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Items: 38

1.

The Virome of Cerebrospinal Fluid: Viruses Where We Once Thought There Were None.

Ghose C, Ly M, Schwanemann LK, Shin JH, Atab K, Barr JJ, Little M, Schooley RT, Chopyk J, Pride DT.

Front Microbiol. 2019 Sep 6;10:2061. doi: 10.3389/fmicb.2019.02061. eCollection 2019.

2.

Benchmarking urine storage and collection conditions for evaluating the female urinary microbiome.

Jung CE, Chopyk J, Shin JH, Lukacz ES, Brubaker L, Schwanemann LK, Knight R, Wolfe AJ, Pride DT.

Sci Rep. 2019 Sep 16;9(1):13409. doi: 10.1038/s41598-019-49823-5.

3.

Comparison of Three Nucleic Acid Amplification Tests and Culture for Detection of Group B Streptococcus from Enrichment Broth.

Shin JH, Pride DT.

J Clin Microbiol. 2019 May 24;57(6). pii: e01958-18. doi: 10.1128/JCM.01958-18. Print 2019 Jun.

4.

A Rapid and Low-Cost Pathogen Detection Platform by Using a Molecular Agglutination Assay.

Wu TF, Chen YC, Wang WC, Fang YC, Fukuoka S, Pride DT, Pak OS.

ACS Cent Sci. 2018 Nov 28;4(11):1485-1494. doi: 10.1021/acscentsci.8b00447. Epub 2018 Nov 5.

5.

Comparison of Multiplex Gastrointestinal Pathogen Panel and Conventional Stool Testing for Evaluation of Diarrhea in Patients with Inflammatory Bowel Diseases.

Ahmad W, Nguyen NH, Boland BS, Dulai PS, Pride DT, Bouland D, Sandborn WJ, Singh S.

Dig Dis Sci. 2019 Feb;64(2):382-390. doi: 10.1007/s10620-018-5330-y. Epub 2018 Oct 25.

6.

Shared and Distinct Features of Human Milk and Infant Stool Viromes.

Pannaraj PS, Ly M, Cerini C, Saavedra M, Aldrovandi GM, Saboory AA, Johnson KM, Pride DT.

Front Microbiol. 2018 Jun 1;9:1162. doi: 10.3389/fmicb.2018.01162. eCollection 2018.

7.

Draft Genome Sequence of an Enterococcus faecalis ATCC 19433 Siphovirus Isolated from Raw Domestic Sewage.

Santiago-Rodriguez TM, Ly M, Pride DT, Toranzos GA.

Genome Announc. 2017 Jan 19;5(3). pii: e01179-16. doi: 10.1128/genomeA.01179-16.

8.

Transmission of viruses via our microbiomes.

Ly M, Jones MB, Abeles SR, Santiago-Rodriguez TM, Gao J, Chan IC, Ghose C, Pride DT.

Microbiome. 2016 Dec 2;4(1):64.

9.

Microbial diversity in individuals and their household contacts following typical antibiotic courses.

Abeles SR, Jones MB, Santiago-Rodriguez TM, Ly M, Klitgord N, Yooseph S, Nelson KE, Pride DT.

Microbiome. 2016 Jul 30;4(1):39. doi: 10.1186/s40168-016-0187-9.

10.

Immunogenicity and protective efficacy of recombinant Clostridium difficile flagellar protein FliC.

Ghose C, Eugenis I, Sun X, Edwards AN, McBride SM, Pride DT, Kelly CP, Ho DD.

Emerg Microbes Infect. 2016 Feb 3;5:e8. doi: 10.1038/emi.2016.8.

11.

Electronic cigarette inhalation alters innate immunity and airway cytokines while increasing the virulence of colonizing bacteria.

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.

J Mol Med (Berl). 2016 Jun;94(6):667-79. doi: 10.1007/s00109-016-1378-3. Epub 2016 Jan 25.

PMID:
26804311
12.

Chemostat culture systems support diverse bacteriophage communities from human feces.

Santiago-Rodriguez TM, Ly M, Daigneault MC, Brown IH, McDonald JA, Bonilla N, Vercoe EA, Pride DT.

Microbiome. 2015 Nov 9;3:58. doi: 10.1186/s40168-015-0124-3.

13.

Library preparation methodology can influence genomic and functional predictions in human microbiome research.

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.

Proc Natl Acad Sci U S A. 2015 Nov 10;112(45):14024-9. doi: 10.1073/pnas.1519288112. Epub 2015 Oct 28.

14.

Effects of Long Term Antibiotic Therapy on Human Oral and Fecal Viromes.

Abeles SR, Ly M, Santiago-Rodriguez TM, Pride DT.

PLoS One. 2015 Aug 26;10(8):e0134941. doi: 10.1371/journal.pone.0134941. eCollection 2015.

15.

Transcriptome analysis of bacteriophage communities in periodontal health and disease.

Santiago-Rodriguez TM, Naidu M, Abeles SR, Boehm TK, Ly M, Pride DT.

BMC Genomics. 2015 Jul 28;16:549. doi: 10.1186/s12864-015-1781-0.

16.

Identification of staphylococcal phage with reduced transcription in human blood through transcriptome sequencing.

Santiago-Rodriguez TM, Naidu M, Jones MB, Ly M, Pride DT.

Front Microbiol. 2015 Mar 24;6:216. doi: 10.3389/fmicb.2015.00216. eCollection 2015.

17.

Global transcription of CRISPR loci in the human oral cavity.

Lum AG, Ly M, Santiago-Rodriguez TM, Naidu M, Boehm TK, Pride DT.

BMC Genomics. 2015 May 21;16:401. doi: 10.1186/s12864-015-1615-0.

18.

Bacteriophage and their potential roles in the human oral cavity.

Edlund A, Santiago-Rodriguez TM, Boehm TK, Pride DT.

J Oral Microbiol. 2015 Apr 9;7:27423. doi: 10.3402/jom.v7.27423. eCollection 2015.

19.

The human urine virome in association with urinary tract infections.

Santiago-Rodriguez TM, Ly M, Bonilla N, Pride DT.

Front Microbiol. 2015 Jan 23;6:14. doi: 10.3389/fmicb.2015.00014. eCollection 2015.

20.

Molecular bases and role of viruses in the human microbiome.

Abeles SR, Pride DT.

J Mol Biol. 2014 Nov 25;426(23):3892-906. doi: 10.1016/j.jmb.2014.07.002. Epub 2014 Jul 11. Review.

PMID:
25020228
21.

Characterization of bacteriophage communities and CRISPR profiles from dental plaque.

Naidu M, Robles-Sikisaka R, Abeles SR, Boehm TK, Pride DT.

BMC Microbiol. 2014 Jun 30;14:175. doi: 10.1186/1471-2180-14-175.

22.

Conservation of streptococcal CRISPRs on human skin and saliva.

Robles-Sikisaka R, Naidu M, Ly M, Salzman J, Abeles SR, Boehm TK, Pride DT.

BMC Microbiol. 2014 Jun 6;14:146. doi: 10.1186/1471-2180-14-146.

23.

Altered oral viral ecology in association with periodontal disease.

Ly M, Abeles SR, Boehm TK, Robles-Sikisaka R, Naidu M, Santiago-Rodriguez T, Pride DT.

MBio. 2014 May 20;5(3):e01133-14. doi: 10.1128/mBio.01133-14.

24.

Human oral viruses are personal, persistent and gender-consistent.

Abeles SR, Robles-Sikisaka R, Ly M, Lum AG, Salzman J, Boehm TK, Pride DT.

ISME J. 2014 Sep;8(9):1753-67. doi: 10.1038/ismej.2014.31. Epub 2014 Mar 20.

25.

Association between living environment and human oral viral ecology.

Robles-Sikisaka R, Ly M, Boehm T, Naidu M, Salzman J, Pride DT.

ISME J. 2013 Sep;7(9):1710-24. doi: 10.1038/ismej.2013.63. Epub 2013 Apr 18.

26.

Comparisons of clustered regularly interspaced short palindromic repeats and viromes in human saliva reveal bacterial adaptations to salivary viruses.

Pride DT, Salzman J, Relman DA.

Environ Microbiol. 2012 Sep;14(9):2564-76. doi: 10.1111/j.1462-2920.2012.02775.x. Epub 2012 May 15.

27.

Evidence of a robust resident bacteriophage population revealed through analysis of the human salivary virome.

Pride DT, Salzman J, Haynes M, Rohwer F, Davis-Long C, White RA 3rd, Loomer P, Armitage GC, Relman DA.

ISME J. 2012 May;6(5):915-26. doi: 10.1038/ismej.2011.169. Epub 2011 Dec 8.

28.

Analysis of streptococcal CRISPRs from human saliva reveals substantial sequence diversity within and between subjects over time.

Pride DT, Sun CL, Salzman J, Rao N, Loomer P, Armitage GC, Banfield JF, Relman DA.

Genome Res. 2011 Jan;21(1):126-36. doi: 10.1101/gr.111732.110. Epub 2010 Dec 13.

29.

Metagenomic detection of phage-encoded platelet-binding factors in the human oral cavity.

Willner D, Furlan M, Schmieder R, Grasis JA, Pride DT, Relman DA, Angly FE, McDole T, Mariella RP Jr, Rohwer F, Haynes M.

Proc Natl Acad Sci U S A. 2011 Mar 15;108 Suppl 1:4547-53. doi: 10.1073/pnas.1000089107. Epub 2010 Jun 14.

30.

Genome signature analysis of thermal virus metagenomes reveals Archaea and thermophilic signatures.

Pride DT, Schoenfeld T.

BMC Genomics. 2008 Sep 17;9:420. doi: 10.1186/1471-2164-9-420.

31.

Superoxide dismutase A antigens derived from molecular analysis of sarcoidosis granulomas elicit systemic Th-1 immune responses.

Allen SS, Evans W, Carlisle J, Hajizadeh R, Nadaf M, Shepherd BE, Pride DT, Johnson JE, Drake WP.

Respir Res. 2008 Apr 25;9:36. doi: 10.1186/1465-9921-9-36.

32.

Bacterial biota in reflux esophagitis and Barrett's esophagus.

Pei Z, Yang L, Peek RM, Jr Levine SM, Pride DT, Blaser MJ.

World J Gastroenterol. 2005 Dec 14;11(46):7277-83.

33.
34.

Evolutionary implications of microbial genome tetranucleotide frequency biases.

Pride DT, Meinersmann RJ, Wassenaar TM, Blaser MJ.

Genome Res. 2003 Feb;13(2):145-58.

35.

Molecular analysis of sarcoidosis tissues for mycobacterium species DNA.

Drake WP, Pei Z, Pride DT, Collins RD, Cover TL, Blaser MJ.

Emerg Infect Dis. 2002 Nov;8(11):1334-41.

36.

East Asian genotypes of Helicobacter pylori strains in Amerindians provide evidence for its ancient human carriage.

Ghose C, Perez-Perez GI, Dominguez-Bello MG, Pride DT, Bravi CM, Blaser MJ.

Proc Natl Acad Sci U S A. 2002 Nov 12;99(23):15107-11. Epub 2002 Nov 4.

37.

Concerted evolution between duplicated genetic elements in Helicobacter pylori.

Pride DT, Blaser MJ.

J Mol Biol. 2002 Feb 22;316(3):629-42.

PMID:
11866522
38.

Allelic Variation within Helicobacter pylori babA and babB.

Pride DT, Meinersmann RJ, Blaser MJ.

Infect Immun. 2001 Feb;69(2):1160-71.

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