Multicenter Comparison of Lung and Oral Microbiomes of HIV-infected and HIV-uninfected Individuals

J. M. Beck, P. D. Schloss, A. Venkataraman, 3rd Twigg H., K. A. Jablonski, F. D. Bushman, T. B. Campbell, E. S. Charlson, R. G. Collman, K. Crothers, J. L. Curtis, K. L. Drews, S. C. Flores, A. P. Fontenot, M. A. Foulkes, I. Frank, E. Ghedin, L. Huang, S. V. Lynch, A. MorrisB. E. Palmer, T. M. Schmidt, E. Sodergren, G. M. Weinstock, V. B. Young

Research output: Contribution to journalArticle

Abstract

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.
Original languageUndefined
Pages (from-to)1335-44
JournalAmerican Journal of Respiratory and Critical Care Medicine
Volume192
Issue number11
DOIs
StatePublished - 2015

Cite this

Beck, J. M., Schloss, P. D., Venkataraman, A., Twigg H., ., Jablonski, K. A., Bushman, F. D., ... Young, V. B. (2015). Multicenter Comparison of Lung and Oral Microbiomes of HIV-infected and HIV-uninfected Individuals. American Journal of Respiratory and Critical Care Medicine, 192(11), 1335-44. https://doi.org/10.1164/rccm.201501-0128OC

Multicenter Comparison of Lung and Oral Microbiomes of HIV-infected and HIV-uninfected Individuals. / Beck, J. M.; Schloss, P. D.; Venkataraman, A.; Twigg H., 3rd; 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.

In: American Journal of Respiratory and Critical Care Medicine, Vol. 192, No. 11, 2015, p. 1335-44.

Research output: Contribution to journalArticle

Beck, JM, Schloss, PD, Venkataraman, A, Twigg H., Jablonski, KA, Bushman, FD, Campbell, TB, Charlson, ES, Collman, RG, Crothers, K, Curtis, JL, Drews, KL, Flores, SC, Fontenot, AP, Foulkes, MA, Frank, I, Ghedin, E, Huang, L, Lynch, SV, Morris, A, Palmer, BE, Schmidt, TM, Sodergren, E, Weinstock, GM & Young, VB 2015, 'Multicenter Comparison of Lung and Oral Microbiomes of HIV-infected and HIV-uninfected Individuals', American Journal of Respiratory and Critical Care Medicine, vol. 192, no. 11, pp. 1335-44. https://doi.org/10.1164/rccm.201501-0128OC
Beck, J. M. ; Schloss, P. D. ; Venkataraman, A. ; Twigg H., 3rd ; 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. / Multicenter Comparison of Lung and Oral Microbiomes of HIV-infected and HIV-uninfected Individuals. In: American Journal of Respiratory and Critical Care Medicine. 2015 ; Vol. 192, No. 11. pp. 1335-44.
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abstract = "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.",
author = "Beck, {J. M.} and Schloss, {P. D.} and A. Venkataraman and {Twigg H.}, 3rd and Jablonski, {K. A.} and Bushman, {F. D.} and Campbell, {T. B.} and Charlson, {E. S.} and Collman, {R. G.} and K. Crothers and Curtis, {J. L.} and Drews, {K. L.} and Flores, {S. C.} and Fontenot, {A. P.} and Foulkes, {M. A.} and I. Frank and E. Ghedin and L. Huang and Lynch, {S. V.} and A. Morris and Palmer, {B. E.} and Schmidt, {T. M.} and E. Sodergren and Weinstock, {G. M.} and Young, {V. B.}",
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T1 - Multicenter Comparison of Lung and Oral Microbiomes of HIV-infected and HIV-uninfected Individuals

AU - Beck, J. M.

AU - Schloss, P. D.

AU - Venkataraman, A.

AU - Twigg H., 3rd

AU - Jablonski, K. A.

AU - Bushman, F. D.

AU - Campbell, T. B.

AU - Charlson, E. S.

AU - Collman, R. G.

AU - Crothers, K.

AU - Curtis, J. L.

AU - Drews, K. L.

AU - Flores, S. C.

AU - Fontenot, A. P.

AU - Foulkes, M. A.

AU - Frank, I.

AU - Ghedin, E.

AU - Huang, L.

AU - Lynch, S. V.

AU - Morris, A.

AU - Palmer, B. E.

AU - Schmidt, T. M.

AU - Sodergren, E.

AU - Weinstock, G. M.

AU - Young, V. B.

N1 - 1535-4970 Beck, James M Schloss, Patrick D Venkataraman, Arvind Twigg, Homer 3rd Jablonski, Kathleen A Bushman, Frederic D Campbell, Thomas B Charlson, Emily S Collman, Ronald G Crothers, Kristina Curtis, Jeffrey L Drews, Kimberly L Flores, Sonia C Fontenot, Andrew P Foulkes, Mary A 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 Lung HIV Microbiome Project U01 HL098964/HL/NHLBI NIH HHS/United States Journal Article United States Am J Respir Crit Care Med. 2015 Dec 1;192(11):1335-44. doi: 10.1164/rccm.201501-0128OC.

PY - 2015

Y1 - 2015

N2 - 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.

AB - 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.

U2 - 10.1164/rccm.201501-0128OC

DO - 10.1164/rccm.201501-0128OC

M3 - Article

C2 - 26247840

VL - 192

SP - 1335

EP - 1344

JO - American Journal of Respiratory and Critical Care Medicine

JF - American Journal of Respiratory and Critical Care Medicine

SN - 1073-449X

IS - 11

ER -