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Multicenter comparison of lung and oral microbiomes of HIV-infected and HIV-uninfected individuals.
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RATIONALE: Improved understanding of the lung microbiome in HIV-infected individuals could lead to better strategies for diagnosis, therapy, and prophylaxis of HIV-associated pneumonias. Differences in the oral and lung microbiomes in HIV-infected and HIV-uninfected individuals are not well defined. Whether highly active antiretroviral therapy influences these microbiomes is unclear. OBJECTIVES: We determined whether oral and lung microbiomes differed in clinically healthy groups of HIV-infected and HIV-uninfected subjects. METHODS: Participating sites in the Lung HIV Microbiome Project contributed bacterial 16S rRNA sequencing data from oral washes and bronchoalveolar lavages (BALs) obtained from HIV-uninfected individuals (n = 86), HIV-infected individuals who were treatment naive (n = 18), and HIV-infected individuals receiving antiretroviral therapy (n = 38). MEASUREMENTS AND MAIN RESULTS: Microbial populations differed in the oral washes among the subject groups (Streptococcus, Actinomyces, Rothia, and Atopobium), but there were no individual taxa that differed among the BALs. Comparison of oral washes and BALs demonstrated similar patterns from HIV-uninfected individuals and HIV-infected individuals receiving antiretroviral therapy, with multiple taxa differing in abundance. The pattern observed from HIV-infected individuals who were treatment naive differed from the other two groups, with differences limited to Veillonella, Rothia, and Granulicatella. CD4 cell counts did not influence the oral or BAL microbiome in these relatively healthy, HIV-infected subjects. CONCLUSIONS: The overall similarity of the microbiomes in participants with and without HIV infection was unexpected, because HIV-infected individuals with relatively preserved CD4 cell counts are at higher risk for lower respiratory tract infections, indicating impaired local immune function.
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“The dominant genera of healthy lungs include Streptococcus, Fusobacterium, Pseudomonas, Veillonella, Prevotella, and Capnocytophaga (Beck et al., 2015; Dickson and Huffnagle, 2015; Wypych et al., 2019; Shen et al., 2020), colonizing the oral cavity as well.”
From Oral Microbiome and SARS-CoV-2: Beware of Lung Co-infection (2020) · cites this paper as Beck et al., 2015
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Metadata
- Authors
- Beck, J. M., Schloss, P. D., Venkataraman, A., Twigg, H., Jablonski, K. A., Bushman, F. D., Campbell, T. B., Charlson, E. S., Collman, R. G., Crothers, K., Curtis, J. L., Drews, K. L., Flores, S. C., Fontenot, A. P., Foulkes, M. A., Frank, I., Ghedin, E., Huang, L., Lynch, S. V., Morris, A., Palmer, B. E., Schmidt, T. M., Sodergren, E., Weinstock, G. M., & Young, V. B.
- Affiliations
- VA Eastern Colorado Health Care System (US)
- University of Michigan (US)
- Indiana University Indianapolis (US)
- George Washington University (US)
- Department of Microbiology and
- University of Colorado Denver (US)
- University of Pennsylvania (US)
- University of Washington (US)
- Department of Computational and Systems Biology and
- University of California, San Francisco (US)
- University of Pittsburgh (US)
- The Jackson Laboratory for Genomic Medicine (US)
- Corresponding author
- Beck, James M.
- ORCID
- Schloss, Patrick D.
- Venkataraman, Arvind
- Twigg, Homer
- Bushman, Frederic D.
- Campbell, Thomas B.
- Collman, Ronald G.
- Crothers, Kristina
- Curtis, Jeffrey L.
- Drews, Kimberly L.
- Fontenot, Andrew P.
- Frank, Ian
- Ghedin, Elodie
- Huang, Laurence
- Lynch, Susan V.
- Morris, Alison
- Palmer, Brent E.
- Schmidt, Thomas M.
- Sodergren, Erica
- Weinstock, George M.
- Young, Vincent B.
- Venue
- American Journal of Respiratory and Critical Care Medicine
- Publisher
- Oxford University Press (OUP)
- Published
- 2015-12-01
- Volume
- 192
- Issue
- 11
- Pages
- 1335-1344
- ISSN
- 1073-449X (ISSN-L)
- 1535-4970
- PMC
- PMC4731698
- OpenAlex
- W1793747226
- Cited by
- 150
- References
- 40
- Citations by year
- 2026: 5 · 2025: 6 · 2024: 12 · 2023: 11 · 2022: 12 · 2021: 24 · 2020: 14 · 2019: 15 · 2018: 21 · 2017: 13 · 2016: 15 · 2015: 2
- FWCI
- 18.23
- Type
- journal article
- Language
- en
- Open access
- green
- www.ncbi.nlm.nih.gov
- Locations
- American Journal of Respiratory and Critical Care Medicine (publishedVersion)
- PubMed Central (publishedVersion)
- PubMed (publishedVersion)
- eScholarship (California Digital Library) (submittedVersion)
- The Mouseion at the JAXlibrary (Jackson Laboratory) (submittedVersion)
- Funders
- U.S. Public Health Service (U01HL98961, R01HG005975, U01HL098960, U01HL098958, U01HL098957, R01HL090342, U01HL098996, U01HL098962, U01HL098964)
- National Institutes of Health
- Human Microbiome Project (R0100417746, T32 HL007749)
- University of Pittsburgh Clinical and Translational Science Institute (UL1 RR024153, UL1 TR000005)
- University of California San Francisco Clinical and Translational Science Institute (UL1 TR000004)
- University of Colorado
- Clinical and Translational Science Institute (UL1 TR001082)
- Topics
- Health Sciences › Dentistry › General Dentistry › HIV/AIDS oral health manifestations
- Health Sciences › Dentistry › Periodontics › Oral microbiology and periodontitis research
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Gut microbiota and health
- Keywords
- HIV infection, lung microbiome, oral microbiota, HIV-associated pneumonia, antiretroviral therapy, bronchoalveolar lavage, oral wash, bacterial diversity, CD4 count, Streptococcus, Veillonella, Rothia, Granulicatella, Actinomyces, Atopobium, lower respiratory tract infection
- MeSH terms
- Adult, Bronchoalveolar Lavage Fluid, Female, Humans, Lung, Male, Middle Aged, Mouth, Prospective Studies, Cohort Studies, HIV Infections, Antiretroviral Therapy, Highly Active, Microbiota
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