Analysis of the upper respiratory tract microbiotas as the source of the lung and gastric microbiotas in healthy individuals

MBio
Christine M BassisGary B Huffnagle

Abstract

No studies have examined the relationships between bacterial communities along sites of the upper aerodigestive tract of an individual subject. Our objective was to perform an intrasubject and intersite analysis to determine the contributions of two upper mucosal sites (mouth and nose) as source communities for the bacterial microbiome of lower sites (lungs and stomach). Oral wash, bronchoalveolar lavage (BAL) fluid, nasal swab, and gastric aspirate samples were collected from 28 healthy subjects. Extensive analysis of controls and serial intrasubject BAL fluid samples demonstrated that sampling of the lungs by bronchoscopy was not confounded by oral microbiome contamination. By quantitative PCR, the oral cavity and stomach contained the highest bacterial signal levels and the nasal cavity and lungs contained much lower levels. Pyrosequencing of 16S rRNA gene amplicon libraries generated from these samples showed that the oral and gastric compartments had the greatest species richness, which was significantly greater in both than the richness measured in the lungs and nasal cavity. The bacterial communities of the lungs were significantly different from those of the mouth, nose, and stomach, while the greatest similarity was be...Continue Reading

Associated Clinical Trials

Mar 18, 2015·Jeffrey L. Curtis

References

Apr 1, 1978·The American Journal of Medicine·E J HuxleyA K Pierce
Jun 1, 1996·Archives of Disease in Childhood·P Munyard, A Bush
May 1, 1997·Chest·K GleesonS L Maxwell
Feb 24, 2001·APMIS : Acta Pathologica, Microbiologica, Et Immunologica Scandinavica·T T RasmussenM Kilian
May 17, 2003·The Journal of Clinical Investigation·Huixing WuFrancis X McCormack
Jan 13, 2006·Proceedings of the National Academy of Sciences of the United States of America·Elisabeth M BikDavid A Relman
Apr 6, 2006·Environmental Microbiology·William T SloanThomas P Curtis
Nov 6, 2007·Applied and Environmental Microbiology·Noah FiererMark T Hernandez
May 30, 2009·Science·Elizabeth A GriceJulia A Segre
Jan 7, 2010·PloS One·Markus HiltyWilliam O C Cookson
Feb 10, 2010·Omics : a Journal of Integrative Biology·Yvonne J HuangSusan V Lynch
Dec 29, 2010·PloS One·Emily S CharlsonRonald G Collman
Jan 5, 2011·The Journal of Allergy and Clinical Immunology·Yvonne J HuangUNKNOWN National Heart, Lung, and Blood Institute's Asthma Clinical Research Network
Mar 3, 2011·PloS One·John R Erb-DownwardGary B Huffnagle
Jun 18, 2011·American Journal of Respiratory and Critical Care Medicine·Emily S CharlsonRonald G Collman
Aug 2, 2011·Applied and Environmental Microbiology·Robert M BowersNoah Fierer
Nov 16, 2011·Expert Review of Respiratory Medicine·Yvonne J Huang, Susan V Lynch
Mar 20, 2012·American Journal of Respiratory and Critical Care Medicine·Marc A SzeJames C Hogg
Jun 16, 2012·Nature·UNKNOWN Human Microbiome Project Consortium
Oct 12, 2012·Applied Microbiology and Biotechnology·Valentina BertoliniAndrea Franzetti
Oct 17, 2012·PloS One·Alexa A PragmanRichard E Isaacson
Mar 16, 2013·American Journal of Respiratory and Critical Care Medicine·Alison MorrisUNKNOWN Lung HIV Microbiome Project
Jun 6, 2013·Expert Review of Respiratory Medicine·Robert P DicksonGary B Huffnagle
Jun 25, 2013·FEMS Microbiology Reviews·Ines YangSebastian Suerbaum
Sep 3, 2013·American Journal of Respiratory and Critical Care Medicine·Philip L MolyneauxSebastian L Johnston
Mar 14, 2014·The Lancet. Respiratory Medicine·Robert P DicksonGary B Huffnagle
Aug 22, 2014·Microbiome·Christine M BassisMelissa A Pynnonen
Aug 26, 2014·Lancet·Robert P DicksonGary B Huffnagle

❮ Previous
Next ❯

Citations

Nov 4, 2015·Annual Review of Physiology·Robert P DicksonGary B Huffnagle
Feb 9, 2016·Respirology : Official Journal of the Asian Pacific Society of Respirology·Manoj J Mammen, Sanjay Sethi
Mar 5, 2016·Frontiers in Pediatrics·David J Gallacher, Sailesh Kotecha
Dec 25, 2015·The Lancet. Respiratory Medicine·Robert P Dickson
Jul 1, 2015·Clinical Immunology : the Official Journal of the Clinical Immunology Society·Gary B Huffnagle, Robert P Dickson
Feb 20, 2016·Expert Review of Molecular Diagnostics·David R Murdoch
Sep 4, 2015·Pediatric Pulmonology·Lindsay J CaverlyJohn J LiPuma
Jul 8, 2015·Philosophical Transactions of the Royal Society of London. Series B, Biological Sciences·Wouter A A de Steenhuijsen PitersDebby Bogaert
Dec 3, 2015·American Journal of Respiratory and Critical Care Medicine·Koshika YadavaBenjamin J Marsland
Jul 15, 2015·PLoS Pathogens·Robert P Dickson, Gary B Huffnagle
Mar 17, 2016·Annual Review of Pathology·Rosemary J Boyton, Daniel M Altmann
Jul 10, 2016·Translational Research : the Journal of Laboratory and Clinical Medicine·Yvonne J HuangMeiLan K Han
Jul 10, 2016·Current Allergy and Asthma Reports·Juliana DurackSusan V Lynch
Jun 28, 2016·Expert Review of Anti-infective Therapy·M B Lawani, A Morris
Jul 16, 2016·American Journal of Respiratory and Critical Care Medicine·Shulin QinAlison Morris
Sep 18, 2016·FEBS Letters·Matthias Hauptmann, Ulrich E Schaible
Nov 1, 2016·Nature Reviews. Microbiology·Kurtis F BuddenPhilip M Hansbro
Nov 2, 2016·FEBS Letters·Louis Patrick SchenckDawn M E Bowdish
Nov 8, 2016·Virulence·Samuel M GonçalvesAgostinho Carvalho
Oct 16, 2016·PloS One·Jianguo LiXuemei Qin
Jun 2, 2016·American Journal of Respiratory and Critical Care Medicine·Eric BernasconiUNKNOWN SysCLAD Consortium
Jan 20, 2017·Respirology : Official Journal of the Asian Pacific Society of Respirology·Sanjay H ChotirmallPhilip M Hansbro
Mar 21, 2017·Nature Reviews. Microbiology·Wing Ho ManDebby Bogaert
Dec 15, 2016·Mucosal Immunology·G B HuffnagleN W Lukacs
Jan 1, 2017·Microbiome·Martin Steen MortensenSøren Johannes Sørensen
Mar 31, 2017·Archives of Toxicology·Tewes Tralau, Andreas Luch
Apr 15, 2017·Experimental & Molecular Medicine·Hyun Jung KimSei Won Lee
Jan 11, 2017·Archivos de bronconeumología·Eduard Monsó
Jul 7, 2017·PloS One·Julia Scheiermann, Dennis M Klinman
Jul 1, 2017·Expert Review of Anti-infective Therapy·Miguel LanaspaCamen Muñoz-Almagro
Jul 4, 2015·The World Allergy Organization Journal·Velma T E AhoKaisa Koskinen

❮ Previous
Next ❯

Datasets Mentioned

BETA
PRJNA263948
PRJNA269493

Methods Mentioned

BETA
bronchoalveolar lavage
PCR
sedation
454 sequencing

Software Mentioned

R
vegan
AMOVA
R package vegan
Prism
mothur
R script
PERMANOVA

Related Concepts

Trending Feeds

COVID-19

Coronaviruses encompass a large family of viruses that cause the common cold as well as more serious diseases, such as the ongoing outbreak of coronavirus disease 2019 (COVID-19; formally known as 2019-nCoV). Coronaviruses can spread from animals to humans; symptoms include fever, cough, shortness of breath, and breathing difficulties; in more severe cases, infection can lead to death. This feed covers recent research on COVID-19.

Blastomycosis

Blastomycosis fungal infections spread through inhaling Blastomyces dermatitidis spores. Discover the latest research on blastomycosis fungal infections here.

Nuclear Pore Complex in ALS/FTD

Alterations in nucleocytoplasmic transport, controlled by the nuclear pore complex, may be involved in the pathomechanism underlying multiple neurodegenerative diseases including Amyotrophic Lateral Sclerosis and Frontotemporal Dementia. Here is the latest research on the nuclear pore complex in ALS and FTD.

Applications of Molecular Barcoding

The concept of molecular barcoding is that each original DNA or RNA molecule is attached to a unique sequence barcode. Sequence reads having different barcodes represent different original molecules, while sequence reads having the same barcode are results of PCR duplication from one original molecule. Discover the latest research on molecular barcoding here.

Chronic Fatigue Syndrome

Chronic fatigue syndrome is a disease characterized by unexplained disabling fatigue; the pathology of which is incompletely understood. Discover the latest research on chronic fatigue syndrome here.

Evolution of Pluripotency

Pluripotency refers to the ability of a cell to develop into three primary germ cell layers of the embryo. This feed focuses on the mechanisms that underlie the evolution of pluripotency. Here is the latest research.

Position Effect Variegation

Position Effect Variagation occurs when a gene is inactivated due to its positioning near heterochromatic regions within a chromosome. Discover the latest research on Position Effect Variagation here.

STING Receptor Agonists

Stimulator of IFN genes (STING) are a group of transmembrane proteins that are involved in the induction of type I interferon that is important in the innate immune response. The stimulation of STING has been an active area of research in the treatment of cancer and infectious diseases. Here is the latest research on STING receptor agonists.

Microbicide

Microbicides are products that can be applied to vaginal or rectal mucosal surfaces with the goal of preventing, or at least significantly reducing, the transmission of sexually transmitted infections. Here is the latest research on microbicides.