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David Pride

TitleAssociate Adjunct Professor
InstitutionUniversity of California San Diego
DepartmentMedicine
Address9500 Gilman Drive #0612
La Jolla CA 92093
Phone858-822-4031
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    Collapse Research 
    Collapse Research Activities and Funding
    Model systems to assess the role of viruses in the microbiome
    NIH/NIAID R21AI133189Feb 15, 2018 - Jan 31, 2020
    Role: Principal Investigator
    Microbiome analysis of human oral bacteriophage communities
    NIH/NIAID K08AI085028Aug 19, 2011 - Jul 31, 2014
    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.
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    1. Pannaraj PS, Ly M, Cerini C, Saavedra M, Aldrovandi GM, Saboory AA, Johnson KM, Pride DT. Shared and Distinct Features of Human Milk and Infant Stool Viromes. Front Microbiol. 2018; 9:1162. PMID: 29910789.
      View in: PubMed
    2. Santiago-Rodriguez TM, Ly M, Pride DT, Toranzos GA. Draft Genome Sequence of an Enterococcus faecalis ATCC 19433 Siphovirus Isolated from Raw Domestic Sewage. Genome Announc. 2017 Jan 19; 5(3). PMID: 28104647.
      View in: PubMed
    3. Ly M, Jones MB, Abeles SR, Santiago-Rodriguez TM, Gao J, Chan IC, Ghose C, Pride DT. Transmission of viruses via our microbiomes. Microbiome. 2016 Dec 02; 4(1):64. PMID: 27912785.
      View in: PubMed
    4. Abeles SR, Jones MB, Santiago-Rodriguez TM, Ly M, Klitgord N, Yooseph S, Nelson KE, Pride DT. Microbial diversity in individuals and their household contacts following typical antibiotic courses. Microbiome. 2016 07 30; 4(1):39. PMID: 27473422; PMCID: PMC4967329.
    5. Ghose C, Eugenis I, Sun X, Edwards AN, McBride SM, Pride DT, Kelly CP, Ho DD. Immunogenicity and protective efficacy of recombinant Clostridium difficile flagellar protein FliC. Emerg Microbes Infect. 2016 Feb 03; 5:e8. PMID: 26839147; PMCID: PMC4777929.
    6. Hwang JH, Lyes M, Sladewski K, Enany S, McEachern E, Mathew DP, Das S, Moshensky A, Bapat S, Pride DT, Ongkeko WM, Crotty Alexander LE. Electronic cigarette inhalation alters innate immunity and airway cytokines while increasing the virulence of colonizing bacteria. J Mol Med (Berl). 2016 06; 94(6):667-79. PMID: 26804311.
      View in: PubMed
    7. Santiago-Rodriguez TM, Ly M, Daigneault MC, Brown IH, McDonald JA, Bonilla N, Vercoe EA, Pride DT. Chemostat culture systems support diverse bacteriophage communities from human feces. Microbiome. 2015 Nov 09; 3:58. PMID: 26549756; PMCID: PMC4638026.
    8. Jones MB, Highlander SK, Anderson EL, Li W, Dayrit M, Klitgord N, Fabani MM, Seguritan V, Green J, Pride DT, Yooseph S, Biggs W, Nelson KE, Venter JC. Library preparation methodology can influence genomic and functional predictions in human microbiome research. Proc Natl Acad Sci U S A. 2015 Nov 10; 112(45):14024-9. PMID: 26512100; PMCID: PMC4653211.
    9. Abeles SR, Ly M, Santiago-Rodriguez TM, Pride DT. Effects of Long Term Antibiotic Therapy on Human Oral and Fecal Viromes. PLoS One. 2015; 10(8):e0134941. PMID: 26309137; PMCID: PMC4550281.
    10. Santiago-Rodriguez TM, Naidu M, Abeles SR, Boehm TK, Ly M, Pride DT. Transcriptome analysis of bacteriophage communities in periodontal health and disease. BMC Genomics. 2015 Jul 28; 16:549. PMID: 26215258; PMCID: PMC4515923.
    11. Lum AG, Ly M, Santiago-Rodriguez TM, Naidu M, Boehm TK, Pride DT. Global transcription of CRISPR loci in the human oral cavity. BMC Genomics. 2015 May 21; 16:401. PMID: 25994215; PMCID: PMC4438527.
    12. Edlund A, Santiago-Rodriguez TM, Boehm TK, Pride DT. Bacteriophage and their potential roles in the human oral cavity. J Oral Microbiol. 2015; 7:27423. PMID: 25861745; PMCID: PMC4393417.
    13. Santiago-Rodriguez TM, Naidu M, Jones MB, Ly M, Pride DT. Identification of staphylococcal phage with reduced transcription in human blood through transcriptome sequencing. Front Microbiol. 2015; 6:216. PMID: 26074882; PMCID: PMC4447126.
    14. Santiago-Rodriguez TM, Ly M, Bonilla N, Pride DT. The human urine virome in association with urinary tract infections. Front Microbiol. 2015; 6:14. PMID: 25667584; PMCID: PMC4304238.
    15. Abeles SR, Pride DT. Molecular bases and role of viruses in the human microbiome. J Mol Biol. 2014 Nov 25; 426(23):3892-906. PMID: 25020228.
      View in: PubMed
    16. Naidu M, Robles-Sikisaka R, Abeles SR, Boehm TK, Pride DT. Characterization of bacteriophage communities and CRISPR profiles from dental plaque. BMC Microbiol. 2014 Jun 30; 14:175. PMID: 24981669; PMCID: PMC4104742.
    17. Robles-Sikisaka R, Naidu M, Ly M, Salzman J, Abeles SR, Boehm TK, Pride DT. Conservation of streptococcal CRISPRs on human skin and saliva. BMC Microbiol. 2014 Jun 06; 14:146. PMID: 24903519; PMCID: PMC4063239.
    18. Ly M, Abeles SR, Boehm TK, Robles-Sikisaka R, Naidu M, Santiago-Rodriguez T, Pride DT. Altered oral viral ecology in association with periodontal disease. MBio. 2014 May 20; 5(3):e01133-14. PMID: 24846382; PMCID: PMC4030452.
    19. Abeles SR, Robles-Sikisaka R, Ly M, Lum AG, Salzman J, Boehm TK, Pride DT. Human oral viruses are personal, persistent and gender-consistent. ISME J. 2014 Sep; 8(9):1753-67. PMID: 24646696; PMCID: PMC4139723.
    20. Robles-Sikisaka R, Ly M, Boehm T, Naidu M, Salzman J, Pride DT. Association between living environment and human oral viral ecology. ISME J. 2013 Sep; 7(9):1710-24. PMID: 23598790; PMCID: PMC3749502.
    21. Pride DT, Salzman J, Relman DA. Comparisons of clustered regularly interspaced short palindromic repeats and viromes in human saliva reveal bacterial adaptations to salivary viruses. Environ Microbiol. 2012 Sep; 14(9):2564-76. PMID: 22583485; PMCID: PMC3424356.
    22. Pride DT, Salzman J, Haynes M, Rohwer F, Davis-Long C, White RA, Loomer P, Armitage GC, Relman DA. Evidence of a robust resident bacteriophage population revealed through analysis of the human salivary virome. ISME J. 2012 May; 6(5):915-26. PMID: 22158393; PMCID: PMC3329113.
    23. Pride DT, Sun CL, Salzman J, Rao N, Loomer P, Armitage GC, Banfield JF, Relman DA. Analysis of streptococcal CRISPRs from human saliva reveals substantial sequence diversity within and between subjects over time. Genome Res. 2011 Jan; 21(1):126-36. PMID: 21149389; PMCID: PMC3012920.
    24. Willner D, Furlan M, Schmieder R, Grasis JA, Pride DT, Relman DA, Angly FE, McDole T, Mariella RP, Rohwer F, Haynes M. Metagenomic detection of phage-encoded platelet-binding factors in the human oral cavity. Proc Natl Acad Sci U S A. 2011 Mar 15; 108 Suppl 1:4547-53. PMID: 20547834; PMCID: PMC3063595.
    25. Pride DT, Schoenfeld T. Genome signature analysis of thermal virus metagenomes reveals Archaea and thermophilic signatures. BMC Genomics. 2008 Sep 17; 9:420. PMID: 18798991; PMCID: PMC2556352.
    26. Allen SS, Evans W, Carlisle J, Hajizadeh R, Nadaf M, Shepherd BE, Pride DT, Johnson JE, Drake WP. Superoxide dismutase A antigens derived from molecular analysis of sarcoidosis granulomas elicit systemic Th-1 immune responses. Respir Res. 2008 Apr 25; 9:36. PMID: 18439270; PMCID: PMC2383887.
    27. Pride DT, Wassenaar TM, Ghose C, Blaser MJ. Evidence of host-virus co-evolution in tetranucleotide usage patterns of bacteriophages and eukaryotic viruses. BMC Genomics. 2006 Jan 18; 7:8. PMID: 16417644; PMCID: PMC1360066.
    28. Pei Z, Yang L, Peek RM, Jr Levine SM, Pride DT, Blaser MJ. Bacterial biota in reflux esophagitis and Barrett's esophagus. World J Gastroenterol. 2005 Dec 14; 11(46):7277-83. PMID: 16437628; PMCID: PMC3025696.
    29. Pride DT, Meinersmann RJ, Wassenaar TM, Blaser MJ. Evolutionary implications of microbial genome tetranucleotide frequency biases. Genome Res. 2003 Feb; 13(2):145-58. PMID: 12566393; PMCID: PMC420360.
    30. Ghose C, Perez-Perez GI, Dominguez-Bello MG, Pride DT, Bravi CM, Blaser MJ. East Asian genotypes of Helicobacter pylori strains in Amerindians provide evidence for its ancient human carriage. Proc Natl Acad Sci U S A. 2002 Nov 12; 99(23):15107-11. PMID: 12417749; PMCID: PMC137551.
    31. Drake WP, Pei Z, Pride DT, Collins RD, Cover TL, Blaser MJ. Molecular analysis of sarcoidosis tissues for mycobacterium species DNA. Emerg Infect Dis. 2002 Nov; 8(11):1334-41. PMID: 12453366; PMCID: PMC2738555.
    32. Pride DT, Blaser MJ. Concerted evolution between duplicated genetic elements in Helicobacter pylori. J Mol Biol. 2002 Feb 22; 316(3):629-42. PMID: 11866522.
      View in: PubMed
    33. Ando T, Peek RM, Pride D, Levine SM, Takata T, Lee YC, Kusugami K, van der Ende A, Kuipers EJ, Kusters JG, Blaser MJ. Polymorphisms of Helicobacter pylori HP0638 reflect geographic origin and correlate with cagA status. J Clin Microbiol. 2002 Jan; 40(1):239-46. PMID: 11773122; PMCID: PMC120108.
    34. Pride DT, Meinersmann RJ, Blaser MJ. Allelic Variation within Helicobacter pylori babA and babB. Infect Immun. 2001 Feb; 69(2):1160-71. PMID: 11160014; PMCID: PMC97998.
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