The role of the bacterial microbiome in lung disease.
TLDR
In this paper, the authors review and synthesize published reports of the lung microbiota of healthy and diseased subjects, discuss trends of microbial diversity and constitution across disease states, and look to the extrapulmonary microbiome for hypotheses and future directions for study.Abstract:
Novel culture-independent techniques have recently demonstrated that the lower respiratory tract, historically considered sterile in health, contains diverse communities of microbes: the lung microbiome. Increasing evidence supports the concept that a distinct microbiota of the lower respiratory tract is present both in health and in various respiratory diseases, although the biological and clinical significance of these findings remains undetermined. In this article, the authors review and synthesize published reports of the lung microbiota of healthy and diseased subjects, discuss trends of microbial diversity and constitution across disease states, and look to the extrapulmonary microbiome for hypotheses and future directions for study.read more
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Dynamic changes of the respiratory microbiota and its relationship to fecal and blood microbiota in healthy young cats.
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References
More filters
Journal ArticleDOI
Introducing mothur: Open-Source, Platform-Independent, Community-Supported Software for Describing and Comparing Microbial Communities
Patrick D. Schloss,Patrick D. Schloss,Sarah L. Westcott,Sarah L. Westcott,Thomas Ryabin,Justine R. Hall,Martin Hartmann,Emily B. Hollister,Ryan A. Lesniewski,Brian B. Oakley,Donovan H. Parks,Courtney J. Robinson,Jason W. Sahl,Blaz Stres,Gerhard G. Thallinger,David J. Van Horn,Carolyn F. Weber +16 more
TL;DR: M mothur is used as a case study to trim, screen, and align sequences; calculate distances; assign sequences to operational taxonomic units; and describe the α and β diversity of eight marine samples previously characterized by pyrosequencing of 16S rRNA gene fragments.
Journal ArticleDOI
Diversity of the human intestinal microbial flora.
Paul B. Eckburg,Elisabeth M. Bik,Charles N. Bernstein,Elizabeth Purdom,Les Dethlefsen,Michael Sargent,Steven R. Gill,Karen E. Nelson,David A. Relman,David A. Relman,David A. Relman +10 more
TL;DR: A majority of the bacterial sequences corresponded to uncultivated species and novel microorganisms, and significant intersubject variability and differences between stool and mucosa community composition were discovered.
Journal ArticleDOI
Human gut microbiome viewed across age and geography
Tanya Yatsunenko,Federico E. Rey,Mark J. Manary,Mark J. Manary,Indi Trehan,Indi Trehan,Maria Gloria Dominguez-Bello,Monica Contreras,Magda Magris,Glida Hidalgo,Robert N. Baldassano,Andrey P. Anokhin,Andrew C. Heath,Barbara B. Warner,Jens Reeder,Justin Kuczynski,J. Gregory Caporaso,Catherine A. Lozupone,Christian L. Lauber,Jose C. Clemente,Dan Knights,Rob Knight,Jeffrey I. Gordon +22 more
TL;DR: The need to consider the microbiome when evaluating human development, nutritional needs, physiological variations and the impact of westernization is underscored, as distinctive features of the functional maturation of the gut microbiome are evident in early infancy as well as adulthood.
Journal ArticleDOI
Enterotypes of the human gut microbiome
Manimozhiyan Arumugam,Jeroen Raes,Eric Pelletier,Denis Le Paslier,Takuji Yamada,Daniel R. Mende,Gabriel Fernandes,Julien Tap,Thomas Brüls,Jean-Michel Batto,Marcelo Bertalan,Natalia Borruel,Francesc Casellas,Leyden Fernández,Laurent Gautier,Torben Hansen,Masahira Hattori,Tetsuya Hayashi,Michiel Kleerebezem,Ken Kurokawa,Marion Leclerc,Florence Levenez,Chaysavanh Manichanh,H. Bjørn Nielsen,Trine Nielsen,Nicolas Pons,Julie Poulain,Junjie Qin,Thomas Sicheritz-Pontén,Sebastian Tims,David Torrents,Edgardo Ugarte,Erwin G. Zoetendal,Jun Wang,Francisco Guarner,Oluf Pedersen,Willem M. de Vos,Søren Brunak,Joël Doré,Jean Weissenbach,S. Dusko Ehrlich,Peer Bork +41 more
TL;DR: Three robust clusters (referred to as enterotypes hereafter) are identified that are not nation or continent specific and confirmed in two published, larger cohorts, indicating that intestinal microbiota variation is generally stratified, not continuous.
Journal ArticleDOI
Linking Long-Term Dietary Patterns with Gut Microbial Enterotypes
Gary D. Wu,Jun Chen,Christian Hoffmann,Christian Hoffmann,Kyle Bittinger,Ying-Yu Chen,Sue A. Keilbaugh,Meenakshi Bewtra,Dan Knights,William A. Walters,Rob Knight,Rohini Sinha,Erin Gilroy,Kernika Gupta,Robert N. Baldassano,Lisa Nessel,Hongzhe Li,Frederic D. Bushman,James D. Lewis +18 more
TL;DR: Alternative enterotype states are associated with long-term diet, particularly protein and animal fat (Bacteroides) versus carbohydrates (Prevotella) and other enterotypes distinguished primarily by levels of Bacteroide and Prevotella.
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