Gut biogeography of the bacterial microbiota

被引：1627

作者：

Donaldson, Gregory P. ^{[1
]}

Lee, S. Melanie ^{[1
]}

Mazmanian, Sarkis K. ^{[1
]}

机构：

[1] CALTECH, Div Biol & Biol Engn, Pasadena, CA 91125 USA

来源：

NATURE REVIEWS MICROBIOLOGY | 2016年 / 14卷 / 01期

基金：

美国国家卫生研究院; 美国国家科学基金会;

关键词：

SEGMENTED FILAMENTOUS BACTERIA; INTESTINAL MICROBIOTA; SPATIAL-ORGANIZATION; ESCHERICHIA-COLI; FECAL MICROBIOTA; CROHNS-DISEASE; HEPATIC-ENCEPHALOPATHY; IMMUNOGLOBULIN-A; HOST INTERACTION; MUCOSAL FLORA;

D O I：

10.1038/nrmicro3552

中图分类号：

Q93 [微生物学];

学科分类号：

071005 ; 100705 ;

摘要：

Animals assemble and maintain a diverse but host-specific gut microbial community. In addition to characteristic microbial compositions along the longitudinal axis of the intestines, discrete bacterial communities form in microhabitats, such as the gut lumen, colonic mucus layers and colonic crypts. In this Review, we examine how the spatial distribution of symbiotic bacteria among physical niches in the gut affects the development and maintenance of a resilient microbial ecosystem. We consider novel hypotheses for how nutrient selection, immune activation and other mechanisms control the biogeography of bacteria in the gut, and we discuss the relevance of this spatial heterogeneity to health and disease.

引用

页码：20 / 32

页数：13

共 137 条

[1] Low gut microbiota diversity in early infancy precedes asthma at school age [J].

Abrahamsson, T. R. ;

Jakobsson, H. E. ;

Andersson, A. F. ;

Bjorksten, B. ;

Engstrand, L. ;

Jenmalm, M. C. .

CLINICAL AND EXPERIMENTAL ALLERGY, 2014, 44 (06) :842-850

[2] Correlation Between Intraluminal Oxygen Gradient and Radial Partitioning of Intestinal Microbiota [J].

Albenberg, Lindsey ;

Esipova, Tatiana V. ;

Judge, Colleen P. ;

Bittinger, Kyle ;

Chen, Jun ;

Laughlin, Alice ;

Grunberg, Stephanie ;

Baldassano, Robert N. ;

Lewis, James D. ;

Li, Hongzhe ;

Thom, Stephen R. ;

Bushman, Frederic D. ;

Vinogradov, Sergei A. ;

Wu, Gary D. .

GASTROENTEROLOGY, 2014, 147 (05) :1055-+

[3] Metabolites produced by commensal bacteria promote peripheral regulatory T-cell generation [J].

Arpaia, Nicholas ;

Campbell, Clarissa ;

Fan, Xiying ;

Dikiy, Stanislav ;

van der Veeken, Joris ;

deRoos, Paul ;

Liu, Hui ;

Cross, Justin R. ;

Pfeffer, Klaus ;

Coffer, Paul J. ;

Rudensky, Alexander Y. .

NATURE, 2013, 504 (7480) :451-+

[4] Induction of Colonic Regulatory T Cells by Indigenous Clostridium Species [J].

Atarashi, Koji ;

Tanoue, Takeshi ;

Shima, Tatsuichiro ;

Imaoka, Akemi ;

Kuwahara, Tomomi ;

Momose, Yoshika ;

Cheng, Genhong ;

Yamasaki, Sho ;

Saito, Takashi ;

Ohba, Yusuke ;

Taniguchi, Tadatsugu ;

Takeda, Kiyoshi ;

Hori, Shohei ;

Ivanov, Ivaylo I. ;

Umesaki, Yoshinori ;

Itoh, Kikuji ;

Honda, Kenya .

SCIENCE, 2011, 331 (6015) :337-341

[5] Colonic mucosal microbiome differs from stool microbiome in cirrhosis and hepatic encephalopathy and is linked to cognition and inflammation [J].

Bajaj, Jasmohan S. ;

Hylemon, Phillip B. ;

Ridlon, Jason M. ;

Heuman, Douglas M. ;

Daita, Kalyani ;

White, Melanie B. ;

Monteith, Pamela ;

Noble, Nicole A. ;

Sikaroodi, Masoumeh ;

Gillevet, Patrick M. .

AMERICAN JOURNAL OF PHYSIOLOGY-GASTROINTESTINAL AND LIVER PHYSIOLOGY, 2012, 303 (06) :G675-G685

[6] The strict anaerobe Bacteroides fragilis grows in and benefits from nanomolar concentrations of oxygen [J].

Baughn, AD ;

Malamy, MH .

NATURE, 2004, 427 (6973) :441-444

[7] Culture independent analysis of ileal mucosa reveals a selective increase in invasive Escherichia coli of novel phylogeny relative to depletion of Clostridiales in Crohn's disease involving the ileum [J].

Baumgart, Martin ;

Dogan, Belgin ;

Rishniw, Mark ;

Weitzman, Gil ;

Bosworth, Brian ;

Yantiss, Rhonda ;

Orsi, Renato H. ;

Wiedmann, Martin ;

McDonough, Patrick ;

Kim, Sung Guk ;

Berg, Douglas ;

Schukken, Ynte ;

Scherl, Ellen ;

Simpson, Kenneth W. .

ISME JOURNAL, 2007, 1 (05) :403-418

[8] Nature of bacterial colonization influences transcription of mucin genes in mice during the first week of life [J].

Bergström A. ;

Kristensen M.B. ;

Bahl M.I. ;

Metzdorff S.B. ;

Fink L.N. ;

Frøkiær H. ;

Licht T.R. .

BMC Research Notes, 5 (1)

[9] Host-compound foraging by intestinal microbiota revealed by single-cell stable isotope probing [J].

Berry, David ;

Stecher, Baerbel ;

Schintlmeister, Arno ;

Reichert, Jochen ;

Brugiroux, Sandrine ;

Wild, Birgit ;

Wanek, Wolfgang ;

Richter, Andreas ;

Rauch, Isabella ;

Decker, Thomas ;

Loy, Alexander ;

Wagner, Michael .

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 2013, 110 (12) :4720-4725

[10] Paneth cells, antimicrobial peptides and maintenance of intestinal homeostasis [J].

Bevins, Charles L. ;

Salzman, Nita H. .

NATURE REVIEWS MICROBIOLOGY, 2011, 9 (05) :356-368

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