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Pieter Dorrestein

TitleProfessor
InstitutionUniversity of California San Diego
DepartmentSchool of Pharmacy and Pharmaceutical Science
Address9500 Gilman Drive #0751
La Jolla CA 92093
Phone858-534-6607
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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/NCI R03CA211211Sep 15, 2016 - Aug 31, 2017
    Role: Principal Investigator
    Tools for rapid and accurate structure elucidation of natural products
    NIH/NIGMS R01GM107550Sep 5, 2013 - Apr 30, 2021
    Role: Principal Investigator
    Experiment based genome mining of ribosomal natural products
    NIH/NIGMS R01GM097509Apr 1, 2012 - Feb 29, 2016
    Role: Principal Investigator
    Synapt ion mobility mass spectrometer
    NIH/NCRR S10RR029121Jun 15, 2011 - Jun 14, 2012
    Role: Principal Investigator
    The chemical and genetic basis of interspecies interactions
    NIH/NIAID R01AI095125Mar 7, 2011 - Feb 28, 2015
    Role: Principal Investigator
    Real-Time Imaging of metabolic Communication
    NIH/NIGMS R01GM094802Sep 1, 2010 - Aug 31, 2014
    Role: Principal Investigator
    New approaches to sequencing of complex peptides.
    NIH/NIGMS R01GM086283Sep 25, 2008 - Aug 31, 2012
    Role: Principal Investigator
    Enzymology of NRPS and PKS proteins by mass spectrometry
    NIH/NIGMS F32GM073323Mar 16, 2005 - Mar 15, 2008
    Role: Principal Investigator

    Collapse ORNG Applications 
    Collapse Websites

    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.
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    1. Torres-Mendoza D, Coronado LM, Pineda LM, Guzmán HM, Dorrestein PC, Spadafora C, Gutiérrez M. Pumilacidins from the Octocoral-Associated Bacillus sp. DT001 Display Anti-Proliferative Effects in Plasmodium falciparum. Molecules. 2018 Aug 29; 23(9). PMID: 30158478.
      View in: PubMed
    2. 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. Before platelets: the production of platelet-activating factor during growth and stress in a basal marine organism. Proc Biol Sci. 2018 Aug 15; 285(1884). PMID: 30111600.
      View in: PubMed
    3. Kang KB, Park EJ, da Silva RR, Kim HW, Dorrestein PC, Sung SH. Targeted Isolation of Neuroprotective Dicoumaroyl Neolignans and Lignans from Sageretia theezans Using in Silico Molecular Network Annotation Propagation-Based Dereplication. J Nat Prod. 2018 Aug 24; 81(8):1819-1828. PMID: 30106290.
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    4. 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. Are microbiome studies ready for hypothesis-driven research? Curr Opin Microbiol. 2018 Jul 27; 44:61-69. PMID: 30059804.
      View in: PubMed
    5. 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. Author Correction: Inflammation-induced IgA+ cells dismantle anti-liver cancer immunity. Nature. 2018 Jul 04. PMID: 29973714.
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    6. Patin NV, Floros DJ, Hughes CC, Dorrestein PC, Jensen PR. The role of inter-species interactions in Salinispora specialized metabolism. Microbiology. 2018 Jun 07. PMID: 29877785.
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    7. 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. Intermittent Hypoxia and Hypercapnia, a Hallmark of Obstructive Sleep Apnea, Alters the Gut Microbiome and Metabolome. mSystems. 2018 May-Jun; 3(3). PMID: 29896566.
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    8. 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. Best practices for analysing microbiomes. Nat Rev Microbiol. 2018 May 23. PMID: 29795328.
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    9. 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: an Open Platform for Citizen Science Microbiome Research. mSystems. 2018 May-Jun; 3(3). PMID: 29795809.
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    10. da Silva RR, Wang M, Nothias LF, van der Hooft JJJ, Caraballo-Rodríguez AM, Fox E, Balunas MJ, Klassen JL, Lopes NP, Dorrestein PC. Propagating annotations of molecular networks using in silico fragmentation. PLoS Comput Biol. 2018 Apr; 14(4):e1006089. PMID: 29668671.
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    11. McCall LI, Tripathi A, Vargas F, Knight R, Dorrestein PC, Siqueira-Neto JL. Experimental Chagas disease-induced perturbations of the fecal microbiome and metabolome. PLoS Negl Trop Dis. 2018 Mar; 12(3):e0006344. PMID: 29529084.
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    12. Dorrestein PC, Balskus EP. Chemical signaling at the eukaryotic/prokaryotic interface. Chem Soc Rev. 2018 Mar 05; 47(5):1572-1573. PMID: 29479607.
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    13. 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. Bioactivity-Based Molecular Networking for the Discovery of Drug Leads in Natural Product Bioassay-Guided Fractionation. J Nat Prod. 2018 Apr 27; 81(4):758-767. PMID: 29498278.
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    14. 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. Creating a 3D microbial and chemical snapshot of a human habitat. Sci Rep. 2018 Feb 27; 8(1):3669. PMID: 29487294.
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    15. Puri AW, Mevers E, Ramadhar TR, Petras D, Liu D, Piel J, Dorrestein PC, Greenberg EP, Lidstrom ME, Clardy J. Tundrenone: An Atypical Secondary Metabolite from Bacteria with Highly Restricted Primary Metabolism. J Am Chem Soc. 2018 Feb 14; 140(6):2002-2006. PMID: 29361220.
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    16. Pla D, Petras D, Saviola AJ, Modahl CM, Sanz L, Pérez A, Juárez E, Frietze S, Dorrestein PC, Mackessy SP, Calvete JJ. 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 Mar 01; 174:71-84. PMID: 29292096.
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    17. Hoffmann M, Auerbach D, Panter F, Hoffmann T, Dorrestein PC, Müller R. 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. PMID: 29185703.
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    18. Protsyuk I, Melnik AV, Nothias LF, Rappez L, Phapale P, Aksenov AA, Bouslimani A, Ryazanov S, Dorrestein PC, Alexandrov T. 3D molecular cartography using LC-MS facilitated by Optimus and 'ili software. Nat Protoc. 2018 Jan; 13(1):134-154. PMID: 29266099.
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    19. 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. Erratum: Inflammation-induced IgA+ cells dismantle anti-liver cancer immunity. Nature. 2017 12 21; 552(7685):430. PMID: 29168501.
      View in: PubMed
    20. Scheubert K, Hufsky F, Petras D, Wang M, Nothias LF, Dührkop K, Bandeira N, Dorrestein PC, Böcker S. Significance estimation for large scale metabolomics annotations by spectral matching. Nat Commun. 2017 Nov 14; 8(1):1494. PMID: 29133785.
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    21. 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. Inflammation-induced IgA+ cells dismantle anti-liver cancer immunity. Nature. 2017 11 16; 551(7680):340-345. PMID: 29144460.
      View in: PubMed
    22. Xue J, Zhou D, Poulsen O, Imamura T, Hsiao YH, Smith TH, Malhotra A, Dorrestein P, Knight R, Haddad GG. Intermittent Hypoxia and Hypercapnia Accelerate Atherosclerosis, Partially via Trimethylamine-Oxide. Am J Respir Cell Mol Biol. 2017 11; 57(5):581-588. PMID: 28678519.
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    23. 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. Three-Dimensional Microbiome and Metabolome Cartography of a Diseased Human Lung. Cell Host Microbe. 2017 Nov 08; 22(5):705-716.e4. PMID: 29056429.
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    24. 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. Total Synthesis and Biological Assessment of Novel Albicidins Discovered by Mass Spectrometric Networking. Chemistry. 2017 Nov 02; 23(61):15316-15321. PMID: 28876492.
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    25. Hartmann AC, Petras D, Quinn RA, Protsyuk I, Archer FI, Ransome E, Williams GJ, Bailey BA, Vermeij MJA, Alexandrov T, Dorrestein PC, Rohwer FL. Meta-mass shift chemical profiling of metabolomes from coral reefs. Proc Natl Acad Sci U S A. 2017 Oct 31; 114(44):11685-11690. PMID: 29078340.
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    26. Vázquez-Baeza Y, Callewaert C, Debelius J, Hyde E, Marotz C, Morton JT, Swafford A, Vrbanac A, Dorrestein PC, Knight R. Impacts of the Human Gut Microbiome on Therapeutics. Annu Rev Pharmacol Toxicol. 2018 Jan 06; 58:253-270. PMID: 28968189.
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    27. McCall LI, Morton JT, Bernatchez JA, de Siqueira-Neto JL, Knight R, Dorrestein PC, McKerrow JH. Mass Spectrometry-Based Chemical Cartography of a Cardiac Parasitic Infection. Anal Chem. 2017 Oct 03; 89(19):10414-10421. PMID: 28892370.
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    28. 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. 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 Oct 27; 80(10):2620-2629. PMID: 28925702.
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    29. 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. 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 Feb 10; 172:173-189. PMID: 28843532.
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    30. 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. 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 Aug 25; 80(8):2328-2334. PMID: 28783331.
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    31. Hsu CC, Baker MW, Gaasterland T, Meehan MJ, Macagno ER, Dorrestein PC. Top-Down Atmospheric Ionization Mass Spectrometry Microscopy Combined With Proteogenomics. Anal Chem. 2017 Aug 15; 89(16):8251-8258. PMID: 28692290.
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    32. Edlund A, Garg N, Mohimani H, Gurevich A, He X, Shi W, Dorrestein PC, McLean JS. Metabolic Fingerprints from the Human Oral Microbiome Reveal a Vast Knowledge Gap of Secreted Small Peptidic Molecules. mSystems. 2017 Jul-Aug; 2(4). PMID: 28761934.
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    33. Boya P CA, Fernández-Marín H, Mejía LC, Spadafora C, Dorrestein PC, Gutiérrez M. 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 Jul 17; 7(1):5604. PMID: 28717220.
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    34. Caraballo-Rodríguez AM, Dorrestein PC, Pupo MT. Molecular inter-kingdom interactions of endophytes isolated from Lychnophora ericoides. Sci Rep. 2017 Jul 14; 7(1):5373. PMID: 28710400.
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    35. 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. Coupling Targeted and Untargeted Mass Spectrometry for Metabolome-Microbiome-Wide Association Studies of Human Fecal Samples. Anal Chem. 2017 Jul 18; 89(14):7549-7559. PMID: 28628333.
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    36. Califf KJ, Schwarzberg-Lipson K, Garg N, Gibbons SM, Caporaso JG, Slots J, Cohen C, Dorrestein PC, Kelley ST. Multi-omics Analysis of Periodontal Pocket Microbial Communities Pre- and Posttreatment. mSystems. 2017 May-Jun; 2(3). PMID: 28744486.
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    37. 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. Digitizing mass spectrometry data to explore the chemical diversity and distribution of marine cyanobacteria and algae. Elife. 2017 05 11; 6. PMID: 28492366.
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    38. Vrbanac A, Debelius JW, Jiang L, Morton JT, Dorrestein P, Knight R. An Elegan(t) Screen for Drug-Microbe Interactions. Cell Host Microbe. 2017 May 10; 21(5):555-556. PMID: 28494234.
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    39. Comstock WJ, Huh E, Weekes R, Watson C, Xu T, Dorrestein PC, Quinn RA. 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). PMID: 28518116.
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    40. 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. A Maldiisotopic Approach to Discover Natural Products: Cryptomaldamide, a Hybrid Tripeptide from the Marine Cyanobacterium Moorea producens. J Nat Prod. 2017 May 26; 80(5):1514-1521. PMID: 28448144.
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    41. Chagas FO, Caraballo-Rodríguez AM, Dorrestein PC, Pupo MT. Expanding the Chemical Repertoire of the Endophyte Streptomyces albospinus RLe7 Reveals Amphotericin B as an Inducer of a Fungal Phenotype. J Nat Prod. 2017 May 26; 80(5):1302-1309. PMID: 28375005.
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    42. Metcalf JL, Xu ZZ, Bouslimani A, Dorrestein P, Carter DO, Knight R. Microbiome Tools for Forensic Science. Trends Biotechnol. 2017 09; 35(9):814-823. PMID: 28366290.
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    43. Floros DJ, Petras D, Kapono CA, Melnik AV, Ling TJ, Knight R, Dorrestein PC. Mass Spectrometry Based Molecular 3D-Cartography of Plant Metabolites. Front Plant Sci. 2017; 8:429. PMID: 28405197.
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    44. 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. Antimicrobials from human skin commensal bacteria protect against Staphylococcus aureus and are deficient in atopic dermatitis. Sci Transl Med. 2017 02 22; 9(378). PMID: 28228596.
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    45. 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. Erratum: Indexing the Pseudomonas specialized metabolome enabled the discovery of poaeamide B and the bananamides. Nat Microbiol. 2017 01 23; 2:17010. PMID: 28112718.
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    46. 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. Balance Trees Reveal Microbial Niche Differentiation. mSystems. 2017 Jan-Feb; 2(1). PMID: 28144630.
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    47. Petras D, Jarmusch AK, Dorrestein PC. From single cells to our planet-recent advances in using mass spectrometry for spatially resolved metabolomics. Curr Opin Chem Biol. 2017 Feb; 36:24-31. PMID: 28086192.
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    48. Naman CB, Rattan R, Nikoulina SE, Lee J, Miller BW, Moss NA, Armstrong L, Boudreau PD, Debonsi HM, Valeriote FA, Dorrestein PC, Gerwick WH. 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 Mar 24; 80(3):625-633. PMID: 28055219.
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    49. 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. Spatial Molecular Architecture of the Microbial Community of a Peltigera Lichen. mSystems. 2016 Nov-Dec; 1(6). PMID: 28028548.
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    50. Nothias LF, Knight R, Dorrestein PC. Antibiotic discovery is a walk in the park. Proc Natl Acad Sci U S A. 2016 12 20; 113(51):14477-14479. PMID: 27940910.
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    51. Garg N, Luzzatto-Knaan T, Melnik AV, Caraballo-Rodríguez AM, Floros DJ, Petras D, Gregor R, Dorrestein PC, Phelan VV. Natural products as mediators of disease. Nat Prod Rep. 2017 Feb 01; 34(2):194-219. PMID: 27874907.
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    52. Bouslimani A, Melnik AV, Xu Z, Amir A, da Silva RR, Wang M, Bandeira N, Alexandrov T, Knight R, Dorrestein PC. Lifestyle chemistries from phones for individual profiling. Proc Natl Acad Sci U S A. 2016 11 29; 113(48):E7645-E7654. PMID: 27849584.
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    53. Crüsemann M, O'Neill EC, Larson CB, Melnik AV, Floros DJ, da Silva RR, Jensen PR, Dorrestein PC, Moore BS. Prioritizing Natural Product Diversity in a Collection of 146 Bacterial Strains Based on Growth and Extraction Protocols. J Nat Prod. 2017 Mar 24; 80(3):588-597. PMID: 28335604.
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    54. Quinn RA, Nothias LF, Vining O, Meehan M, Esquenazi E, Dorrestein PC. Molecular Networking As a Drug Discovery, Drug Metabolism, and Precision Medicine Strategy. Trends Pharmacol Sci. 2017 02; 38(2):143-154. PMID: 27842887.
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    55. 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. SPLASH, a hashed identifier for mass spectra. Nat Biotechnol. 2016 Nov 08; 34(11):1099-1101. PMID: 27824832.
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    56. 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. Indexing the Pseudomonas specialized metabolome enabled the discovery of poaeamide B and the bananamides. Nat Microbiol. 2016 10 31; 2:16197. PMID: 27798598.
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    57. Mohimani H, Gurevich A, Mikheenko A, Garg N, Nothias LF, Ninomiya A, Takada K, Dorrestein PC, Pevzner PA. Dereplication of peptidic natural products through database search of mass spectra. Nat Chem Biol. 2017 Jan; 13(1):30-37. PMID: 27820803.
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    58. 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. Mass Spectrometry-Based Visualization of Molecules Associated with Human Habitats. Anal Chem. 2016 Nov 15; 88(22):10775-10784. PMID: 27732780.
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    59. Mir Mohseni M, Höver T, Barra L, Kaiser M, Dorrestein PC, Dickschat JS, Schäberle TF. 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 Oct 17; 55(43):13611-13614. PMID: 27667141.
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    60. 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. Correction to 'Metabolomics of reef benthic interactions reveals a bioactive lipid involved in coral defence'. Proc Biol Sci. 2016 Aug 31; 283(1837). PMID: 27559065; PMCID: PMC5013801.
    61. Quinn RA, Lim YW, Mak TD, Whiteson K, Furlan M, Conrad D, Rohwer F, Dorrestein P. Metabolomics of pulmonary exacerbations reveals the personalized nature of cystic fibrosis disease. PeerJ. 2016; 4:e2174. PMID: 27602256; PMCID: PMC4991883.
    62. Floros DJ, Jensen PR, Dorrestein PC, Koyama N. A metabolomics guided exploration of marine natural product chemical space. Metabolomics. 2016 Sep; 12(9). PMID: 28819353.
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    80. 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. Legonaridin, a new member of linaridin RiPP from a Ghanaian Streptomyces isolate. Org Biomol Chem. 2015 Oct 07; 13(37):9585-92. PMID: 26256511.
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    134. Hsu CC, White NM, Hayashi M, Lin EC, Poon T, Banerjee I, Chen J, Pfaff SL, Macagno ER, Dorrestein PC. Microscopy ambient ionization top-down mass spectrometry reveals developmental patterning. Proc Natl Acad Sci U S A. 2013 Sep 10; 110(37):14855-60. PMID: 23969833; PMCID: PMC3773749.
    135. Traxler MF, Watrous JD, Alexandrov T, Dorrestein PC, Kolter R. Interspecies interactions stimulate diversification of the Streptomyces coelicolor secreted metabolome. MBio. 2013 Aug 20; 4(4). PMID: 23963177; PMCID: PMC3747584.
    136. Soriano EV, Zhang Y, Colabroy KL, Sanders JM, Settembre EC, Dorrestein PC, Begley TP, Ealick SE. Active-site models for complexes of quinolinate synthase with substrates and intermediates. Acta Crystallogr D Biol Crystallogr. 2013 Sep; 69(Pt 9):1685-96. PMID: 23999292; PMCID: PMC3760129.
    137. Moree WJ, Yang JY, Zhao X, Liu WT, Aparicio M, Atencio L, Ballesteros J, Sánchez J, Gavilán RG, Gutiérrez M, Dorrestein PC. Imaging mass spectrometry of a coral microbe interaction with fungi. J Chem Ecol. 2013 Jul; 39(7):1045-54. PMID: 23881443; PMCID: PMC3839821.
    138. 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. Real-time metabolomics on living microorganisms using ambient electrospray ionization flow-probe. Anal Chem. 2013 Aug 06; 85(15):7014-8. PMID: 23819546; PMCID: PMC3890442.
    139. 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. 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. PMID: 23798442; PMCID: PMC3710860.
    140. Pérez Morales TG, Ho TD, Liu WT, Dorrestein PC, Ellermeier CD. Production of the cannibalism toxin SDP is a multistep process that requires SdpA and SdpB. J Bacteriol. 2013 Jul; 195(14):3244-51. PMID: 23687264; PMCID: PMC3697648.
    141. Kersten RD, Lane AL, Nett M, Richter TK, Duggan BM, Dorrestein PC, Moore BS. Bioactivity-guided genome mining reveals the lomaiviticin biosynthetic gene cluster in Salinispora tropica. Chembiochem. 2013 May 27; 14(8):955-62. PMID: 23649992; PMCID: PMC3755882.
    142. Rath CM, Yang JY, Alexandrov T, Dorrestein PC. Data-independent microbial metabolomics with ambient ionization mass spectrometry. J Am Soc Mass Spectrom. 2013 Aug; 24(8):1167-76. PMID: 23568029; PMCID: PMC3715584.
    143. Sanchez LM, Dorrestein PC. Analytical chemistry: Virulence caught green-handed. Nat Chem. 2013 Mar; 5(3):155-7. PMID: 23422554; PMCID: PMC4415365.
    144. van Sorge NM, Beasley FC, Gusarov I, Gonzalez DJ, von Köckritz-Blickwede M, Anik S, Borkowski AW, Dorrestein PC, Nudler E, Nizet V. 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. PMID: 23322784; PMCID: PMC3585076.
    145. Ross AC, Xu Y, Lu L, Kersten RD, Shao Z, Al-Suwailem AM, Dorrestein PC, Qian PY, Moore BS. Biosynthetic multitasking facilitates thalassospiramide structural diversity in marine bacteria. J Am Chem Soc. 2013 Jan 23; 135(3):1155-62. PMID: 23270364; PMCID: PMC3563429.
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    147. 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. 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. PMID: 23165928; PMCID: PMC3954855.
    148. Young TS, Dorrestein PC, Walsh CT. Codon randomization for rapid exploration of chemical space in thiopeptide antibiotic variants. Chem Biol. 2012 Dec 21; 19(12):1600-10. PMID: 23261603; PMCID: PMC3530156.
    149. Song J, Liu X, Wu J, Meehan MJ, Blevitt JM, Dorrestein PC, Milla ME. 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. PMID: 23103340.
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    151. Hollands A, Gonzalez D, Leire E, Donald C, Gallo RL, Sanderson-Smith M, Dorrestein PC, Nizet V. A bacterial pathogen co-opts host plasmin to resist killing by cathelicidin antimicrobial peptides. J Biol Chem. 2012 Nov 30; 287(49):40891-7. PMID: 23038245; PMCID: PMC3510793.
    152. Guthals A, Watrous JD, Dorrestein PC, Bandeira N. The spectral networks paradigm in high throughput mass spectrometry. Mol Biosyst. 2012 Oct; 8(10):2535-44. PMID: 22610447; PMCID: PMC3893064.
    153. Boudreau PD, Byrum T, Liu WT, Dorrestein PC, Gerwick WH. 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. PMID: 22924493; PMCID: PMC3521035.
    154. Roberts AA, Schultz AW, Kersten RD, Dorrestein PC, Moore BS. 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. PMID: 22812504; PMCID: PMC4209017.
    155. Moree WJ, Phelan VV, Wu CH, Bandeira N, Cornett DS, Duggan BM, Dorrestein PC. Interkingdom metabolic transformations captured by microbial imaging mass spectrometry. Proc Natl Acad Sci U S A. 2012 Aug 21; 109(34):13811-6. PMID: 22869730; PMCID: PMC3427086.
    156. Hoefler BC, Gorzelnik KV, Yang JY, Hendricks N, Dorrestein PC, Straight PD. 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. PMID: 22826229; PMCID: PMC3420176.
    157. Yang JY, Phelan VV, Simkovsky R, Watrous JD, Trial RM, Fleming TC, Wenter R, Moore BS, Golden SS, Pogliano K, Dorrestein PC. Primer on agar-based microbial imaging mass spectrometry. J Bacteriol. 2012 Nov; 194(22):6023-8. PMID: 22821974; PMCID: PMC3486372.
    158. Gonzalez DJ, Xu Y, Yang YL, Esquenazi E, Liu WT, Edlund A, Duong T, Du L, Molnár I, Gerwick WH, Jensen PR, Fischbach M, Liaw CC, Straight P, Nizet V, Dorrestein PC. Observing the invisible through imaging mass spectrometry, a window into the metabolic exchange patterns of microbes. J Proteomics. 2012 Aug 30; 75(16):5069-76. PMID: 22641157; PMCID: PMC3543690.
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    160. Xu Y, Kersten RD, Nam SJ, Lu L, Al-Suwailem AM, Zheng H, Fenical W, Dorrestein PC, Moore BS, Qian PY. Bacterial biosynthesis and maturation of the didemnin anti-cancer agents. J Am Chem Soc. 2012 May 23; 134(20):8625-32. PMID: 22458477; PMCID: PMC3401512.
    161. Lamsa A, Liu WT, Dorrestein PC, Pogliano K. The Bacillus subtilis cannibalism toxin SDP collapses the proton motive force and induces autolysis. Mol Microbiol. 2012 May; 84(3):486-500. PMID: 22469514; PMCID: PMC3839633.
    162. 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. 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. PMID: 22371493; PMCID: PMC3340166.
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    164. Phelan VV, Liu WT, Pogliano K, Dorrestein PC. Microbial metabolic exchange--the chemotype-to-phenotype link. Nat Chem Biol. 2011 Dec 15; 8(1):26-35. PMID: 22173357; PMCID: PMC3869239.
    165. Yang L, Lin C, Liu W, Zhang J, Ohgi KA, Grinstein JD, Dorrestein PC, Rosenfeld MG. ncRNA- and Pc2 methylation-dependent gene relocation between nuclear structures mediates gene activation programs. Cell. 2011 Nov 11; 147(4):773-88. PMID: 22078878; PMCID: PMC3297197.
    166. Mohimani H, Liu WT, Yang YL, Gaudêncio SP, Fenical W, Dorrestein PC, Pevzner PA. Multiplex de novo sequencing of peptide antibiotics. J Comput Biol. 2011 Nov; 18(11):1371-81. PMID: 22035290; PMCID: PMC3216106.
    167. Chatterjee A, Abeydeera ND, Bale S, Pai PJ, Dorrestein PC, Russell DH, Ealick SE, Begley TP. Saccharomyces cerevisiae THI4p is a suicide thiamine thiazole synthase. Nature. 2011 Oct 26; 478(7370):542-6. PMID: 22031445; PMCID: PMC3205460.
    168. Liu WT, Kersten RD, Yang YL, Moore BS, Dorrestein PC. 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. PMID: 21999343; PMCID: PMC3251218.
    169. Kersten RD, Yang YL, Xu Y, Cimermancic P, Nam SJ, Fenical W, Fischbach MA, Moore BS, Dorrestein PC. A mass spectrometry-guided genome mining approach for natural product peptidogenomics. Nat Chem Biol. 2011 Oct 09; 7(11):794-802. PMID: 21983601; PMCID: PMC3258187.
    170. Mohimani H, Liu WT, Mylne JS, Poth AG, Colgrave ML, Tran D, Selsted ME, Dorrestein PC, Pevzner PA. Cycloquest: identification of cyclopeptides via database search of their mass spectra against genome databases. J Proteome Res. 2011 Oct 07; 10(10):4505-12. PMID: 21851130; PMCID: PMC3242011.
    171. Szu PH, Govindarajan S, Meehan MJ, Das A, Nguyen DD, Dorrestein PC, Minshull J, Khosla C. Analysis of the ketosynthase-chain length factor heterodimer from the fredericamycin polyketide synthase. Chem Biol. 2011 Aug 26; 18(8):1021-31. PMID: 21867917; PMCID: PMC3172819.
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    174. Engene N, Choi H, Esquenazi E, Byrum T, Villa FA, Cao Z, Murray TF, Dorrestein PC, Gerwick L, Gerwick WH. Phylogeny-guided isolation of ethyl tumonoate A from the marine cyanobacterium cf. Oscillatoria margaritifera. J Nat Prod. 2011 Aug 26; 74(8):1737-43. PMID: 21751786; PMCID: PMC3163041.
    175. Esquenazi E, Daly M, Bahrainwala T, Gerwick WH, Dorrestein PC. 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. PMID: 21784647.
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    177. Jones CS, Esquenazi E, Dorrestein PC, Gerwick WH. 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. PMID: 21742508; PMCID: PMC3227548.
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    179. 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. 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. PMID: 21555588; PMCID: PMC3102346.
    180. Kalaitzis JA, Cheng Q, Meluzzi D, Xiang L, Izumikawa M, Dorrestein PC, Moore BS. 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. PMID: 21531566; PMCID: PMC3162089.
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    182. Mevers E, Liu WT, Engene N, Mohimani H, Byrum T, Pevzner PA, Dorrestein PC, Spadafora C, Gerwick WH. Cytotoxic veraguamides, alkynyl bromide-containing cyclic depsipeptides from the marine cyanobacterium cf. Oscillatoria margaritifera. J Nat Prod. 2011 May 27; 74(5):928-36. PMID: 21488639; PMCID: PMC3103610.
    183. Grindberg RV, Ishoey T, Brinza D, Esquenazi E, Coates RC, Liu WT, Gerwick L, Dorrestein PC, Pevzner P, Lasken R, Gerwick WH. Single cell genome amplification accelerates identification of the apratoxin biosynthetic pathway from a complex microbial assemblage. PLoS One. 2011 Apr 12; 6(4):e18565. PMID: 21533272.
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    185. Garcia BA, Cooper HJ, Dorrestein PC, Tang K, Ueberheide BM. Proteomics. J Biomed Biotechnol. 2010; 2010:453045. PMID: 21541239; PMCID: PMC3085213.
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    188. Dorrestein PC, Carroll KS. 'Omics' of natural products and redox biology. Curr Opin Chem Biol. 2011 Feb; 15(1):3-4. PMID: 21282071.
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    190. Meehan MJ, Xie X, Zhao X, Xu W, Tang Y, Dorrestein PC. FT-ICR-MS characterization of intermediates in the biosynthesis of the a-methylbutyrate side chain of lovastatin by the 277 kDa polyketide synthase LovF. Biochemistry. 2011 Jan 18; 50(2):287-99. PMID: 21069965; PMCID: PMC3085095.
    191. Meier JL, Patel AD, Niessen S, Meehan M, Kersten R, Yang JY, Rothmann M, Cravatt BF, Dorrestein PC, Burkart MD, Bafna V. Practical 4'-phosphopantetheine active site discovery from proteomic samples. J Proteome Res. 2011 Jan 07; 10(1):320-9. PMID: 21067235; PMCID: PMC3042426.
    192. Yang JY, Karr JR, Watrous JD, Dorrestein PC. Integrating '-omics' and natural product discovery platforms to investigate metabolic exchange in microbiomes. Curr Opin Chem Biol. 2011 Feb; 15(1):79-87. PMID: 21087892; PMCID: PMC3174688.
    193. Liu X, Inbar Y, Dorrestein PC, Wynne C, Edwards N, Souda P, Whitelegge JP, Bafna V, Pevzner PA. Deconvolution and database search of complex tandem mass spectra of intact proteins: a combinatorial approach. Mol Cell Proteomics. 2010 Dec; 9(12):2772-82. PMID: 20855543; PMCID: PMC3101958.
    194. Kersten RD, Dorrestein PC. Metalloenzymes: Natural product nitrosation. Nat Chem Biol. 2010 Sep; 6(9):636-7. PMID: 20720546.
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    195. 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. 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. PMID: 20805502; PMCID: PMC2941286.
    196. O'Hayre M, Salanga CL, Kipps TJ, Messmer D, Dorrestein PC, Handel TM. Elucidating the CXCL12/CXCR4 signaling network in chronic lymphocytic leukemia through phosphoproteomics analysis. PLoS One. 2010 Jul 22; 5(7):e11716. PMID: 20661426; PMCID: PMC2908618.
    197. 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. PHF8 mediates histone H4 lysine 20 demethylation events involved in cell cycle progression. Nature. 2010 Jul 22; 466(7305):508-12. PMID: 20622854; PMCID: PMC3059551.
    198. Gonzalez DJ, Lee SW, Hensler ME, Markley AL, Dahesh S, Mitchell DA, Bandeira N, Nizet V, Dixon JE, Dorrestein PC. Clostridiolysin S, a post-translationally modified biotoxin from Clostridium botulinum. J Biol Chem. 2010 Sep 03; 285(36):28220-8. PMID: 20581111; PMCID: PMC2934687.
    199. Leão PN, Pereira AR, Liu WT, Ng J, Pevzner PA, Dorrestein PC, König GM, Vasconcelos VM, Gerwick WH. Synergistic allelochemicals from a freshwater cyanobacterium. Proc Natl Acad Sci U S A. 2010 Jun 22; 107(25):11183-8. PMID: 20534563; PMCID: PMC2895120.
    200. 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. 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. PMID: 20378535; PMCID: PMC2881777.
    201. Zhou H, Qiao K, Gao Z, Meehan MJ, Li JW, Zhao X, Dorrestein PC, Vederas JC, Tang Y. 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. PMID: 20222707; PMCID: PMC2861853.
    202. Taniguchi M, Nunnery JK, Engene N, Esquenazi E, Byrum T, Dorrestein PC, Gerwick WH. 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. PMID: 19839606; PMCID: PMC2862350.
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    204. Jones AC, Gerwick L, Gonzalez D, Dorrestein PC, Gerwick WH. 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. PMID: 19951434; PMCID: PMC2799420.
    205. Watrous J, Burns K, Liu WT, Patel A, Hook V, Bafna V, Barry CE, Bark S, Dorrestein PC. Expansion of the mycobacterial "PUPylome". Mol Biosyst. 2010 Feb; 6(2):376-85. PMID: 20094657.
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    208. Hughes CC, Yang YL, Liu WT, Dorrestein PC, La Clair JJ, Fenical W. Marinopyrrole A target elucidation by acyl dye transfer. J Am Chem Soc. 2009 Sep 02; 131(34):12094-6. PMID: 19673475; PMCID: PMC2769490.
    209. Kersten RD, Dorrestein PC. Secondary metabolomics: natural products mass spectrometry goes global. ACS Chem Biol. 2009 Aug 21; 4(8):599-601. PMID: 19817465.
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    210. Ng J, Bandeira N, Liu WT, Ghassemian M, Simmons TL, Gerwick WH, Linington R, Dorrestein PC, Pevzner PA. Dereplication and de novo sequencing of nonribosomal peptides. Nat Methods. 2009 Aug; 6(8):596-9. PMID: 19597502; PMCID: PMC2754211.
    211. Xie X, Meehan MJ, Xu W, Dorrestein PC, Tang Y. Acyltransferase mediated polyketide release from a fungal megasynthase. J Am Chem Soc. 2009 Jun 24; 131(24):8388-9. PMID: 19530726; PMCID: PMC2878198.
    212. Liu WT, Ng J, Meluzzi D, Bandeira N, Gutierrez M, Simmons TL, Schultz AW, Linington RG, Moore BS, Gerwick WH, Pevzner PA, Dorrestein PC. Interpretation of tandem mass spectra obtained from cyclic nonribosomal peptides. Anal Chem. 2009 Jun 01; 81(11):4200-9. PMID: 19413302; PMCID: PMC2765223.
    213. Esquenazi E, Dorrestein PC, Gerwick WH. Probing marine natural product defenses with DESI-imaging mass spectrometry. Proc Natl Acad Sci U S A. 2009 May 05; 106(18):7269-70. PMID: 19416917; PMCID: PMC2678597.
    214. O'Hayre M, Salanga CL, Dorrestein PC, Handel TM. Phosphoproteomic analysis of chemokine signaling networks. Methods Enzymol. 2009; 460:331-46. PMID: 19446733.
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    215. Burns KE, Liu WT, Boshoff HI, Dorrestein PC, Barry CE. Proteasomal protein degradation in Mycobacteria is dependent upon a prokaryotic ubiquitin-like protein. J Biol Chem. 2009 Jan 30; 284(5):3069-75. PMID: 19028679.
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    216. Pouwels LJ, Zhang L, Chan NH, Dorrestein PC, Wachter RM. 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. PMID: 18759496; PMCID: PMC2643082.
    217. Lee SW, Mitchell DA, Markley AL, Hensler ME, Gonzalez D, Wohlrab A, Dorrestein PC, Nizet V, Dixon JE. Discovery of a widely distributed toxin biosynthetic gene cluster. Proc Natl Acad Sci U S A. 2008 Apr 15; 105(15):5879-84. PMID: 18375757; PMCID: PMC2311365.
    218. Ngo JC, Giang K, Chakrabarti S, Ma CT, Huynh N, Hagopian JC, Dorrestein PC, Fu XD, Adams JA, Ghosh G. 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. PMID: 18342604; PMCID: PMC2852395.
    219. Esquenazi E, Coates C, Simmons L, Gonzalez D, Gerwick WH, Dorrestein PC. 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. PMID: 18493654; PMCID: PMC2848974.
    220. Hanes JW, Burns KE, Hilmey DG, Chatterjee A, Dorrestein PC, Begley TP. 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. PMID: 18271580.
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    221. Simmons TL, Coates RC, Clark BR, Engene N, Gonzalez D, Esquenazi E, Dorrestein PC, Gerwick WH. 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. PMID: 18250337; PMCID: PMC2290810.
    222. Zhang J, Van Lanen SG, Ju J, Liu W, Dorrestein PC, Li W, Kelleher NL, Shen B. 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. PMID: 18223152; PMCID: PMC2234166.
    223. Meluzzi D, Zheng WH, Hensler M, Nizet V, Dorrestein PC. 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. PMID: 18006314; PMCID: PMC2519147.
    224. Calderone CT, Iwig DF, Dorrestein PC, Kelleher NL, Walsh CT. 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. PMID: 17656320; PMCID: PMC2084360.
    225. Winter JM, Moffitt MC, Zazopoulos E, McAlpine JB, Dorrestein PC, Moore BS. 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. PMID: 17392281.
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    226. Yin J, Straight PD, Hrvatin S, Dorrestein PC, Bumpus SB, Jao C, Kelleher NL, Kolter R, Walsh CT. Genome-wide high-throughput mining of natural-product biosynthetic gene clusters by phage display. Chem Biol. 2007 Mar; 14(3):303-12. PMID: 17379145.
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    227. Dorrestein PC, Bumpus SB, Calderone CT, Garneau-Tsodikova S, Aron ZD, Straight PD, Kolter R, Walsh CT, Kelleher NL. 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. PMID: 17042494; PMCID: PMC2518290.
    228. Garneau-Tsodikova S, Dorrestein PC, Kelleher NL, Walsh CT. 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. PMID: 17002325.
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    229. Dorrestein PC, Kelleher NL. Dissecting non-ribosomal and polyketide biosynthetic machineries using electrospray ionization Fourier-Transform mass spectrometry. Nat Prod Rep. 2006 Dec; 23(6):893-918. PMID: 17119639.
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    230. Dorrestein PC, Van Lanen SG, Li W, Zhao C, Deng Z, Shen B, Kelleher NL. 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. PMID: 16895402.
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    231. Van Lanen SG, Lin S, Dorrestein PC, Kelleher NL, Shen B. 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. PMID: 16887797.
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    232. Calderone CT, Kowtoniuk WE, Kelleher NL, Walsh CT, Dorrestein PC. 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. PMID: 16757561; PMCID: PMC1482551.
    233. Hicks LM, Mazur MT, Miller LM, Dorrestein PC, Schnarr NA, Khosla C, Kelleher NL. 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. PMID: 16642537.
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    234. Howarth M, Chinnapen DJ, Gerrow K, Dorrestein PC, Grandy MR, Kelleher NL, El-Husseini A, Ting AY. A monovalent streptavidin with a single femtomolar biotin binding site. Nat Methods. 2006 Apr; 3(4):267-73. PMID: 16554831; PMCID: PMC2576293.
    235. 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. 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. PMID: 16460000; PMCID: PMC2565507.
    236. Aron ZD, Dorrestein PC, Blackhall JR, Kelleher NL, Walsh CT. 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. PMID: 16248612.
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    237. Dorrestein PC, Yeh E, Garneau-Tsodikova S, Kelleher NL, Walsh CT. 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. PMID: 16162666; PMCID: PMC1236592.
    238. Van Lanen SG, Dorrestein PC, Christenson SD, Liu W, Ju J, Kelleher NL, Shen B. 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. PMID: 16104723.
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    239. Burns KE, Baumgart S, Dorrestein PC, Zhai H, McLafferty FW, Begley TP. Reconstitution of a new cysteine biosynthetic pathway in Mycobacterium tuberculosis. J Am Chem Soc. 2005 Aug 24; 127(33):11602-3. PMID: 16104727; PMCID: PMC2536522.
    240. Zhai H, Dorrestein PC, Chatterjee A, Begley TP, McLafferty FW. Simultaneous kinetic characterization of multiple protein forms by top down mass spectrometry. J Am Soc Mass Spectrom. 2005 Jul; 16(7):1052-9. PMID: 15914018.
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    241. Dorrestein P, Begley TP. Oxidative cascades: a facile biosynthetic strategy for the assembly of complex molecules. Bioorg Chem. 2005 Jun; 33(3):136-48. PMID: 15888307.
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    242. Garneau S, Dorrestein PC, Kelleher NL, Walsh CT. Characterization of the formation of the pyrrole moiety during clorobiocin and coumermycin A1 biosynthesis. Biochemistry. 2005 Mar 01; 44(8):2770-80. PMID: 15723521.
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    243. Dorrestein PC, Zhai H, McLafferty FW, Begley TP. 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. PMID: 15489164.
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    244. Settembre EC, Dorrestein PC, Zhai H, Chatterjee A, McLafferty FW, Begley TP, Ealick SE. Thiamin biosynthesis in Bacillus subtilis: structure of the thiazole synthase/sulfur carrier protein complex. Biochemistry. 2004 Sep 21; 43(37):11647-57. PMID: 15362849.
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    245. Dorrestein PC, Zhai H, Taylor SV, McLafferty FW, Begley TP. 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. PMID: 15012138.
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    246. Park JH, Dorrestein PC, Zhai H, Kinsland C, McLafferty FW, Begley TP. Biosynthesis of the thiazole moiety of thiamin pyrophosphate (vitamin B1). Biochemistry. 2003 Oct 28; 42(42):12430-8. PMID: 14567704.
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    247. Kurnasov O, Jablonski L, Polanuyer B, Dorrestein P, Begley T, Osterman A. Aerobic tryptophan degradation pathway in bacteria: novel kynurenine formamidase. FEMS Microbiol Lett. 2003 Oct 24; 227(2):219-27. PMID: 14592712.
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    248. Maggio-Hall LA, Dorrestein PC, Escalante-Semerena JC, Begley TP. 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. PMID: 12816411.
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    249. Dorrestein PC, Poole K, Begley TP. Formation of the chromophore of the pyoverdine siderophores by an oxidative cascade. Org Lett. 2003 Jun 26; 5(13):2215-7. PMID: 12816412.
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    250. Settembre EC, Dorrestein PC, Park JH, Augustine AM, Begley TP, Ealick SE. Structural and mechanistic studies on ThiO, a glycine oxidase essential for thiamin biosynthesis in Bacillus subtilis. Biochemistry. 2003 Mar 18; 42(10):2971-81. PMID: 12627963.
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    251. Anand R, Dorrestein PC, Kinsland C, Begley TP, Ealick SE. Structure of oxalate decarboxylase from Bacillus subtilis at 1.75 A resolution. Biochemistry. 2002 Jun 18; 41(24):7659-69. PMID: 12056897.
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