PC, Stougaard P. PMID: 25784695; PMCID: PMC4453515.
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    294. Mechanism of action of thalassospiramides, a new class of calpain inhibitors. Sci Rep. 2015 Mar 05; 5:8783. Lu L, Meehan MJ, Gu S, Chen Z, Zhang W, Zhang G, Liu L, Huang X, Dorrestein PC, Xu Y, Moore BS, Qian PY. PMID: 25740631; PMCID: PMC4350077.
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    295. Thiopeptide antibiotics stimulate biofilm formation in Bacillus subtilis. Proc Natl Acad Sci U S A. 2015 Mar 10; 112(10):3086-91. Bleich R, Watrous JD, Dorrestein PC, Bowers AA, Shank EA. PMID: 25713360; PMCID: PMC4364203.
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    296. Spongosine production by a Vibrio harveyi strain associated with the sponge Tectitethya crypta. J Nat Prod. 2015 Mar 27; 78(3):493-9. Bertin MJ, Schwartz SL, Lee J, Korobeynikov A, Dorrestein PC, Gerwick L, Gerwick WH. PMID: 25668560; PMCID: PMC5065018.
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    297. Mass spectral similarity for untargeted metabolomics data analysis of complex mixtures. Int J Mass Spectrom. 2015 Feb 01; 377:719-717. Garg N, Kapono C, Lim YW, Koyama N, Vermeij MJ, Conrad D, Rohwer F, Dorrestein PC. PMID: 25844058; PMCID: PMC4379709.
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    298. Cultivation of a human-associated TM7 phylotype reveals a reduced genome and epibiotic parasitic lifestyle. Proc Natl Acad Sci U S A. 2015 Jan 06; 112(1):244-9. He X, McLean JS, Edlund A, Yooseph S, Hall AP, Liu SY, Dorrestein PC, Esquenazi E, Hunter RC, Cheng G, Nelson KE, Lux R, Shi W. PMID: 25535390; PMCID: PMC4291631.
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    299. Introducing the USA Plant, Algae and Microbial Metabolomics Research Coordination Network (PAMM-NET). Metabolomics. 2015 Feb; 11(1):3-5. Sumner LW, Styczynski M, McLean J, Fiehn O, Jander G, Liao J, Sumner S, Britz-McKibbin P, Welti R, Jones AD, Dorrestein PC, Bearden D, Kaddurah-Daouk R. PMID: 28018159; PMCID: PMC5178969.
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    300. N-terminal ArgD peptides from the classical Staphylococcus aureus Agr system have cytotoxic and proinflammatory activities. Chem Biol. 2014 Nov 20; 21(11):1457-62. Gonzalez DJ, Corriden R, Akong-Moore K, Olson J, Dorrestein PC, Nizet V. PMID: 25457179; PMCID: PMC4304878.
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    301. Specialized metabolites from the microbiome in health and disease. Cell Metab. 2014 Nov 04; 20(5):719-730. Sharon G, Garg N, Debelius J, Knight R, Dorrestein PC, Mazmanian SK. PMID: 25440054; PMCID: PMC4337795.
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    302. Pep2Path: automated mass spectrometry-guided genome mining of peptidic natural products. PLoS Comput Biol. 2014 Sep; 10(9):e1003822. Medema MH, Paalvast Y, Nguyen DD, Melnik A, Dorrestein PC, Takano E, Breitling R. PMID: 25188327; PMCID: PMC4154637.
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    303. Targeted capture and heterologous expression of the Pseudoalteromonas alterochromide gene cluster in Escherichia coli represents a promising natural product exploratory platform. ACS Synth Biol. 2015 Apr 17; 4(4):414-20. Ross AC, Gulland LE, Dorrestein PC, Moore BS. PMID: 25140825; PMCID: PMC4410906.
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    304. Visualizing life with ambient mass spectrometry. Curr Opin Biotechnol. 2015 Feb; 31:24-34. Hsu CC, Dorrestein PC. PMID: 25146170; PMCID: PMC4297699.
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    305. NRPquest: Coupling Mass Spectrometry and Genome Mining for Nonribosomal Peptide Discovery. J Nat Prod. 2014 Aug 22; 77(8):1902-9. Mohimani H, Liu WT, Kersten RD, Moore BS, Dorrestein PC, Pevzner PA. PMID: 25116163; PMCID: PMC4143176.
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    306. Microbiota of healthy corals are active against fungi in a light-dependent manner. ACS Chem Biol. 2014 Oct 17; 9(10):2300-8. Moree WJ, McConnell OJ, Nguyen DD, Sanchez LM, Yang YL, Zhao X, Liu WT, Boudreau PD, Srinivasan J, Atencio L, Ballesteros J, Gavilán RG, Torres-Mendoza D, Guzmán HM, Gerwick WH, Gutiérrez M, Dorrestein PC. PMID: 25058318; PMCID: PMC4201335.
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    307. Emerging mass spectrometry techniques for the direct analysis of microbial colonies. Curr Opin Microbiol. 2014 Jun; 19:120-129. Fang J, Dorrestein PC. PMID: 25064218; PMCID: PMC4161221.
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    308. Finding the missing links among metabolites, microbes, and the host. Immunity. 2014 Jun 19; 40(6):824-32. Dorrestein PC, Mazmanian SK, Knight R. PMID: 24950202; PMCID: PMC4503329.
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    309. Automated genome mining of ribosomal peptide natural products. ACS Chem Biol. 2014 Jul 18; 9(7):1545-51. Mohimani H, Kersten RD, Liu WT, Wang M, Purvine SO, Wu S, Brewer HM, Pasa-Tolic L, Bandeira N, Moore BS, Pevzner PA, Dorrestein PC. PMID: 24802639; PMCID: PMC4215869.
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    310. Mass spectrometry of natural products: current, emerging and future technologies. Nat Prod Rep. 2014 Jun; 31(6):718-29. Bouslimani A, Sanchez LM, Garg N, Dorrestein PC. PMID: 24801551; PMCID: PMC4161218.
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    311. Editorial: Mass spectrometry of small molecules and natural products. Nat Prod Rep. 2014 Jun; 31(6):704-5. Dorrestein PC. PMID: 24801653.
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    312. The intestinal metabolome: an intersection between microbiota and host. Gastroenterology. 2014 May; 146(6):1470-6. Ursell LK, Haiser HJ, Van Treuren W, Garg N, Reddivari L, Vanamala J, Dorrestein PC, Turnbaugh PJ, Knight R. PMID: 24631493; PMCID: PMC4102302.
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    313. Lipopeptides from the tropical marine cyanobacterium Symploca sp. J Nat Prod. 2014 Apr 25; 77(4):969-75. Mevers E, Haeckl FP, Boudreau PD, Byrum T, Dorrestein PC, Valeriote FA, Gerwick WH. PMID: 24588245; PMCID: PMC4002153.
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    314. Phenol soluble modulin (PSM) variants of community-associated methicillin-resistant Staphylococcus aureus (MRSA) captured using mass spectrometry-based molecular networking. Mol Cell Proteomics. 2014 May; 13(5):1262-72. Gonzalez DJ, Vuong L, Gonzalez IS, Keller N, McGrosso D, Hwang JH, Hung J, Zinkernagel A, Dixon JE, Dorrestein PC, Nizet V. PMID: 24567418; PMCID: PMC4014283.
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    315. Impact of a transposon insertion in phzF2 on the specialized metabolite production and interkingdom interactions of Pseudomonas aeruginosa. J Bacteriol. 2014 May; 196(9):1683-93. Phelan VV, Moree WJ, Aguilar J, Cornett DS, Koumoutsi A, Noble SM, Pogliano K, Guerrero CA, Dorrestein PC. PMID: 24532776; PMCID: PMC3993319.
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    316. Direct cloning and refactoring of a silent lipopeptide biosynthetic gene cluster yields the antibiotic taromycin A. Proc Natl Acad Sci U S A. 2014 Feb 04; 111(5):1957-62. Yamanaka K, Reynolds KA, Kersten RD, Ryan KS, Gonzalez DJ, Nizet V, Dorrestein PC, Moore BS. PMID: 24449899; PMCID: PMC3918841.
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    317. Quantitative molecular networking to profile marine cyanobacterial metabolomes. J Antibiot (Tokyo). 2014 Jan; 67(1):105-12. Winnikoff JR, Glukhov E, Watrous J, Dorrestein PC, Gerwick WH. PMID: 24281659; PMCID: PMC5105604.
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    318. Genetic basis for the biosynthesis of the pharmaceutically important class of epoxyketone proteasome inhibitors. ACS Chem Biol. 2014 Jan 17; 9(1):301-9. Schorn M, Zettler J, Noel JP, Dorrestein PC, Moore BS, Kaysser L. PMID: 24168704; PMCID: PMC4041076.
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    319. Glycogenomics as a mass spectrometry-guided genome-mining method for microbial glycosylated molecules. Proc Natl Acad Sci U S A. 2013 Nov 19; 110(47):E4407-16. Kersten RD, Ziemert N, Gonzalez DJ, Duggan BM, Nizet V, Dorrestein PC, Moore BS. PMID: 24191063; PMCID: PMC3839717.
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    320. MS/MS-based networking and peptidogenomics guided genome mining revealed the stenothricin gene cluster in Streptomyces roseosporus. J Antibiot (Tokyo). 2014 Jan; 67(1):99-104. Liu WT, Lamsa A, Wong WR, Boudreau PD, Kersten R, Peng Y, Moree WJ, Duggan BM, Moore BS, Gerwick WH, Linington RG, Pogliano K, Dorrestein PC. PMID: 24149839; PMCID: PMC3919142.
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    321. Metabolic profiling directly from the Petri dish using nanospray desorption electrospray ionization imaging mass spectrometry. Anal Chem. 2013 Nov 05; 85(21):10385-91. Watrous J, Roach P, Heath B, Alexandrov T, Laskin J, Dorrestein PC. PMID: 24047514; PMCID: PMC3913783.
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    322. Molecular networking as a dereplication strategy. J Nat Prod. 2013 Sep 27; 76(9):1686-99. Yang JY, Sanchez LM, Rath CM, Liu X, Boudreau PD, Bruns N, Glukhov E, Wodtke A, de Felicio R, Fenner A, Wong WR, Linington RG, Zhang L, Debonsi HM, Gerwick WH, Dorrestein PC. PMID: 24025162; PMCID: PMC3936340.
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    323. Characterization of the bacterial community of the chemically defended Hawaiian sacoglossan Elysia rufescens. Appl Environ Microbiol. 2013 Nov; 79(22):7073-81. Davis J, Fricke WF, Hamann MT, Esquenazi E, Dorrestein PC, Hill RT. PMID: 24014539; PMCID: PMC3811551.
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    324. Microscopy ambient ionization top-down mass spectrometry reveals developmental patterning. Proc Natl Acad Sci U S A. 2013 Sep 10; 110(37):14855-60. Hsu CC, White NM, Hayashi M, Lin EC, Poon T, Banerjee I, Chen J, Pfaff SL, Macagno ER, Dorrestein PC. PMID: 23969833; PMCID: PMC3773749.
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    325. Interspecies interactions stimulate diversification of the Streptomyces coelicolor secreted metabolome. mBio. 2013 Aug 20; 4(4). Traxler MF, Watrous JD, Alexandrov T, Dorrestein PC, Kolter R. PMID: 23963177; PMCID: PMC3747584.
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    326. Active-site models for complexes of quinolinate synthase with substrates and intermediates. Acta Crystallogr D Biol Crystallogr. 2013 Sep; 69(Pt 9):1685-96. Soriano EV, Zhang Y, Colabroy KL, Sanders JM, Settembre EC, Dorrestein PC, Begley TP, Ealick SE. PMID: 23999292; PMCID: PMC3760129.
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    327. Imaging mass spectrometry of a coral microbe interaction with fungi. J Chem Ecol. 2013 Jul; 39(7):1045-54. Moree WJ, Yang JY, Zhao X, Liu WT, Aparicio M, Atencio L, Ballesteros J, Sánchez J, Gavilán RG, Gutiérrez M, Dorrestein PC. PMID: 23881443; PMCID: PMC3839821.
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    328. Real-time metabolomics on living microorganisms using ambient electrospray ionization flow-probe. Anal Chem. 2013 Aug 06; 85(15):7014-8. Hsu CC, ElNaggar MS, Peng Y, Fang J, Sanchez LM, Mascuch SJ, Møller KA, Alazzeh EK, Pikula J, Quinn RA, Zeng Y, Wolfe BE, Dutton RJ, Gerwick L, Zhang L, Liu X, Månsson M, Dorrestein PC. PMID: 23819546; PMCID: PMC3890442.
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    329. MS/MS networking guided analysis of molecule and gene cluster families. Proc Natl Acad Sci U S A. 2013 Jul 09; 110(28):E2611-20. Nguyen DD, Wu CH, Moree WJ, Lamsa A, Medema MH, Zhao X, Gavilan RG, Aparicio M, Atencio L, Jackson C, Ballesteros J, Sanchez J, Watrous JD, Phelan VV, van de Wiel C, Kersten RD, Mehnaz S, De Mot R, Shank EA, Charusanti P, Nagarajan H, Duggan BM, Moore BS, Bandeira N, Palsson BØ, Pogliano K, Gutiérrez M, Dorrestein PC. PMID: 23798442; PMCID: PMC3710860.
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    330. Production of the cannibalism toxin SDP is a multistep process that requires SdpA and SdpB. J Bacteriol. 2013 Jul; 195(14):3244-51. Pérez Morales TG, Ho TD, Liu WT, Dorrestein PC, Ellermeier CD. PMID: 23687264; PMCID: PMC3697648.
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    331. Bioactivity-guided genome mining reveals the lomaiviticin biosynthetic gene cluster in Salinispora tropica. Chembiochem. 2013 May 27; 14(8):955-62. Kersten RD, Lane AL, Nett M, Richter TK, Duggan BM, Dorrestein PC, Moore BS. PMID: 23649992; PMCID: PMC3755882.
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    332. Data-independent microbial metabolomics with ambient ionization mass spectrometry. J Am Soc Mass Spectrom. 2013 Aug; 24(8):1167-76. Rath CM, Yang JY, Alexandrov T, Dorrestein PC. PMID: 23568029; PMCID: PMC3715584.
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    333. Analytical chemistry: Virulence caught green-handed. Nat Chem. 2013 Mar; 5(3):155-7. Sanchez LM, Dorrestein PC. PMID: 23422554; PMCID: PMC4415365.
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    334. Methicillin-resistant Staphylococcus aureus bacterial nitric-oxide synthase affects antibiotic sensitivity and skin abscess development. J Biol Chem. 2013 Mar 01; 288(9):6417-26. van Sorge NM, Beasley FC, Gusarov I, Gonzalez DJ, von Köckritz-Blickwede M, Anik S, Borkowski AW, Dorrestein PC, Nudler E, Nizet V. PMID: 23322784; PMCID: PMC3585076.
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    335. Biosynthetic multitasking facilitates thalassospiramide structural diversity in marine bacteria. J Am Chem Soc. 2013 Jan 23; 135(3):1155-62. Ross AC, Xu Y, Lu L, Kersten RD, Shao Z, Al-Suwailem AM, Dorrestein PC, Qian PY, Moore BS. PMID: 23270364; PMCID: PMC3563429.
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    336. Microbial metabolic exchange in 3D. ISME J. 2013 Apr; 7(4):770-80. Watrous JD, Phelan VV, Hsu CC, Moree WJ, Duggan BM, Alexandrov T, Dorrestein PC. PMID: 23283018; PMCID: PMC3603389.
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    337. Ribosomally synthesized and post-translationally modified peptide natural products: overview and recommendations for a universal nomenclature. Nat Prod Rep. 2013 Jan; 30(1):108-60. Arnison PG, Bibb MJ, Bierbaum G, Bowers AA, Bugni TS, Bulaj G, Camarero JA, Campopiano DJ, Challis GL, Clardy J, Cotter PD, Craik DJ, Dawson M, Dittmann E, Donadio S, Dorrestein PC, Entian KD, Fischbach MA, Garavelli JS, Göransson U, Gruber CW, Haft DH, Hemscheidt TK, Hertweck C, Hill C, Horswill AR, Jaspars M, Kelly WL, Klinman JP, Kuipers OP, Link AJ, Liu W, Marahiel MA, Mitchell DA, Moll GN, Moore BS, Müller R, Nair SK, Nes IF, Norris GE, Olivera BM, Onaka H, Patchett ML, Piel J, Reaney MJ, Rebuffat S, Ross RP, Sahl HG, Schmidt EW, Selsted ME, Severinov K, Shen B, Sivonen K, Smith L, Stein T, Süssmuth RD, Tagg JR, Tang GL, Truman AW, Vederas JC, Walsh CT, Walton JD, Wenzel SC, Willey JM, van der Donk WA. PMID: 23165928; PMCID: PMC3954855.
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    338. Codon randomization for rapid exploration of chemical space in thiopeptide antibiotic variants. Chem Biol. 2012 Dec 21; 19(12):1600-10. Young TS, Dorrestein PC, Walsh CT. PMID: 23261603; PMCID: PMC3530156.
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    339. A highly efficient, high-throughput lipidomics platform for the quantitative detection of eicosanoids in human whole blood. Anal Biochem. 2013 Feb 15; 433(2):181-8. Song J, Liu X, Wu J, Meehan MJ, Blevitt JM, Dorrestein PC, Milla ME. PMID: 23103340.
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    340. Molecular analysis of model gut microbiotas by imaging mass spectrometry and nanodesorption electrospray ionization reveals dietary metabolite transformations. Anal Chem. 2012 Nov 06; 84(21):9259-67. Rath CM, Alexandrov T, Higginbottom SK, Song J, Milla ME, Fischbach MA, Sonnenburg JL, Dorrestein PC. PMID: 23009651; PMCID: PMC3711173.
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    341. A bacterial pathogen co-opts host plasmin to resist killing by cathelicidin antimicrobial peptides. J Biol Chem. 2012 Nov 30; 287(49):40891-7. Hollands A, Gonzalez D, Leire E, Donald C, Gallo RL, Sanderson-Smith M, Dorrestein PC, Nizet V. PMID: 23038245; PMCID: PMC3510793.
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    342. The spectral networks paradigm in high throughput mass spectrometry. Mol Biosyst. 2012 Oct; 8(10):2535-44. Guthals A, Watrous JD, Dorrestein PC, Bandeira N. PMID: 22610447; PMCID: PMC3893064.
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    343. Viequeamide A, a cytotoxic member of the kulolide superfamily of cyclic depsipeptides from a marine button cyanobacterium. J Nat Prod. 2012 Sep 28; 75(9):1560-70. Boudreau PD, Byrum T, Liu WT, Dorrestein PC, Gerwick WH. PMID: 22924493; PMCID: PMC3521035.
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    344. Iron acquisition in the marine actinomycete genus Salinispora is controlled by the desferrioxamine family of siderophores. FEMS Microbiol Lett. 2012 Oct; 335(2):95-103. Roberts AA, Schultz AW, Kersten RD, Dorrestein PC, Moore BS. PMID: 22812504; PMCID: PMC4209017.
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    345. Interkingdom metabolic transformations captured by microbial imaging mass spectrometry. Proc Natl Acad Sci U S A. 2012 Aug 21; 109(34):13811-6. Moree WJ, Phelan VV, Wu CH, Bandeira N, Cornett DS, Duggan BM, Dorrestein PC. PMID: 22869730; PMCID: PMC3427086.
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    346. Enzymatic resistance to the lipopeptide surfactin as identified through imaging mass spectrometry of bacterial competition. Proc Natl Acad Sci U S A. 2012 Aug 07; 109(32):13082-7. Hoefler BC, Gorzelnik KV, Yang JY, Hendricks N, Dorrestein PC, Straight PD. PMID: 22826229; PMCID: PMC3420176.
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    347. Primer on agar-based microbial imaging mass spectrometry. J Bacteriol. 2012 Nov; 194(22):6023-8. Yang JY, Phelan VV, Simkovsky R, Watrous JD, Trial RM, Fleming TC, Wenter R, Moore BS, Golden SS, Pogliano K, Dorrestein PC. PMID: 22821974; PMCID: PMC3486372.
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    350. Bacterial biosynthesis and maturation of the didemnin anti-cancer agents. J Am Chem Soc. 2012 May 23; 134(20):8625-32. Xu Y, Kersten RD, Nam SJ, Lu L, Al-Suwailem AM, Zheng H, Fenical W, Dorrestein PC, Moore BS, Qian PY. PMID: 22458477; PMCID: PMC3401512.
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    351. The Bacillus subtilis cannibalism toxin SDP collapses the proton motive force and induces autolysis. Mol Microbiol. 2012 May; 84(3):486-500. Lamsa A, Liu WT, Dorrestein PC, Pogliano K. PMID: 22469514; PMCID: PMC3839633.
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    352. Novel phenol-soluble modulin derivatives in community-associated methicillin-resistant Staphylococcus aureus identified through imaging mass spectrometry. J Biol Chem. 2012 Apr 20; 287(17):13889-98. Gonzalez DJ, Okumura CY, Hollands A, Kersten R, Akong-Moore K, Pence MA, Malone CL, Derieux J, Moore BS, Horswill AR, Dixon JE, Dorrestein PC, Nizet V. PMID: 22371493; PMCID: PMC3340166.
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    353. The bacterial chemical repertoire mediates metabolic exchange within gut microbiomes. Curr Opin Microbiol. 2012 Apr; 15(2):147-54. Rath CM, Dorrestein PC. PMID: 22209085; PMCID: PMC4112563.
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    354. Microbial metabolic exchange--the chemotype-to-phenotype link. Nat Chem Biol. 2011 Dec 15; 8(1):26-35. Phelan VV, Liu WT, Pogliano K, Dorrestein PC. PMID: 22173357; PMCID: PMC3869239.
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    355. ncRNA- and Pc2 methylation-dependent gene relocation between nuclear structures mediates gene activation programs. Cell. 2011 Nov 11; 147(4):773-88. Yang L, Lin C, Liu W, Zhang J, Ohgi KA, Grinstein JD, Dorrestein PC, Rosenfeld MG. PMID: 22078878; PMCID: PMC3297197.
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    357. Saccharomyces cerevisiae THI4p is a suicide thiamine thiazole synthase. Nature. 2011 Oct 26; 478(7370):542-6. Chatterjee A, Abeydeera ND, Bale S, Pai PJ, Dorrestein PC, Russell DH, Ealick SE, Begley TP. PMID: 22031445; PMCID: PMC3205460.
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    358. Imaging mass spectrometry and genome mining via short sequence tagging identified the anti-infective agent arylomycin in Streptomyces roseosporus. J Am Chem Soc. 2011 Nov 16; 133(45):18010-3. Liu WT, Kersten RD, Yang YL, Moore BS, Dorrestein PC. PMID: 21999343; PMCID: PMC3251218.
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    359. A mass spectrometry-guided genome mining approach for natural product peptidogenomics. Nat Chem Biol. 2011 Oct 09; 7(11):794-802. Kersten RD, Yang YL, Xu Y, Cimermancic P, Nam SJ, Fenical W, Fischbach MA, Moore BS, Dorrestein PC. PMID: 21983601; PMCID: PMC3258187.
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    360. Cycloquest: identification of cyclopeptides via database search of their mass spectra against genome databases. J Proteome Res. 2011 Oct 07; 10(10):4505-12. Mohimani H, Liu WT, Mylne JS, Poth AG, Colgrave ML, Tran D, Selsted ME, Dorrestein PC, Pevzner PA. PMID: 21851130; PMCID: PMC3242011.
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    361. Analysis of the ketosynthase-chain length factor heterodimer from the fredericamycin polyketide synthase. Chem Biol. 2011 Aug 26; 18(8):1021-31. Szu PH, Govindarajan S, Meehan MJ, Das A, Nguyen DD, Dorrestein PC, Minshull J, Khosla C. PMID: 21867917; PMCID: PMC3172819.
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    362. Sequencing cyclic peptides by multistage mass spectrometry. Proteomics. 2011 Sep; 11(18):3642-50. Mohimani H, Yang YL, Liu WT, Hsieh PW, Dorrestein PC, Pevzner PA. PMID: 21751357; PMCID: PMC3398611.
      View in: PubMed   Mentions: 19     Fields:    Translation:AnimalsCells
    363. Imaging mass spectrometry in microbiology. Nat Rev Microbiol. 2011 08 08; 9(9):683-94. Watrous JD, Dorrestein PC. PMID: 21822293; PMCID: PMC3710447.
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    364. Phylogeny-guided isolation of ethyl tumonoate A from the marine cyanobacterium cf. Oscillatoria margaritifera. J Nat Prod. 2011 Aug 26; 74(8):1737-43. Engene N, Choi H, Esquenazi E, Byrum T, Villa FA, Cao Z, Murray TF, Dorrestein PC, Gerwick L, Gerwick WH. PMID: 21751786; PMCID: PMC3163041.
      View in: PubMed   Mentions: 11     Fields:    Translation:HumansAnimalsCells
    365. Ion mobility mass spectrometry enables the efficient detection and identification of halogenated natural products from cyanobacteria with minimal sample preparation. Bioorg Med Chem. 2011 Nov 15; 19(22):6639-44. Esquenazi E, Daly M, Bahrainwala T, Gerwick WH, Dorrestein PC. PMID: 21784647.
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    366. Microbial competition between Bacillus subtilis and Staphylococcus aureus monitored by imaging mass spectrometry. Microbiology (Reading). 2011 Sep; 157(Pt 9):2485-2492. Gonzalez DJ, Haste NM, Hollands A, Fleming TC, Hamby M, Pogliano K, Nizet V, Dorrestein PC. PMID: 21719540; PMCID: PMC3352172.
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    367. Probing the in vivo biosynthesis of scytonemin, a cyanobacterial ultraviolet radiation sunscreen, through small scale stable isotope incubation studies and MALDI-TOF mass spectrometry. Bioorg Med Chem. 2011 Nov 15; 19(22):6620-7. Jones CS, Esquenazi E, Dorrestein PC, Gerwick WH. PMID: 21742508; PMCID: PMC3227548.
      View in: PubMed   Mentions: 3     Fields:    Translation:HumansCells
    368. Connecting chemotypes and phenotypes of cultured marine microbial assemblages by imaging mass spectrometry. Angew Chem Int Ed Engl. 2011 Jun 20; 50(26):5839-42. Yang YL, Xu Y, Kersten RD, Liu WT, Meehan MJ, Moore BS, Bandeira N, Dorrestein PC. PMID: 21574228; PMCID: PMC3687529.
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    369. Genomic insights into the physiology and ecology of the marine filamentous cyanobacterium Lyngbya majuscula. Proc Natl Acad Sci U S A. 2011 May 24; 108(21):8815-20. Jones AC, Monroe EA, Podell S, Hess WR, Klages S, Esquenazi E, Niessen S, Hoover H, Rothmann M, Lasken RS, Yates JR, Reinhardt R, Kube M, Burkart MD, Allen EE, Dorrestein PC, Gerwick WH, Gerwick L. PMID: 21555588; PMCID: PMC3102346.
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    370. Policing starter unit selection of the enterocin type II polyketide synthase by the type II thioesterase EncL. Bioorg Med Chem. 2011 Nov 15; 19(22):6633-8. Kalaitzis JA, Cheng Q, Meluzzi D, Xiang L, Izumikawa M, Dorrestein PC, Moore BS. PMID: 21531566; PMCID: PMC3162089.
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    371. Significant natural product biosynthetic potential of actinorhizal symbionts of the genus frankia, as revealed by comparative genomic and proteomic analyses. Appl Environ Microbiol. 2011 Jun; 77(11):3617-25. Udwary DW, Gontang EA, Jones AC, Jones CS, Schultz AW, Winter JM, Yang JY, Beauchemin N, Capson TL, Clark BR, Esquenazi E, Eustáquio AS, Freel K, Gerwick L, Gerwick WH, Gonzalez D, Liu WT, Malloy KL, Maloney KN, Nett M, Nunnery JK, Penn K, Prieto-Davo A, Simmons TL, Weitz S, Wilson MC, Tisa LS, Dorrestein PC, Moore BS. PMID: 21498757; PMCID: PMC3127629.
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    372. Cytotoxic veraguamides, alkynyl bromide-containing cyclic depsipeptides from the marine cyanobacterium cf. Oscillatoria margaritifera. J Nat Prod. 2011 May 27; 74(5):928-36. Mevers E, Liu WT, Engene N, Mohimani H, Byrum T, Pevzner PA, Dorrestein PC, Spadafora C, Gerwick WH. PMID: 21488639; PMCID: PMC3103610.
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    373. Single cell genome amplification accelerates identification of the apratoxin biosynthetic pathway from a complex microbial assemblage. PLoS One. 2011 Apr 12; 6(4):e18565. Grindberg RV, Ishoey T, Brinza D, Esquenazi E, Coates RC, Liu WT, Gerwick L, Dorrestein PC, Pevzner P, Lasken R, Gerwick WH. PMID: 21533272; PMCID: PMC3075265.
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    374. Underestimated biodiversity as a major explanation for the perceived rich secondary metabolite capacity of the cyanobacterial genus Lyngbya. Environ Microbiol. 2011 Jun; 13(6):1601-10. Engene N, Choi H, Esquenazi E, Rottacker EC, Ellisman MH, Dorrestein PC, Gerwick WH. PMID: 21477107; PMCID: PMC3131211.
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    375. Proteomics. J Biomed Biotechnol. 2010; 2010:453045. Garcia BA, Cooper HJ, Dorrestein PC, Tang K, Ueberheide BM. PMID: 21541239; PMCID: PMC3085213.
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    376. Automated querying and identification of novel peptides using MALDI mass spectrometric imaging. J Proteome Res. 2011 Apr 01; 10(4):1915-28. Bruand J, Sistla S, Mériaux C, Dorrestein PC, Gaasterland T, Ghassemian M, Wisztorski M, Fournier I, Salzet M, Macagno E, Bafna V. PMID: 21332220; PMCID: PMC4845900.
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    377. Temporal dynamics of natural product biosynthesis in marine cyanobacteria. Proc Natl Acad Sci U S A. 2011 Mar 29; 108(13):5226-31. Esquenazi E, Jones AC, Byrum T, Dorrestein PC, Gerwick WH. PMID: 21393570; PMCID: PMC3069200.
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    378. 'Omics' of natural products and redox biology. Curr Opin Chem Biol. 2011 Feb; 15(1):3-4. Dorrestein PC, Carroll KS. PMID: 21282071.
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    379. The evolving field of imaging mass spectrometry and its impact on future biological research. J Mass Spectrom. 2011 Feb; 46(2):209-22. Watrous JD, Alexandrov T, Dorrestein PC. PMID: 21322093; PMCID: PMC3303182.
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    380. FT-ICR-MS characterization of intermediates in the biosynthesis of the α-methylbutyrate side chain of lovastatin by the 277 kDa polyketide synthase LovF. Biochemistry. 2011 Jan 18; 50(2):287-99. Meehan MJ, Xie X, Zhao X, Xu W, Tang Y, Dorrestein PC. PMID: 21069965; PMCID: PMC3085095.
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    381. Practical 4'-phosphopantetheine active site discovery from proteomic samples. J Proteome Res. 2011 Jan 07; 10(1):320-9. Meier JL, Patel AD, Niessen S, Meehan M, Kersten R, Yang JY, Rothmann M, Cravatt BF, Dorrestein PC, Burkart MD, Bafna V. PMID: 21067235; PMCID: PMC3042426.
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    382. Integrating '-omics' and natural product discovery platforms to investigate metabolic exchange in microbiomes. Curr Opin Chem Biol. 2011 Feb; 15(1):79-87. Yang JY, Karr JR, Watrous JD, Dorrestein PC. PMID: 21087892; PMCID: PMC3174688.
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    383. Deconvolution and database search of complex tandem mass spectra of intact proteins: a combinatorial approach. Mol Cell Proteomics. 2010 Dec; 9(12):2772-82. Liu X, Inbar Y, Dorrestein PC, Wynne C, Edwards N, Souda P, Whitelegge JP, Bafna V, Pevzner PA. PMID: 20855543; PMCID: PMC3101958.
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    384. Metalloenzymes: Natural product nitrosation. Nat Chem Biol. 2010 Sep; 6(9):636-7. Kersten RD, Dorrestein PC. PMID: 20720546.
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    385. Imaging mass spectrometry of intraspecies metabolic exchange revealed the cannibalistic factors of Bacillus subtilis. Proc Natl Acad Sci U S A. 2010 Sep 14; 107(37):16286-90. Liu WT, Yang YL, Xu Y, Lamsa A, Haste NM, Yang JY, Ng J, Gonzalez D, Ellermeier CD, Straight PD, Pevzner PA, Pogliano J, Nizet V, Pogliano K, Dorrestein PC. PMID: 20805502; PMCID: PMC2941286.
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    386. Elucidating the CXCL12/CXCR4 signaling network in chronic lymphocytic leukemia through phosphoproteomics analysis. PLoS One. 2010 Jul 22; 5(7):e11716. O'Hayre M, Salanga CL, Kipps TJ, Messmer D, Dorrestein PC, Handel TM. PMID: 20661426; PMCID: PMC2908618.
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    387. PHF8 mediates histone H4 lysine 20 demethylation events involved in cell cycle progression. Nature. 2010 Jul 22; 466(7305):508-12. Liu W, Tanasa B, Tyurina OV, Zhou TY, Gassmann R, Liu WT, Ohgi KA, Benner C, Garcia-Bassets I, Aggarwal AK, Desai A, Dorrestein PC, Glass CK, Rosenfeld MG. PMID: 20622854; PMCID: PMC3059551.
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    388. Clostridiolysin S, a post-translationally modified biotoxin from Clostridium botulinum. J Biol Chem. 2010 Sep 03; 285(36):28220-8. Gonzalez DJ, Lee SW, Hensler ME, Markley AL, Dahesh S, Mitchell DA, Bandeira N, Nizet V, Dixon JE, Dorrestein PC. PMID: 20581111; PMCID: PMC2934687.
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    389. Synergistic allelochemicals from a freshwater cyanobacterium. Proc Natl Acad Sci U S A. 2010 Jun 22; 107(25):11183-8. Leão PN, Pereira AR, Liu WT, Ng J, Pevzner PA, Dorrestein PC, König GM, Vasconcelos VM, Gerwick WH. PMID: 20534563; PMCID: PMC2895120.
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    390. A novel Entamoeba histolytica cysteine proteinase, EhCP4, is key for invasive amebiasis and a therapeutic target. J Biol Chem. 2010 Jun 11; 285(24):18516-27. He C, Nora GP, Schneider EL, Kerr ID, Hansell E, Hirata K, Gonzalez D, Sajid M, Boyd SE, Hruz P, Cobo ER, Le C, Liu WT, Eckmann L, Dorrestein PC, Houpt ER, Brinen LS, Craik CS, Roush WR, McKerrow J, Reed SL. PMID: 20378535; PMCID: PMC2881777.
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    391. Enzymatic synthesis of resorcylic acid lactones by cooperation of fungal iterative polyketide synthases involved in hypothemycin biosynthesis. J Am Chem Soc. 2010 Apr 07; 132(13):4530-1. Zhou H, Qiao K, Gao Z, Meehan MJ, Li JW, Zhao X, Dorrestein PC, Vederas JC, Tang Y. PMID: 20222707; PMCID: PMC2861853.
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    392. Palmyramide A, a cyclic depsipeptide from a Palmyra Atoll collection of the marine cyanobacterium Lyngbya majuscula. J Nat Prod. 2010 Mar 26; 73(3):393-8. Taniguchi M, Nunnery JK, Engene N, Esquenazi E, Byrum T, Dorrestein PC, Gerwick WH. PMID: 19839606; PMCID: PMC2862350.
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    393. Capturing bacterial metabolic exchange using thin film desorption electrospray ionization-imaging mass spectrometry. Anal Chem. 2010 Mar 01; 82(5):1598-600. Watrous J, Hendricks N, Meehan M, Dorrestein PC. PMID: 20121185; PMCID: PMC4112561.
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    394. Transcriptional analysis of the jamaicamide gene cluster from the marine cyanobacterium Lyngbya majuscula and identification of possible regulatory proteins. BMC Microbiol. 2009 Dec 01; 9:247. Jones AC, Gerwick L, Gonzalez D, Dorrestein PC, Gerwick WH. PMID: 19951434; PMCID: PMC2799420.
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    395. Expansion of the mycobacterial "PUPylome". Mol Biosyst. 2010 Feb; 6(2):376-85. Watrous J, Burns K, Liu WT, Patel A, Hook V, Bafna V, Barry CE, Bark S, Dorrestein PC. PMID: 20094657; PMCID: PMC2846642.
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    396. Imaging mass spectrometry of natural products. Nat Prod Rep. 2009 Dec; 26(12):1521-34. Esquenazi E, Yang YL, Watrous J, Gerwick WH, Dorrestein PC. PMID: 19936384.
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    397. Translating metabolic exchange with imaging mass spectrometry. Nat Chem Biol. 2009 Dec; 5(12):885-7. Yang YL, Xu Y, Straight P, Dorrestein PC. PMID: 19915536; PMCID: PMC2778862.
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    398. Marinopyrrole A target elucidation by acyl dye transfer. J Am Chem Soc. 2009 Sep 02; 131(34):12094-6. Hughes CC, Yang YL, Liu WT, Dorrestein PC, La Clair JJ, Fenical W. PMID: 19673475; PMCID: PMC2769490.
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    399. Secondary metabolomics: natural products mass spectrometry goes global. ACS Chem Biol. 2009 Aug 21; 4(8):599-601. Kersten RD, Dorrestein PC. PMID: 19817465.
      View in: PubMed   Mentions: 8     Fields:    Translation:AnimalsCells
    400. Dereplication and de novo sequencing of nonribosomal peptides. Nat Methods. 2009 Aug; 6(8):596-9. Ng J, Bandeira N, Liu WT, Ghassemian M, Simmons TL, Gerwick WH, Linington R, Dorrestein PC, Pevzner PA. PMID: 19597502; PMCID: PMC2754211.
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    401. Acyltransferase mediated polyketide release from a fungal megasynthase. J Am Chem Soc. 2009 Jun 24; 131(24):8388-9. Xie X, Meehan MJ, Xu W, Dorrestein PC, Tang Y. PMID: 19530726; PMCID: PMC2878198.
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    402. Interpretation of tandem mass spectra obtained from cyclic nonribosomal peptides. Anal Chem. 2009 Jun 01; 81(11):4200-9. Liu WT, Ng J, Meluzzi D, Bandeira N, Gutierrez M, Simmons TL, Schultz AW, Linington RG, Moore BS, Gerwick WH, Pevzner PA, Dorrestein PC. PMID: 19413302; PMCID: PMC2765223.
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    403. Probing marine natural product defenses with DESI-imaging mass spectrometry. Proc Natl Acad Sci U S A. 2009 May 05; 106(18):7269-70. Esquenazi E, Dorrestein PC, Gerwick WH. PMID: 19416917; PMCID: PMC2678597.
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    404. Phosphoproteomic analysis of chemokine signaling networks. Methods Enzymol. 2009; 460:331-46. O'Hayre M, Salanga CL, Dorrestein PC, Handel TM. PMID: 19446733.
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    405. Proteasomal protein degradation in Mycobacteria is dependent upon a prokaryotic ubiquitin-like protein. J Biol Chem. 2009 Jan 30; 284(5):3069-3075. Burns KE, Liu WT, Boshoff HIM, Dorrestein PC, Barry CE. PMID: 19028679; PMCID: PMC2631945.
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    406. Kinetic isotope effect studies on the de novo rate of chromophore formation in fast- and slow-maturing GFP variants. Biochemistry. 2008 Sep 23; 47(38):10111-22. Pouwels LJ, Zhang L, Chan NH, Dorrestein PC, Wachter RM. PMID: 18759496; PMCID: PMC2643082.
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    407. Discovery of a widely distributed toxin biosynthetic gene cluster. Proc Natl Acad Sci U S A. 2008 Apr 15; 105(15):5879-84. Lee SW, Mitchell DA, Markley AL, Hensler ME, Gonzalez D, Wohlrab A, Dorrestein PC, Nizet V, Dixon JE. PMID: 18375757; PMCID: PMC2311365.
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    408. A sliding docking interaction is essential for sequential and processive phosphorylation of an SR protein by SRPK1. Mol Cell. 2008 Mar 14; 29(5):563-76. Ngo JC, Giang K, Chakrabarti S, Ma CT, Huynh N, Hagopian JC, Dorrestein PC, Fu XD, Adams JA, Ghosh G. PMID: 18342604; PMCID: PMC2852395.
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    409. Visualizing the spatial distribution of secondary metabolites produced by marine cyanobacteria and sponges via MALDI-TOF imaging. Mol Biosyst. 2008 Jun; 4(6):562-70. Esquenazi E, Coates C, Simmons L, Gonzalez D, Gerwick WH, Dorrestein PC. PMID: 18493654; PMCID: PMC2848974.
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    410. Mechanistic studies on pyridoxal phosphate synthase: the reaction pathway leading to a chromophoric intermediate. J Am Chem Soc. 2008 Mar 12; 130(10):3043-52. Hanes JW, Burns KE, Hilmey DG, Chatterjee A, Dorrestein PC, Begley TP. PMID: 18271580.
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    411. Biosynthetic origin of natural products isolated from marine microorganism-invertebrate assemblages. Proc Natl Acad Sci U S A. 2008 Mar 25; 105(12):4587-94. Simmons TL, Coates RC, Clark BR, Engene N, Gonzalez D, Esquenazi E, Dorrestein PC, Gerwick WH. PMID: 18250337; PMCID: PMC2290810.
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    412. A phosphopantetheinylating polyketide synthase producing a linear polyene to initiate enediyne antitumor antibiotic biosynthesis. Proc Natl Acad Sci U S A. 2008 Feb 05; 105(5):1460-5. Zhang J, Van Lanen SG, Ju J, Liu W, Dorrestein PC, Li W, Kelleher NL, Shen B. PMID: 18223152; PMCID: PMC2234166.
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    413. Top-down mass spectrometry on low-resolution instruments: characterization of phosphopantetheinylated carrier domains in polyketide and non-ribosomal biosynthetic pathways. Bioorg Med Chem Lett. 2008 May 15; 18(10):3107-11. Meluzzi D, Zheng WH, Hensler M, Nizet V, Dorrestein PC. PMID: 18006314; PMCID: PMC2519147.
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    414. Incorporation of nonmethyl branches by isoprenoid-like logic: multiple beta-alkylation events in the biosynthesis of myxovirescin A1. Chem Biol. 2007 Jul; 14(7):835-46. Calderone CT, Iwig DF, Dorrestein PC, Kelleher NL, Walsh CT. PMID: 17656320; PMCID: PMC2084360.
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    415. Molecular basis for chloronium-mediated meroterpene cyclization: cloning, sequencing, and heterologous expression of the napyradiomycin biosynthetic gene cluster. J Biol Chem. 2007 Jun 01; 282(22):16362-8. Winter JM, Moffitt MC, Zazopoulos E, McAlpine JB, Dorrestein PC, Moore BS. PMID: 17392281.
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    416. Genome-wide high-throughput mining of natural-product biosynthetic gene clusters by phage display. Chem Biol. 2007 Mar; 14(3):303-12. Yin J, Straight PD, Hrvatin S, Dorrestein PC, Bumpus SB, Jao C, Kelleher NL, Kolter R, Walsh CT. PMID: 17379145.
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    417. Facile detection of acyl and peptidyl intermediates on thiotemplate carrier domains via phosphopantetheinyl elimination reactions during tandem mass spectrometry. Biochemistry. 2006 Oct 24; 45(42):12756-66. Dorrestein PC, Bumpus SB, Calderone CT, Garneau-Tsodikova S, Aron ZD, Straight PD, Kolter R, Walsh CT, Kelleher NL. PMID: 17042494; PMCID: PMC2518290.
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    418. Protein assembly line components in prodigiosin biosynthesis: characterization of PigA,G,H,I,J. J Am Chem Soc. 2006 Oct 04; 128(39):12600-1. Garneau-Tsodikova S, Dorrestein PC, Kelleher NL, Walsh CT. PMID: 17002325.
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    419. Dissecting non-ribosomal and polyketide biosynthetic machineries using electrospray ionization Fourier-Transform mass spectrometry. Nat Prod Rep. 2006 Dec; 23(6):893-918. Dorrestein PC, Kelleher NL. PMID: 17119639.
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    420. The bifunctional glyceryl transferase/phosphatase OzmB belonging to the HAD superfamily that diverts 1,3-bisphosphoglycerate into polyketide biosynthesis. J Am Chem Soc. 2006 Aug 16; 128(32):10386-7. Dorrestein PC, Van Lanen SG, Li W, Zhao C, Deng Z, Shen B, Kelleher NL. PMID: 16895402.
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    421. Substrate specificity of the adenylation enzyme SgcC1 involved in the biosynthesis of the enediyne antitumor antibiotic C-1027. J Biol Chem. 2006 Oct 06; 281(40):29633-40. Van Lanen SG, Lin S, Dorrestein PC, Kelleher NL, Shen B. PMID: 16887797.
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    422. Convergence of isoprene and polyketide biosynthetic machinery: isoprenyl-S-carrier proteins in the pksX pathway of Bacillus subtilis. Proc Natl Acad Sci U S A. 2006 Jun 13; 103(24):8977-82. Calderone CT, Kowtoniuk WE, Kelleher NL, Walsh CT, Dorrestein PC. PMID: 16757561; PMCID: PMC1482551.
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    423. Investigating nonribosomal peptide and polyketide biosynthesis by direct detection of intermediates on >70 kDa polypeptides by using Fourier-transform mass spectrometry. Chembiochem. 2006 Jun; 7(6):904-7. Hicks LM, Mazur MT, Miller LM, Dorrestein PC, Schnarr NA, Khosla C, Kelleher NL. PMID: 16642537.
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    424. A monovalent streptavidin with a single femtomolar biotin binding site. Nat Methods. 2006 Apr; 3(4):267-73. Howarth M, Chinnapen DJ, Gerrow K, Dorrestein PC, Grandy MR, Kelleher NL, El-Husseini A, Ting AY. PMID: 16554831; PMCID: PMC2576293.
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    425. Activity screening of carrier domains within nonribosomal peptide synthetases using complex substrate mixtures and large molecule mass spectrometry. Biochemistry. 2006 Feb 14; 45(6):1537-46. Dorrestein PC, Blackhall J, Straight PD, Fischbach MA, Garneau-Tsodikova S, Edwards DJ, McLaughlin S, Lin M, Gerwick WH, Kolter R, Walsh CT, Kelleher NL. PMID: 16460000; PMCID: PMC2565507.
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    426. Characterization of a new tailoring domain in polyketide biogenesis: the amine transferase domain of MycA in the mycosubtilin gene cluster. J Am Chem Soc. 2005 Nov 02; 127(43):14986-7. Aron ZD, Dorrestein PC, Blackhall JR, Kelleher NL, Walsh CT. PMID: 16248612.
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    427. Dichlorination of a pyrrolyl-S-carrier protein by FADH2-dependent halogenase PltA during pyoluteorin biosynthesis. Proc Natl Acad Sci U S A. 2005 Sep 27; 102(39):13843-8. Dorrestein PC, Yeh E, Garneau-Tsodikova S, Kelleher NL, Walsh CT. PMID: 16162666; PMCID: PMC1236592.
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    428. Biosynthesis of the beta-amino acid moiety of the enediyne antitumor antibiotic C-1027 featuring beta-amino acyl-S-carrier protein intermediates. J Am Chem Soc. 2005 Aug 24; 127(33):11594-5. Van Lanen SG, Dorrestein PC, Christenson SD, Liu W, Ju J, Kelleher NL, Shen B. PMID: 16104723.
      View in: PubMed   Mentions: 23     Fields:    Translation:Cells
    429. Reconstitution of a new cysteine biosynthetic pathway in Mycobacterium tuberculosis. J Am Chem Soc. 2005 Aug 24; 127(33):11602-3. Burns KE, Baumgart S, Dorrestein PC, Zhai H, McLafferty FW, Begley TP. PMID: 16104727; PMCID: PMC2536522.
      View in: PubMed   Mentions: 42     Fields:    Translation:Cells
    430. Simultaneous kinetic characterization of multiple protein forms by top down mass spectrometry. J Am Soc Mass Spectrom. 2005 Jul; 16(7):1052-9. Zhai H, Dorrestein PC, Chatterjee A, Begley TP, McLafferty FW. PMID: 15914018.
      View in: PubMed   Mentions: 6     Fields:    Translation:Cells
    431. Oxidative cascades: a facile biosynthetic strategy for the assembly of complex molecules. Bioorg Chem. 2005 Jun; 33(3):136-48. Dorrestein P, Begley TP. PMID: 15888307.
      View in: PubMed   Mentions: 3     Fields:    Translation:Cells
    432. Characterization of the formation of the pyrrole moiety during clorobiocin and coumermycin A1 biosynthesis. Biochemistry. 2005 Mar 01; 44(8):2770-80. Garneau S, Dorrestein PC, Kelleher NL, Walsh CT. PMID: 15723521.
      View in: PubMed   Mentions: 19     Fields:    Translation:Cells
    433. The biosynthesis of the thiazole phosphate moiety of thiamin: the sulfur transfer mediated by the sulfur carrier protein ThiS. Chem Biol. 2004 Oct; 11(10):1373-81. Dorrestein PC, Zhai H, McLafferty FW, Begley TP. PMID: 15489164.
      View in: PubMed   Mentions: 25     Fields:    Translation:Cells
    434. Thiamin biosynthesis in Bacillus subtilis: structure of the thiazole synthase/sulfur carrier protein complex. Biochemistry. 2004 Sep 21; 43(37):11647-57. Settembre EC, Dorrestein PC, Zhai H, Chatterjee A, McLafferty FW, Begley TP, Ealick SE. PMID: 15362849.
      View in: PubMed   Mentions: 16     Fields:    Translation:Cells
    435. The biosynthesis of the thiazole phosphate moiety of thiamin (vitamin B1): the early steps catalyzed by thiazole synthase. J Am Chem Soc. 2004 Mar 17; 126(10):3091-6. Dorrestein PC, Zhai H, Taylor SV, McLafferty FW, Begley TP. PMID: 15012138.
      View in: PubMed   Mentions: 16     Fields:    Translation:Cells
    436. Biosynthesis of the thiazole moiety of thiamin pyrophosphate (vitamin B1). Biochemistry. 2003 Oct 28; 42(42):12430-8. Park JH, Dorrestein PC, Zhai H, Kinsland C, McLafferty FW, Begley TP. PMID: 14567704.
      View in: PubMed   Mentions: 40     Fields:    Translation:Cells
    437. Aerobic tryptophan degradation pathway in bacteria: novel kynurenine formamidase. FEMS Microbiol Lett. 2003 Oct 24; 227(2):219-27. Kurnasov O, Jablonski L, Polanuyer B, Dorrestein P, Begley T, Osterman A. PMID: 14592712.
      View in: PubMed   Mentions: 41     Fields:    Translation:Cells
    438. Formation of the dimethylbenzimidazole ligand of coenzyme B(12) under physiological conditions by a facile oxidative cascade. Org Lett. 2003 Jun 26; 5(13):2211-3. Maggio-Hall LA, Dorrestein PC, Escalante-Semerena JC, Begley TP. PMID: 12816411.
      View in: PubMed   Mentions: 15     Fields:    Translation:Cells
    439. Formation of the chromophore of the pyoverdine siderophores by an oxidative cascade. Org Lett. 2003 Jun 26; 5(13):2215-7. Dorrestein PC, Poole K, Begley TP. PMID: 12816412.
      View in: PubMed   Mentions: 9     Fields:    Translation:Cells
    440. Structural and mechanistic studies on ThiO, a glycine oxidase essential for thiamin biosynthesis in Bacillus subtilis. Biochemistry. 2003 Mar 18; 42(10):2971-81. Settembre EC, Dorrestein PC, Park JH, Augustine AM, Begley TP, Ealick SE. PMID: 12627963.
      View in: PubMed   Mentions: 40     Fields:    Translation:Cells
    441. Synthesis and physical characterization of some new hydrophobic forms of the solvatochromic N,N-dialkyl-p-nitroanilines. J Org Chem. 2001 Jun 01; 66(11):4050-4. Mansour G, Creedon W, Dorrestein PC, Maxka J, MacDonald JC, Helburn R. PMID: 11375035.
      View in: PubMed   Mentions:    Fields:    
    442. The biosynthesis of nicotinamide adenine dinucleotides in bacteria. Vitam Horm. 2001; 61:103-19. Begley TP, Kinsland C, Mehl RA, Osterman A, Dorrestein P. PMID: 11153263.
      View in: PubMed   Mentions: 53     Fields:    Translation:Cells