Microbiome Core The goal of the Microbiome Core is to generate data on the abundance and concentrations of genital tract bacteria using advanced molecular methods. Vaginal swabs, male urethral swabs, and male urine samples will be analyzed. Microbiome Core laboratory staff will be responsible for performing DNA extraction on all samples and subjecting the DNA to several quality control PCR assays to assure integrity of the samples. DNA will be analyzed using broad-range 16S rRNA gene PCR with high-throughput sequencing to characterize bacterial community profiles and the relative abundance of bacterial taxa. Analysis of sequence reads will be performed using a custom-built bioinformatics pipeline with species level resolution developed at the Fred Hutchinson Cancer Research Center. Analysis of microbial community profiles over time will be completed in conjunction with our colleagues in the Biostatistics and Computational Biology Core. In addition, the Microbiome Core will generate data on concentrations of key bacterial taxa or species using a panel of quantitative PCR (qPCR) assays. The use of both broad range 16S rRNA gene PCR and taxon-directed qPCR is a major strength of this proposal since these assays provide complementary information about the nature of the microbial communities. Data generated from the Microbiome Core will be used to advance our understanding of the role of the genital tract microbiota in sexually transmitted infections (STI) and bacterial vaginosis (BV). More specifically, the Microbiome Core will provide the tools to study the interactions between BV-associated bacteria and herpes simplex virus infections, the potential for complex microbial communities to produce non-gonococcal urethritis in men, the dynamics of the vaginal bacterial biota and relationships with BV onset, and the impact of an intravaginal contraceptive ring on the vaginal microbiota and risk of STI. There is great potential for cross project interactions and collaboration since approaches developed or findings discovered in one project may be useful in other projects. The human microbiome is a common thread that ties these projects together, and the data generated by this core are critical in fulfilling the aims of each project.

Agency
National Institute of Health (NIH)
Institute
National Institute of Allergy and Infectious Diseases (NIAID)
Type
Research Program--Cooperative Agreements (U19)
Project #
1U19AI113173-01
Application #
8769637
Study Section
Special Emphasis Panel (ZAI1)
Project Start
Project End
Budget Start
2014-07-01
Budget End
2015-06-30
Support Year
1
Fiscal Year
2014
Total Cost
Indirect Cost
Name
University of Washington
Department
Type
DUNS #
City
Seattle
State
WA
Country
United States
Zip Code
98195
Khosropour, Christine M; Dombrowski, Julia C (2018) A Web of Complexity: Untangling the Routes of Rectal Chlamydia Acquisition. Sex Transm Dis 45:511-513
Fink, Susan L; Vojtech, Lucia; Wagoner, Jessica et al. (2018) The Antiviral Drug Arbidol Inhibits Zika Virus. Sci Rep 8:8989
Reeves, Daniel B; Duke, Elizabeth R; Wagner, Thor A et al. (2018) A majority of HIV persistence during antiretroviral therapy is due to infected cell proliferation. Nat Commun 9:4811
Khosropour, Christine M; Bell, Teal R; Hughes, James P et al. (2018) A Population-Based Study to Compare Treatment Outcomes Among Women With Urogenital Chlamydial Infection in Washington State, 1992 to 2015. Sex Transm Dis 45:319-324
Balle, Christina; Lennard, Katie; Dabee, Smritee et al. (2018) Endocervical and vaginal microbiota in South African adolescents with asymptomatic Chlamydia trachomatis infection. Sci Rep 8:11109
Gasper, Melanie A; Hesseling, Anneke C; Mohar, Isaac et al. (2017) BCG vaccination induces HIV target cell activation in HIV-exposed infants in a randomized trial. JCI Insight 2:e91963
Manhart, Lisa E (2017) Mycoplasma genitalium on the Loose: Time to Sound the Alarm. Sex Transm Dis 44:463-465
Herbst-Kralovetz, Melissa M; Pyles, Richard B; Ratner, Adam J et al. (2016) New Systems for Studying Intercellular Interactions in Bacterial Vaginosis. J Infect Dis 214 Suppl 1:S6-S13
Gasper, Melanie A; Biswas, Shameek P; Fisher, Bridget S et al. (2016) Nonpathogenic SIV and Pathogenic HIV Infections Associate with Disparate Innate Cytokine Signatures in Response to Mycobacterium bovis BCG. PLoS One 11:e0158149
Manhart, Lisa E; Khosropour, Christine M (2015) Launching a new era for behavioural surveillance. Sex Transm Infect 91:152-3

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