-
1
-
-
0036024611
-
Phylogenetic analysis of the human gut microbiota using 16S rDNA clone libraries and strictly anaerobic culture-based methods
-
Hayashi, H., Sakamoto, M. & Benno, Y. Phylogenetic analysis of the human gut microbiota using 16S rDNA clone libraries and strictly anaerobic culture-based methods. Microbiol. Immunol. 46, 535-548 (2002).
-
(2002)
Microbiol. Immunol.
, vol.46
, pp. 535-548
-
-
Hayashi, H.1
Sakamoto, M.2
Benno, Y.3
-
2
-
-
84864579031
-
Microbial co-occurrence relationships in the human microbiome
-
Faust, K. et al. Microbial co-occurrence relationships in the human microbiome. PLoS Comput. Biol. 8, e1002606 (2012).
-
(2012)
PLoS Comput. Biol.
, vol.8
, pp. e1002606
-
-
Faust, K.1
-
3
-
-
84929440325
-
Metabolic dependencies drive species co-occurrence in diverse microbial communities
-
Zelezniak, A. et al. Metabolic dependencies drive species co-occurrence in diverse microbial communities. Proc. Natl Acad. Sci. USA 112, 6449-6654 (2015).
-
(2015)
Proc. Natl Acad. Sci. USA
, vol.112
, pp. 6449-6654
-
-
Zelezniak, A.1
-
4
-
-
84881110826
-
Metabolic modeling of species interaction in the human microbiome elucidates community-level assembly rules
-
Levy, R. & Borenstein, E. Metabolic modeling of species interaction in the human microbiome elucidates community-level assembly rules. Proc. Natl Acad. Sci. USA 110, 12804-12809 (2013).
-
(2013)
Proc. Natl Acad. Sci. USA
, vol.110
, pp. 12804-12809
-
-
Levy, R.1
Borenstein, E.2
-
5
-
-
84885711264
-
Genetically dictated change in host mucus carbohydrate landscape exerts a diet-dependent effect on the gut microbiota
-
Kashyap, P. C. et al. Genetically dictated change in host mucus carbohydrate landscape exerts a diet-dependent effect on the gut microbiota. Proc. Natl Acad. Sci. USA 110, 17059-17064 (2013).
-
(2013)
Proc. Natl Acad. Sci. USA
, vol.110
, pp. 17059-17064
-
-
Kashyap, P.C.1
-
6
-
-
84892828465
-
Diet rapidly and reproducibly alters the human gut microbiome
-
David, L. A. et al. Diet rapidly and reproducibly alters the human gut microbiome. Nature 505, 559-563 (2014).
-
(2014)
Nature
, vol.505
, pp. 559-563
-
-
David, L.A.1
-
7
-
-
84872535919
-
Xenobiotics shape the physiology and gene expression of the active human gut microbiome
-
Maurice, C. F., Haiser, H. J. & Turnbaugh, P. J. Xenobiotics shape the physiology and gene expression of the active human gut microbiome. Cell 152, 39-50 (2013).
-
(2013)
Cell
, vol.152
, pp. 39-50
-
-
Maurice, C.F.1
Haiser, H.J.2
Turnbaugh, P.J.3
-
8
-
-
84929300092
-
Effects of diurnal variation of gut microbes and high-fat feeding on host circadian clock function and metabolism
-
Leone, V. et al. Effects of diurnal variation of gut microbes and high-fat feeding on host circadian clock function and metabolism. Cell Host Microbe 17, 681-689 (2015).
-
(2015)
Cell Host Microbe
, vol.17
, pp. 681-689
-
-
Leone, V.1
-
9
-
-
84908302963
-
Transkingdom control of microbiota diurnal oscillations promotes metabolic homeostasis
-
Thaiss, C. A. et al. Transkingdom control of microbiota diurnal oscillations promotes metabolic homeostasis. Cell 159, 514-529 (2014).
-
(2014)
Cell
, vol.159
, pp. 514-529
-
-
Thaiss, C.A.1
-
10
-
-
33745163926
-
Enhanced biofilm formation and increased resistance to antimicrobial agents and bacterial invasion are caused by synergistic interactions in multispecies biofilms
-
Burmølle, M. et al. Enhanced biofilm formation and increased resistance to antimicrobial agents and bacterial invasion are caused by synergistic interactions in multispecies biofilms. Appl. Environ. Microbiol. 72, 3916-3923 (2006).
-
(2006)
Appl. Environ. Microbiol.
, vol.72
, pp. 3916-3923
-
-
Burmølle, M.1
-
11
-
-
78149469908
-
In vitro anaerobic biofilms of human colonic microbiota
-
Sproule-Willoughby, K. M. et al. In vitro anaerobic biofilms of human colonic microbiota. J. Microbiol. Methods 83, 296-301 (2010).
-
(2010)
J. Microbiol. Methods
, vol.83
, pp. 296-301
-
-
Sproule-Willoughby, K.M.1
-
12
-
-
33645051439
-
H2 and acetate transfers during xylan fermentation between a butyrate-producing xylanolytic species and hydrogenotrophic microorganisms from the human gut
-
Chassard, C. & Bernalier-Donadille, A. H2 and acetate transfers during xylan fermentation between a butyrate-producing xylanolytic species and hydrogenotrophic microorganisms from the human gut. FEMS Microbiol. Lett. 254, 116-122 (2006).
-
(2006)
FEMS Microbiol. Lett.
, vol.254
, pp. 116-122
-
-
Chassard, C.1
Bernalier-Donadille, A.2
-
13
-
-
65249149643
-
Characterizing a model human gut microbiota composed of members of its two dominant bacterial phyla
-
Mahowald, M. A. et al. Characterizing a model human gut microbiota composed of members of its two dominant bacterial phyla. Proc. Natl Acad. Sci. USA 106, 5859-5864 (2009).
-
(2009)
Proc. Natl Acad. Sci. USA
, vol.106
, pp. 5859-5864
-
-
Mahowald, M.A.1
-
15
-
-
84938244327
-
Small molecules from the human microbiota
-
Donia, M. S. & Fischbach, M. A. Small molecules from the human microbiota. Science 349, 1254766 (2015).
-
(2015)
Science
, vol.349
, pp. 1254766
-
-
Donia, M.S.1
Fischbach, M.A.2
-
16
-
-
34248971890
-
The competitive exclusion principle
-
Hardin, G. The competitive exclusion principle. Science 131, 1292-1297 (1960).
-
(1960)
Science
, vol.131
, pp. 1292-1297
-
-
Hardin, G.1
-
17
-
-
33745610880
-
A humanized gnotobiotic mouse model of host-archaeal-bacterial mutualism
-
Samuel, B. S. & Gordon, J. I. A humanized gnotobiotic mouse model of host-archaeal-bacterial mutualism. Proc. Natl Acad. Sci. USA 103, 10011-10016 (2006).
-
(2006)
Proc. Natl Acad. Sci. USA
, vol.103
, pp. 10011-10016
-
-
Samuel, B.S.1
Gordon, J.I.2
-
18
-
-
79952401369
-
Metatranscriptomic approach to analyze the functional human gut microbiota
-
Gosalbes, M. J. et al. Metatranscriptomic approach to analyze the functional human gut microbiota. PLoS One 6, e17447 (2011).
-
(2011)
PLoS One
, vol.6
, pp. e17447
-
-
Gosalbes, M.J.1
-
19
-
-
84901847186
-
Relating the metatranscriptome and metagenome of the human gut
-
Franzosa, E. A. et al. Relating the metatranscriptome and metagenome of the human gut. Proc. Natl Acad. Sci. USA 111, E2329-E2338 (2014).
-
(2014)
Proc. Natl Acad. Sci. USA
, vol.111
, pp. E2329-E2338
-
-
Franzosa, E.A.1
-
20
-
-
84883110880
-
Richness of human gut microbiome correlates with metabolic markers
-
Le Chatelier, E. et al. Richness of human gut microbiome correlates with metabolic markers. Nature 500, 541-546 (2013).
-
(2013)
Nature
, vol.500
, pp. 541-546
-
-
Le Chatelier, E.1
-
21
-
-
84905730761
-
Identification and assembly of genomes and genetic elements in complex metagenomic samples without using reference genomes
-
Nielsen, H. B. et al. Identification and assembly of genomes and genetic elements in complex metagenomic samples without using reference genomes. Nat. Biotechnol. 32, 822-828 (2014).
-
(2014)
Nat. Biotechnol.
, vol.32
, pp. 822-828
-
-
Nielsen, H.B.1
-
22
-
-
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 464, 59-65 (2010).
-
(2010)
Nature
, vol.464
, pp. 59-65
-
-
Qin, J.1
-
23
-
-
35448985445
-
Bacteroides: The good, the bad, and the nitty-gritty
-
Wexler, H. M. Bacteroides: the good, the bad, and the nitty-gritty. Clin. Microbiol. Rev. 20, 593-621 (2007).
-
(2007)
Clin. Microbiol. Rev.
, vol.20
, pp. 593-621
-
-
Wexler, H.M.1
-
24
-
-
84865722131
-
Contributions of the microbial hydrogen economy to colonic homeostasis
-
Carbonero, F., Benefiel, A. C. & Gaskins, H. R. Contributions of the microbial hydrogen economy to colonic homeostasis. Nat. Rev. Gastroenterol. Hepatol. 9, 504-518 (2012).
-
(2012)
Nat. Rev. Gastroenterol. Hepatol.
, vol.9
, pp. 504-518
-
-
Carbonero, F.1
Benefiel, A.C.2
Gaskins, H.R.3
-
25
-
-
77954566982
-
Dissecting the in vivo metabolic potential of two human gut acetogens
-
Rey, F. E. et al. Dissecting the in vivo metabolic potential of two human gut acetogens. J. Biol. Chem. 285, 22082-22090 (2010).
-
(2010)
J. Biol. Chem.
, vol.285
, pp. 22082-22090
-
-
Rey, F.E.1
-
26
-
-
84922297921
-
Bifidobacterium bifidum as an example of a specialized human gut commensal
-
Turroni, F. et al. Bifidobacterium bifidum as an example of a specialized human gut commensal. Front. Microbiol. 5, 437 (2014).
-
(2014)
Front. Microbiol.
, vol.5
, pp. 437
-
-
Turroni, F.1
-
27
-
-
0033791468
-
Two-component signal transduction
-
Stock, A. M., Robinson, V. L. & Goudreau, P. N. Two-component signal transduction. Annu. Rev. Biochem. 69, 183-215 (2000).
-
(2000)
Annu. Rev. Biochem.
, vol.69
, pp. 183-215
-
-
Stock, A.M.1
Robinson, V.L.2
Goudreau, P.N.3
-
29
-
-
0029804257
-
Aminoacyl-tRNA synthetase gene regulation in Bacillus subtilis
-
Condon, C., Grunberg-Manago, M. & Putzer, H. Aminoacyl-tRNA synthetase gene regulation in Bacillus subtilis. Biochimie 78, 381-389 (1996).
-
(1996)
Biochimie
, vol.78
, pp. 381-389
-
-
Condon, C.1
Grunberg-Manago, M.2
Putzer, H.3
-
30
-
-
84927693444
-
High prevalence of biofilm synergy among bacterial soil isolates in cocultures indicates bacterial interspecific cooperation
-
Ren, D., Madsen, J. S., Sørensen, S. J. & Burmølle, M. High prevalence of biofilm synergy among bacterial soil isolates in cocultures indicates bacterial interspecific cooperation. ISME J. 9, 81-89 (2015).
-
(2015)
ISME J.
, vol.9
, pp. 81-89
-
-
Ren, D.1
Madsen, J.S.2
Sørensen, S.J.3
Burmølle, M.4
-
31
-
-
0042424602
-
Statistical significance for genomewide studies
-
Storey, J. D. & Tibshirani, R. Statistical significance for genomewide studies. Proc. Natl Acad. Sci. USA 100, 9440-9445 (2003).
-
(2003)
Proc. Natl Acad. Sci. USA
, vol.100
, pp. 9440-9445
-
-
Storey, J.D.1
Tibshirani, R.2
-
32
-
-
0242490780
-
Cytoscape: A software environment for integrated models of biomolecular interaction networks
-
Shannon, P. et al. Cytoscape: a software environment for integrated models of biomolecular interaction networks. Genome Res. 13, 2498-2504 (2003).
-
(2003)
Genome Res.
, vol.13
, pp. 2498-2504
-
-
Shannon, P.1
|