-
1
-
-
84879369738
-
Commensal bacteria at the interface of host metabolism and the immune system
-
Brestoff J.R., Artis D. Commensal bacteria at the interface of host metabolism and the immune system. Nat. Immunol. 2013, 14:676-684.
-
(2013)
Nat. Immunol.
, vol.14
, pp. 676-684
-
-
Brestoff, J.R.1
Artis, D.2
-
2
-
-
84879343905
-
Control of pathogens and pathobionts by the gut microbiota
-
Kamada N., et al. Control of pathogens and pathobionts by the gut microbiota. Nat. Immunol. 2013, 14:685-690.
-
(2013)
Nat. Immunol.
, vol.14
, pp. 685-690
-
-
Kamada, N.1
-
3
-
-
35348961403
-
An ecological and evolutionary perspective on human-microbe mutualism and disease
-
Dethlefsen L., et al. An ecological and evolutionary perspective on human-microbe mutualism and disease. Nature 2007, 449:811-818.
-
(2007)
Nature
, vol.449
, pp. 811-818
-
-
Dethlefsen, L.1
-
4
-
-
84861992014
-
The application of ecological theory toward an understanding of the human microbiome
-
Costello E.K., et al. The application of ecological theory toward an understanding of the human microbiome. Science 2012, 336:1255-1262.
-
(2012)
Science
, vol.336
, pp. 1255-1262
-
-
Costello, E.K.1
-
5
-
-
84856969539
-
Fecal microbiota transplantation and emerging applications
-
Borody T.J., Khoruts A. Fecal microbiota transplantation and emerging applications. Nat. Rev. Gastroenterol. Hepatol. 2012, 9:88-96.
-
(2012)
Nat. Rev. Gastroenterol. Hepatol.
, vol.9
, pp. 88-96
-
-
Borody, T.J.1
Khoruts, A.2
-
6
-
-
84862276328
-
-
Human Microbiome Project Consortium Structure, function and diversity of the healthy human microbiome
-
Human Microbiome Project Consortium Structure, function and diversity of the healthy human microbiome. Nature 2012, 486:207-214.
-
(2012)
Nature
, vol.486
, pp. 207-214
-
-
-
7
-
-
58749112734
-
A core gut microbiome in obese and lean twins
-
Turnbaugh P.J., et al. A core gut microbiome in obese and lean twins. Nature 2009, 457:480-484.
-
(2009)
Nature
, vol.457
, pp. 480-484
-
-
Turnbaugh, P.J.1
-
8
-
-
35348968286
-
The human microbiome project
-
Turnbaugh P.J., et al. The human microbiome project. Nature 2007, 449:804-810.
-
(2007)
Nature
, vol.449
, pp. 804-810
-
-
Turnbaugh, P.J.1
-
9
-
-
27444438599
-
The microbial pan-genome
-
Medini D., et al. The microbial pan-genome. Curr. Opin. Genet. Dev. 2005, 15:589-594.
-
(2005)
Curr. Opin. Genet. Dev.
, vol.15
, pp. 589-594
-
-
Medini, D.1
-
10
-
-
77952158672
-
Organismal, genetic, and transcriptional variation in the deeply sequenced gut microbiomes of identical twins
-
Turnbaugh P.J., et al. Organismal, genetic, and transcriptional variation in the deeply sequenced gut microbiomes of identical twins. Proc. Natl. Acad. Sci. U.S.A. 2010, 107:7503-7508.
-
(2010)
Proc. Natl. Acad. Sci. U.S.A.
, vol.107
, pp. 7503-7508
-
-
Turnbaugh, P.J.1
-
11
-
-
77952803493
-
Conceptual synthesis in community ecology
-
Vellend M. Conceptual synthesis in community ecology. Q. Rev. Biol. 2010, 85:183-206.
-
(2010)
Q. Rev. Biol.
, vol.85
, pp. 183-206
-
-
Vellend, M.1
-
12
-
-
57549111277
-
The dynamic genetic repertoire of microbial communities
-
Wilmes P., et al. The dynamic genetic repertoire of microbial communities. FEMS Microbiol. Rev. 2009, 33:109-132.
-
(2009)
FEMS Microbiol. Rev.
, vol.33
, pp. 109-132
-
-
Wilmes, P.1
-
13
-
-
83755185513
-
Experimental and analytical tools for studying the human microbiome
-
Kuczynski J., et al. Experimental and analytical tools for studying the human microbiome. Nat. Rev. Genet. 2012, 13:47-58.
-
(2012)
Nat. Rev. Genet.
, vol.13
, pp. 47-58
-
-
Kuczynski, J.1
-
14
-
-
84881548286
-
Computational meta'omics for microbial community studies
-
Segata N., et al. Computational meta'omics for microbial community studies. Mol. Syst. Biol. 2013, 9:666.
-
(2013)
Mol. Syst. Biol.
, vol.9
, pp. 666
-
-
Segata, N.1
-
15
-
-
84880931423
-
Functional profiling of the gut microbiome in disease-associated inflammation
-
Bornigen D., et al. Functional profiling of the gut microbiome in disease-associated inflammation. Genome Med. 2013, 5:65.
-
(2013)
Genome Med.
, vol.5
, pp. 65
-
-
Bornigen, D.1
-
16
-
-
33747073504
-
Microbial diversity in the deep sea and the underexplored "rare biosphere"
-
Sogin M.L., et al. Microbial diversity in the deep sea and the underexplored "rare biosphere". Proc. Natl. Acad. Sci. U.S.A. 2006, 103:12115-12120.
-
(2006)
Proc. Natl. Acad. Sci. U.S.A.
, vol.103
, pp. 12115-12120
-
-
Sogin, M.L.1
-
17
-
-
70449713952
-
The NIH Human Microbiome Project
-
Peterson J., et al. The NIH Human Microbiome Project. Genome Res. 2009, 19:2317-2323.
-
(2009)
Genome Res.
, vol.19
, pp. 2317-2323
-
-
Peterson, J.1
-
18
-
-
84859014125
-
Improved detection of bifidobacteria with optimised 16S rRNA-gene based pyrosequencing
-
Sim K., et al. Improved detection of bifidobacteria with optimised 16S rRNA-gene based pyrosequencing. PLoS ONE 2012, 7:e32543.
-
(2012)
PLoS ONE
, vol.7
-
-
Sim, K.1
-
19
-
-
84862286169
-
-
Human Microbiome Project Consortium A framework for human microbiome research
-
Human Microbiome Project Consortium A framework for human microbiome research. Nature 2012, 486:215-221.
-
(2012)
Nature
, vol.486
, pp. 215-221
-
-
-
20
-
-
77957681915
-
Niche and neutral models predict asymptotically equivalent species abundance distributions in high-diversity ecological communities
-
Chisholm R.A., Pacala S.W. Niche and neutral models predict asymptotically equivalent species abundance distributions in high-diversity ecological communities. Proc. Natl. Acad. Sci. U.S.A. 2010, 107:15821-15825.
-
(2010)
Proc. Natl. Acad. Sci. U.S.A.
, vol.107
, pp. 15821-15825
-
-
Chisholm, R.A.1
Pacala, S.W.2
-
21
-
-
77149148775
-
Relative roles of niche and neutral processes in structuring a soil microbial community
-
Dumbrell A.J., et al. Relative roles of niche and neutral processes in structuring a soil microbial community. Isme J. 2010, 4:337-345.
-
(2010)
Isme J.
, vol.4
, pp. 337-345
-
-
Dumbrell, A.J.1
-
22
-
-
84862555494
-
Quantification of the relative roles of niche and neutral processes in structuring gastrointestinal microbiomes
-
Jeraldo P., et al. Quantification of the relative roles of niche and neutral processes in structuring gastrointestinal microbiomes. Proc. Natl. Acad. Sci. U.S.A. 2012, 109:9692-9698.
-
(2012)
Proc. Natl. Acad. Sci. U.S.A.
, vol.109
, pp. 9692-9698
-
-
Jeraldo, P.1
-
23
-
-
33644843833
-
Quantifying the roles of immigration and chance in shaping prokaryote community structure
-
Sloan W.T., et al. Quantifying the roles of immigration and chance in shaping prokaryote community structure. Environ. Microbiol. 2006, 8:732-740.
-
(2006)
Environ. Microbiol.
, vol.8
, pp. 732-740
-
-
Sloan, W.T.1
-
25
-
-
16844386815
-
Neutral theory in community ecology and the hypothesis of functional equivalence
-
Hubbell S.P. Neutral theory in community ecology and the hypothesis of functional equivalence. Funct. Ecol. 2005, 19:166-172.
-
(2005)
Funct. Ecol.
, vol.19
, pp. 166-172
-
-
Hubbell, S.P.1
-
26
-
-
33646546733
-
Self-organized similarity, the evolutionary emergence of groups of similar species
-
Scheffer M., van Nes E.H. Self-organized similarity, the evolutionary emergence of groups of similar species. Proc. Natl. Acad. Sci. U.S.A. 2006, 103:6230-6235.
-
(2006)
Proc. Natl. Acad. Sci. U.S.A.
, vol.103
, pp. 6230-6235
-
-
Scheffer, M.1
van Nes, E.H.2
-
27
-
-
33645353062
-
Reconciling niche and neutrality: the continuum hypothesis
-
Gravel D., et al. Reconciling niche and neutrality: the continuum hypothesis. Ecol. Lett. 2006, 9:399-409.
-
(2006)
Ecol. Lett.
, vol.9
, pp. 399-409
-
-
Gravel, D.1
-
28
-
-
33748472367
-
Emergent neutrality
-
Holt R.D. Emergent neutrality. Trends Ecol. Evol. 2006, 21:531-533.
-
(2006)
Trends Ecol. Evol.
, vol.21
, pp. 531-533
-
-
Holt, R.D.1
-
29
-
-
79956366900
-
Drivers of bacterial beta-diversity depend on spatial scale
-
Martiny J.B., et al. Drivers of bacterial beta-diversity depend on spatial scale. Proc. Natl. Acad. Sci. U.S.A. 2011, 108:7850-7854.
-
(2011)
Proc. Natl. Acad. Sci. U.S.A.
, vol.108
, pp. 7850-7854
-
-
Martiny, J.B.1
-
30
-
-
77957270949
-
Combined niche and neutral effects in a microbial wastewater treatment community
-
Ofiteru I.D., et al. Combined niche and neutral effects in a microbial wastewater treatment community. Proc. Natl. Acad. Sci. U.S.A. 2010, 107:15345-15350.
-
(2010)
Proc. Natl. Acad. Sci. U.S.A.
, vol.107
, pp. 15345-15350
-
-
Ofiteru, I.D.1
-
31
-
-
3042825322
-
The metacommunity concept: a framework for multi-scale community ecology
-
Leibold M.A., et al. The metacommunity concept: a framework for multi-scale community ecology. Ecol. Lett. 2004, 7:601-613.
-
(2004)
Ecol. Lett.
, vol.7
, pp. 601-613
-
-
Leibold, M.A.1
-
32
-
-
3343017177
-
Niche tradeoffs, neutrality, and community structure: a stochastic theory of resource competition, invasion, and community assembly
-
Tilman D. Niche tradeoffs, neutrality, and community structure: a stochastic theory of resource competition, invasion, and community assembly. Proc. Natl. Acad. Sci. U.S.A. 2004, 101:10854-10861.
-
(2004)
Proc. Natl. Acad. Sci. U.S.A.
, vol.101
, pp. 10854-10861
-
-
Tilman, D.1
-
33
-
-
33749011982
-
Global genetic change tracks global climate warming in Drosophila subobscura
-
Balanya J., et al. Global genetic change tracks global climate warming in Drosophila subobscura. Science 2006, 313:1773-1775.
-
(2006)
Science
, vol.313
, pp. 1773-1775
-
-
Balanya, J.1
-
34
-
-
0037162837
-
Ecological effects of climate fluctuations
-
Stenseth N.C., et al. Ecological effects of climate fluctuations. Science 2002, 297:1292-1296.
-
(2002)
Science
, vol.297
, pp. 1292-1296
-
-
Stenseth, N.C.1
-
36
-
-
56849106496
-
The pervasive effects of an antibiotic on the human gut microbiota, as revealed by deep 16S rRNA sequencing
-
Dethlefsen L., et al. The pervasive effects of an antibiotic on the human gut microbiota, as revealed by deep 16S rRNA sequencing. PLoS Biol. 2008, 6:e280.
-
(2008)
PLoS Biol.
, vol.6
-
-
Dethlefsen, L.1
-
37
-
-
79952756960
-
Incomplete recovery and individualized responses of the human distal gut microbiota to repeated antibiotic perturbation
-
Dethlefsen L., Relman D.A. Incomplete recovery and individualized responses of the human distal gut microbiota to repeated antibiotic perturbation. Proc. Natl. Acad. Sci. U.S.A. 2011, 108(Suppl. 1):4554-4561.
-
(2011)
Proc. Natl. Acad. Sci. U.S.A.
, vol.108
, Issue.SUPPL. 1
, pp. 4554-4561
-
-
Dethlefsen, L.1
Relman, D.A.2
-
38
-
-
34248152283
-
Long-term ecological impacts of antibiotic administration on the human intestinal microbiota
-
Jernberg C., et al. Long-term ecological impacts of antibiotic administration on the human intestinal microbiota. Isme J. 2007, 1:56-66.
-
(2007)
Isme J.
, vol.1
, pp. 56-66
-
-
Jernberg, C.1
-
39
-
-
66549102207
-
Reproducible community dynamics of the gastrointestinal microbiota following antibiotic perturbation
-
Antonopoulos D.A., et al. Reproducible community dynamics of the gastrointestinal microbiota following antibiotic perturbation. Infect. Immun. 2009, 77:2367-2375.
-
(2009)
Infect. Immun.
, vol.77
, pp. 2367-2375
-
-
Antonopoulos, D.A.1
-
40
-
-
79952763661
-
Succession of microbial consortia in the developing infant gut microbiome
-
Koenig J.E., et al. Succession of microbial consortia in the developing infant gut microbiome. Proc. Natl. Acad. Sci. U.S.A. 2011, 108(Suppl. 1):4578-4585.
-
(2011)
Proc. Natl. Acad. Sci. U.S.A.
, vol.108
, Issue.SUPPL. 1
, pp. 4578-4585
-
-
Koenig, J.E.1
-
41
-
-
56649124715
-
The influence of sex, handedness, and washing on the diversity of hand surface bacteria
-
Fierer N., et al. The influence of sex, handedness, and washing on the diversity of hand surface bacteria. Proc. Natl. Acad. Sci. U.S.A. 2008, 105:17994-17999.
-
(2008)
Proc. Natl. Acad. Sci. U.S.A.
, vol.105
, pp. 17994-17999
-
-
Fierer, N.1
-
43
-
-
84864756231
-
The human microbiome: ecosystem resilience and health
-
Relman D.A. The human microbiome: ecosystem resilience and health. Nutr. Rev. 2012, 70:S2-S9.
-
(2012)
Nutr. Rev.
, vol.70
-
-
Relman, D.A.1
-
44
-
-
84862998261
-
Functional equivalence and evolutionary convergence in complex communities of microbial sponge symbionts
-
Fan L., et al. Functional equivalence and evolutionary convergence in complex communities of microbial sponge symbionts. Proc. Natl. Acad. Sci. U.S.A. 2012, 109:E1878-E1887.
-
(2012)
Proc. Natl. Acad. Sci. U.S.A.
, vol.109
-
-
Fan, L.1
-
45
-
-
80052156440
-
Bacterial community assembly based on functional genes rather than species
-
Burke C., et al. Bacterial community assembly based on functional genes rather than species. Proc. Natl. Acad. Sci. U.S.A. 2011, 108:14288-14293.
-
(2011)
Proc. Natl. Acad. Sci. U.S.A.
, vol.108
, pp. 14288-14293
-
-
Burke, C.1
-
46
-
-
84867225799
-
The role of the gut microbiota in nutrition and health
-
Flint H.J., et al. The role of the gut microbiota in nutrition and health. Nat. Rev. Gastroenterol. Hepatol. 2012, 9:577-589.
-
(2012)
Nat. Rev. Gastroenterol. Hepatol.
, vol.9
, pp. 577-589
-
-
Flint, H.J.1
-
47
-
-
84866368749
-
Understanding vaginal microbiome complexity from an ecological perspective
-
Hickey R.J., et al. Understanding vaginal microbiome complexity from an ecological perspective. Transl. Res. 2012, 160:267-282.
-
(2012)
Transl. Res.
, vol.160
, pp. 267-282
-
-
Hickey, R.J.1
-
48
-
-
79958768051
-
Skin microbiome: genomics-based insights into the diversity and role of skin microbes
-
Kong H.H. Skin microbiome: genomics-based insights into the diversity and role of skin microbes. Trends Mol. Med. 2011, 17:320-328.
-
(2011)
Trends Mol. Med.
, vol.17
, pp. 320-328
-
-
Kong, H.H.1
-
49
-
-
33744804299
-
Metagenomic analysis of the human distal gut microbiome
-
Gill S.R., et al. Metagenomic analysis of the human distal gut microbiome. Science 2006, 312:1355-1359.
-
(2006)
Science
, vol.312
, pp. 1355-1359
-
-
Gill, S.R.1
-
50
-
-
78651149570
-
Use of a bacterial culture filtrate as an aid to the isolation and growth of anerobic spirochetes
-
Hardy P.H., et al. Use of a bacterial culture filtrate as an aid to the isolation and growth of anerobic spirochetes. J. Bacteriol. 1964, 87:1521-1525.
-
(1964)
J. Bacteriol.
, vol.87
, pp. 1521-1525
-
-
Hardy, P.H.1
-
51
-
-
0014503340
-
Fecal microflora in health persons in a preindustrial region
-
Mata L.J., et al. Fecal microflora in health persons in a preindustrial region. Appl. Microbiol. 1969, 17:596-602.
-
(1969)
Appl. Microbiol.
, vol.17
, pp. 596-602
-
-
Mata, L.J.1
-
52
-
-
0016782033
-
Anaerobic infections of the female genital tract
-
Sweet R.L. Anaerobic infections of the female genital tract. Am. J. Obstet. Gynecol. 1975, 122:891-901.
-
(1975)
Am. J. Obstet. Gynecol.
, vol.122
, pp. 891-901
-
-
Sweet, R.L.1
-
53
-
-
72949091232
-
Bacterial community variation in human body habitats across space and time
-
Costello E.K., et al. Bacterial community variation in human body habitats across space and time. Science 2009, 326:1694-1697.
-
(2009)
Science
, vol.326
, pp. 1694-1697
-
-
Costello, E.K.1
-
54
-
-
77949681033
-
Composition and function of the human-associated microbiota
-
Bik E.M. Composition and function of the human-associated microbiota. Nutr. Rev. 2009, 67(Suppl. 2):S164-S171.
-
(2009)
Nutr. Rev.
, vol.67
, Issue.SUPPL. 2
-
-
Bik, E.M.1
-
55
-
-
0034992657
-
Bacterial diversity in human subgingival plaque
-
Paster B.J., et al. Bacterial diversity in human subgingival plaque. J. Bacteriol. 2001, 183:3770-3783.
-
(2001)
J. Bacteriol.
, vol.183
, pp. 3770-3783
-
-
Paster, B.J.1
-
56
-
-
66349083859
-
Topographical and temporal diversity of the human skin microbiome
-
Grice E.A. Topographical and temporal diversity of the human skin microbiome. Science 2009, 324:1190-1192.
-
(2009)
Science
, vol.324
, pp. 1190-1192
-
-
Grice, E.A.1
-
57
-
-
77950251400
-
A human gut microbial gene catalogue established by metagenomic sequencing
-
Qin J., et al. A human gut microbial gene catalogue established by metagenomic sequencing. Nature 2010, 464:59-65.
-
(2010)
Nature
, vol.464
, pp. 59-65
-
-
Qin, J.1
-
58
-
-
33644700003
-
Toward automatic reconstruction of a highly resolved tree of life
-
Ciccarelli F.D., et al. Toward automatic reconstruction of a highly resolved tree of life. Science 2006, 311:1283-1287.
-
(2006)
Science
, vol.311
, pp. 1283-1287
-
-
Ciccarelli, F.D.1
-
59
-
-
84864037467
-
Metabolic reconstruction for metagenomic data and its application to the human microbiome
-
Abubucker S., et al. Metabolic reconstruction for metagenomic data and its application to the human microbiome. PLoS Comput. Biol. 2012, 8:e1002358.
-
(2012)
PLoS Comput. Biol.
, vol.8
-
-
Abubucker, S.1
-
60
-
-
84880439384
-
Predicting and manipulating cardiac drug inactivation by the human gut bacterium Eggerthella lenta
-
Haiser H.J., et al. Predicting and manipulating cardiac drug inactivation by the human gut bacterium Eggerthella lenta. Science 2013, 341:295-298.
-
(2013)
Science
, vol.341
, pp. 295-298
-
-
Haiser, H.J.1
-
61
-
-
70149096873
-
Pharmacometabonomic identification of a significant host-microbiome metabolic interaction affecting human drug metabolism
-
Clayton T.A., et al. Pharmacometabonomic identification of a significant host-microbiome metabolic interaction affecting human drug metabolism. Proc. Natl. Acad. Sci. U.S.A. 2009, 106:14728-14733.
-
(2009)
Proc. Natl. Acad. Sci. U.S.A.
, vol.106
, pp. 14728-14733
-
-
Clayton, T.A.1
-
62
-
-
84861465597
-
Microbial volatile compounds in health and disease conditions
-
Thorn R.M., Greenman J. Microbial volatile compounds in health and disease conditions. J. Breath Res. 2012, 6:024001.
-
(2012)
J. Breath Res.
, vol.6
, pp. 024001
-
-
Thorn, R.M.1
Greenman, J.2
-
63
-
-
24044547641
-
Hydrogen sulfide-producing bacteria in tongue biofilm and their relationship with oral malodour
-
Washio J., et al. Hydrogen sulfide-producing bacteria in tongue biofilm and their relationship with oral malodour. J. Med. Microbiol. 2005, 54:889-895.
-
(2005)
J. Med. Microbiol.
, vol.54
, pp. 889-895
-
-
Washio, J.1
-
64
-
-
0024399803
-
Ecological events in subgingival dental plaque with reference to Bacteroides and Fusobacterium species
-
Shah H.N., Gharbia S.E. Ecological events in subgingival dental plaque with reference to Bacteroides and Fusobacterium species. Infection 1989, 17:264-268.
-
(1989)
Infection
, vol.17
, pp. 264-268
-
-
Shah, H.N.1
Gharbia, S.E.2
-
65
-
-
80555133258
-
Interaction of the microbiome with the innate immune response in chronic wounds
-
Grice E.A., Segre J.A. Interaction of the microbiome with the innate immune response in chronic wounds. Adv. Exp. Med. Biol. 2012, 946:55-68.
-
(2012)
Adv. Exp. Med. Biol.
, vol.946
, pp. 55-68
-
-
Grice, E.A.1
Segre, J.A.2
-
66
-
-
79959201412
-
Human nutrition, the gut microbiome and the immune system
-
Kau A.L., et al. Human nutrition, the gut microbiome and the immune system. Nature 2011, 474:327-336.
-
(2011)
Nature
, vol.474
, pp. 327-336
-
-
Kau, A.L.1
-
67
-
-
0032935617
-
Influences of microbiota on intestinal immune system development
-
Cebra J.J. Influences of microbiota on intestinal immune system development. Am. J. Clin. Nutr. 1999, 69:1046S-1051S.
-
(1999)
Am. J. Clin. Nutr.
, vol.69
-
-
Cebra, J.J.1
-
68
-
-
0034888580
-
Defense factors of vaginal lactobacilli
-
Aroutcheva A., et al. Defense factors of vaginal lactobacilli. Am. J. Obstet. Gynecol. 2001, 185:375-379.
-
(2001)
Am. J. Obstet. Gynecol.
, vol.185
, pp. 375-379
-
-
Aroutcheva, A.1
|