-
1
-
-
84902660778
-
Defining dysbiosis and its influence on host immunity and disease
-
Petersen C, Round JL. Defining dysbiosis and its influence on host immunity and disease. Cell Microbiol. 2014;16:1024-33.
-
(2014)
Cell Microbiol
, vol.16
, pp. 1024-1033
-
-
Petersen, C.1
Round, J.L.2
-
2
-
-
84869188027
-
Defining a healthy human gut microbiome: current concepts, future directions, and clinical applications
-
Backhed F, Fraser CM, Ringel Y, Sanders ME, Sartor RB, Sherman PM, et al. Defining a healthy human gut microbiome: current concepts, future directions, and clinical applications. Cell Host Microbe. 2012;12:611-22.
-
(2012)
Cell Host Microbe
, vol.12
, pp. 611-622
-
-
Backhed, F.1
Fraser, C.M.2
Ringel, Y.3
Sanders, M.E.4
Sartor, R.B.5
Sherman, P.M.6
-
3
-
-
84893704050
-
Gut microbiota metabolism of dietary fiber influences allergic airway disease and hematopoiesis
-
Trompette A, Gollwitzer ES, Yadava K, Sichelstiel AK, Sprenger N, Ngom-Bru C, et al. Gut microbiota metabolism of dietary fiber influences allergic airway disease and hematopoiesis. Nat Med. 2014;20:159-66.
-
(2014)
Nat Med
, vol.20
, pp. 159-166
-
-
Trompette, A.1
Gollwitzer, E.S.2
Yadava, K.3
Sichelstiel, A.K.4
Sprenger, N.5
Ngom-Bru, C.6
-
4
-
-
84894118144
-
Microbiota modulate behavioral and physiological abnormalities associated with neurodevelopmental disorders
-
Hsiao EY, McBride SW, Hsien S, Sharon G, Hyde ER, McCue T, et al. Microbiota modulate behavioral and physiological abnormalities associated with neurodevelopmental disorders. Cell. 2013;155:1451-63.
-
(2013)
Cell
, vol.155
, pp. 1451-1463
-
-
Hsiao, E.Y.1
McBride, S.W.2
Hsien, S.3
Sharon, G.4
Hyde, E.R.5
McCue, T.6
-
5
-
-
85044695622
-
Cancer and the microbiota
-
Garrett WS. Cancer and the microbiota. Science. 2015;348:80-6.
-
(2015)
Science
, vol.348
, pp. 80-86
-
-
Garrett, W.S.1
-
6
-
-
84899957349
-
Functional and phylogenetic assembly of microbial communities in the human microbiome
-
Shafquat A, Joice R, Simmons SL, Huttenhower C. Functional and phylogenetic assembly of microbial communities in the human microbiome. Trends Microbiol. 2014;22:261-6.
-
(2014)
Trends Microbiol
, vol.22
, pp. 261-266
-
-
Shafquat, A.1
Joice, R.2
Simmons, S.L.3
Huttenhower, C.4
-
7
-
-
84862276328
-
Structure, function and diversity of the healthy human microbiome
-
The Human Microbiome Project Consortium. Structure, function and diversity of the healthy human microbiome. Nature. 2012;486:207-14.
-
(2012)
Nature
, vol.486
, pp. 207-214
-
-
-
8
-
-
84879744885
-
The long-term stability of the human gut microbiota
-
Faith JJ, Guruge JL, Charbonneau M, Subramanian S, Seedorf H, Goodman AL, et al. The long-term stability of the human gut microbiota. Science. 2013;341:1237439.
-
(2013)
Science
, vol.341
, pp. 1237439
-
-
Faith, J.J.1
Guruge, J.L.2
Charbonneau, M.3
Subramanian, S.4
Seedorf, H.5
Goodman, A.L.6
-
9
-
-
77950251400
-
A human gut microbial gene catalogue established by metagenomic sequencing
-
Qin J, Li R, Raes J, Arumugam M, Burgdorf KS, Manichanh C, 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
Li, R.2
Raes, J.3
Arumugam, M.4
Burgdorf, K.S.5
Manichanh, C.6
-
10
-
-
84874612821
-
The Human Microbiome Project strategy for comprehensive sampling of the human microbiome and why it matters
-
Aagaard K, Petrosino J, Keitel W, Watson M, Katancik J, Garcia N, et al. The Human Microbiome Project strategy for comprehensive sampling of the human microbiome and why it matters. FASEB J. 2013;27:1012-22.
-
(2013)
FASEB J
, vol.27
, pp. 1012-1022
-
-
Aagaard, K.1
Petrosino, J.2
Keitel, W.3
Watson, M.4
Katancik, J.5
Garcia, N.6
-
11
-
-
35348968286
-
The human microbiome project
-
Turnbaugh PJ, Ley RE, Hamady M, Fraser-Liggett CM, Knight R, Gordon JI. The human microbiome project. Nature. 2007;449:804-10.
-
(2007)
Nature
, vol.449
, pp. 804-810
-
-
Turnbaugh, P.J.1
Ley, R.E.2
Hamady, M.3
Fraser-Liggett, C.M.4
Knight, R.5
Gordon, J.I.6
-
12
-
-
0001845283
-
Normal indigenous intestinal flora.
-
In: Hentges DJ, editor. New York: Academic Press, Inc.
-
Finegold SM, Sutter VL, Mathison GE. Normal indigenous intestinal flora. In: Hentges DJ, editor. Human intestinal microflora in health and disease. New York: Academic Press, Inc.; 1983. p. 3-31.
-
(1983)
Human intestinal microflora in health and disease.
, pp. 3-31
-
-
Finegold, S.M.1
Sutter, V.L.2
Mathison, G.E.3
-
13
-
-
80053273721
-
Toward understanding, managing, and protecting microbial ecosystems
-
Bodelier PL. Toward understanding, managing, and protecting microbial ecosystems. Front Microbiol. 2011;2:80.
-
(2011)
Front Microbiol
, vol.2
, pp. 80
-
-
Bodelier, P.L.1
-
14
-
-
84866146940
-
Diversity, stability and resilience of the human gut microbiota
-
Lozupone CA, Stombaugh JI, Gordon JI, Jansson JK, Knight R. Diversity, stability and resilience of the human gut microbiota. Nature. 2012;489:220-30.
-
(2012)
Nature
, vol.489
, pp. 220-230
-
-
Lozupone, C.A.1
Stombaugh, J.I.2
Gordon, J.I.3
Jansson, J.K.4
Knight, R.5
-
15
-
-
84927692256
-
The first 1000 cultured species of the human gastrointestinal microbiota
-
Rajilic-Stojanovic M, de Vos WM. The first 1000 cultured species of the human gastrointestinal microbiota. FEMS Microbiol Rev. 2014;38:996-1047.
-
(2014)
FEMS Microbiol Rev
, vol.38
, pp. 996-1047
-
-
Rajilic-Stojanovic, M.1
Vos, W.M.2
-
16
-
-
0016167941
-
Human fecal flora: the normal flora of 20 Japanese-Hawaiians
-
Moore WE, Holdeman LV. Human fecal flora: the normal flora of 20 Japanese-Hawaiians. Appl Microbiol. 1974;27:961-79.
-
(1974)
Appl Microbiol
, vol.27
, pp. 961-979
-
-
Moore, W.E.1
Holdeman, L.V.2
-
17
-
-
0017404727
-
Role of gut bacterial flora in nutrition and health: a review of recent advances in bacteriological techniques, metabolism, and factors affecting flora composition
-
Brown JP. Role of gut bacterial flora in nutrition and health: a review of recent advances in bacteriological techniques, metabolism, and factors affecting flora composition. CRC Crit Rev Food Sci Nutr. 1977;8:229-336.
-
(1977)
CRC Crit Rev Food Sci Nutr
, vol.8
, pp. 229-336
-
-
Brown, J.P.1
-
18
-
-
0008048504
-
Rapid determination of 16S ribosomal RNA sequences for phylogenetic analyses
-
Lane DJ, Pace B, Olsen GJ, Stahl DA, Sogin ML, Pace NR. Rapid determination of 16S ribosomal RNA sequences for phylogenetic analyses. Proc Natl Acad Sci U S A. 1985;82:6955-9.
-
(1985)
Proc Natl Acad Sci U S A
, vol.82
, pp. 6955-6959
-
-
Lane, D.J.1
Pace, B.2
Olsen, G.J.3
Stahl, D.A.4
Sogin, M.L.5
Pace, N.R.6
-
19
-
-
0031692488
-
Variations of bacterial populations in human feces measured by fluorescent in situ hybridization with group-specific 16S rRNA-targeted oligonucleotide probes
-
Franks AH, Harmsen HJ, Raangs GC, Jansen GJ, Schut F, Welling GW. Variations of bacterial populations in human feces measured by fluorescent in situ hybridization with group-specific 16S rRNA-targeted oligonucleotide probes. Appl Environ Microbiol. 1998;64:3336-45.
-
(1998)
Appl Environ Microbiol
, vol.64
, pp. 3336-3345
-
-
Franks, A.H.1
Harmsen, H.J.2
Raangs, G.C.3
Jansen, G.J.4
Schut, F.5
Welling, G.W.6
-
20
-
-
0036181778
-
Exploring prokaryotic diversity in the genomic era
-
Reviews0003
-
Hugenholtz P. Exploring prokaryotic diversity in the genomic era. Genome Biol. 2002;3:Reviews0003.
-
(2002)
Genome Biol
, vol.3
-
-
Hugenholtz, P.1
-
21
-
-
0032755259
-
Direct analysis of genes encoding 16S rRNA from complex communities reveals many novel molecular species within the human gut
-
Suau A, Bonnet R, Sutren M, Godon JJ, Gibson GR, Collins MD, Dore J. Direct analysis of genes encoding 16S rRNA from complex communities reveals many novel molecular species within the human gut. Appl Environ Microbiol. 1999;65:4799-807.
-
(1999)
Appl Environ Microbiol
, vol.65
, pp. 4799-4807
-
-
Suau, A.1
Bonnet, R.2
Sutren, M.3
Godon, J.J.4
Gibson, G.R.5
Collins, M.D.6
Dore, J.7
-
22
-
-
0036185771
-
Assessment of microbial diversity in human colonic samples by 16S rDNA sequence analysis
-
Hold GL, Pryde SE, Russell VJ, Furrie E, Flint HJ. Assessment of microbial diversity in human colonic samples by 16S rDNA sequence analysis. FEMS Microbiol Ecol. 2002;39:33-9.
-
(2002)
FEMS Microbiol Ecol
, vol.39
, pp. 33-39
-
-
Hold, G.L.1
Pryde, S.E.2
Russell, V.J.3
Furrie, E.4
Flint, H.J.5
-
23
-
-
20544444045
-
Diversity of the human intestinal microbial flora
-
Eckburg PB, Bik EM, Bernstein CN, Purdom E, Dethlefsen L, Sargent M, et al. Diversity of the human intestinal microbial flora. Science. 2005;308:1635-8.
-
(2005)
Science
, vol.308
, pp. 1635-1638
-
-
Eckburg, P.B.1
Bik, E.M.2
Bernstein, C.N.3
Purdom, E.4
Dethlefsen, L.5
Sargent, M.6
-
24
-
-
20244376755
-
Comparative metagenomics of microbial communities
-
Tringe SG, von Mering C, Kobayashi A, Salamov AA, Chen K, Chang HW, et al. Comparative metagenomics of microbial communities. Science. 2005;308:554-7.
-
(2005)
Science
, vol.308
, pp. 554-557
-
-
Tringe, S.G.1
Mering, C.2
Kobayashi, A.3
Salamov, A.A.4
Chen, K.5
Chang, H.W.6
-
25
-
-
84910125156
-
Determining microbial products and identifying molecular targets in the human microbiome
-
Joice R, Yasuda K, Shafquat A, Morgan XC, Huttenhower C. Determining microbial products and identifying molecular targets in the human microbiome. Cell Metab. 2014;20:731-41.
-
(2014)
Cell Metab
, vol.20
, pp. 731-741
-
-
Joice, R.1
Yasuda, K.2
Shafquat, A.3
Morgan, X.C.4
Huttenhower, C.5
-
26
-
-
58749112734
-
A core gut microbiome in obese and lean twins
-
Turnbaugh PJ, Hamady M, Yatsunenko T, Cantarel BL, Duncan A, Ley RE, et al. A core gut microbiome in obese and lean twins. Nature. 2009;457:480-4.
-
(2009)
Nature
, vol.457
, pp. 480-484
-
-
Turnbaugh, P.J.1
Hamady, M.2
Yatsunenko, T.3
Cantarel, B.L.4
Duncan, A.5
Ley, R.E.6
-
27
-
-
69949111703
-
The core gut microbiome, energy balance and obesity
-
Turnbaugh PJ, Gordon JI. The core gut microbiome, energy balance and obesity. J Physiol. 2009;587:4153-8.
-
(2009)
J Physiol
, vol.587
, pp. 4153-4158
-
-
Turnbaugh, P.J.1
Gordon, J.I.2
-
28
-
-
84867074831
-
A metagenome-wide association study of gut microbiota in type 2 diabetes
-
Qin J, Li Y, Cai Z, Li S, Zhu J, Zhang F, et al. A metagenome-wide association study of gut microbiota in type 2 diabetes. Nature. 2012;490:55-60.
-
(2012)
Nature
, vol.490
, pp. 55-60
-
-
Qin, J.1
Li, Y.2
Cai, Z.3
Li, S.4
Zhu, J.5
Zhang, F.6
-
29
-
-
84905730165
-
An integrated catalog of reference genes in the human gut microbiome
-
Li J, Jia H, Cai X, Zhong H, Feng Q, Sunagawa S, et al. An integrated catalog of reference genes in the human gut microbiome. Nat Biotechnol. 2014;32:834-41.
-
(2014)
Nat Biotechnol
, vol.32
, pp. 834-841
-
-
Li, J.1
Jia, H.2
Cai, X.3
Zhong, H.4
Feng, Q.5
Sunagawa, S.6
-
30
-
-
84883110880
-
Richness of human gut microbiome correlates with metabolic markers
-
Le Chatelier E, Nielsen T, Qin J, Prifti E, Hildebrand F, Falony G, et al. Richness of human gut microbiome correlates with metabolic markers. Nature. 2013;500:541-6.
-
(2013)
Nature
, vol.500
, pp. 541-546
-
-
Chatelier, E.1
Nielsen, T.2
Qin, J.3
Prifti, E.4
Hildebrand, F.5
Falony, G.6
-
31
-
-
84870322666
-
Integrated metagenomics/metaproteomics reveals human host-microbiota signatures of Crohn's disease
-
Erickson AR, Cantarel BL, Lamendella R, Darzi Y, Mongodin EF, Pan C, et al. Integrated metagenomics/metaproteomics reveals human host-microbiota signatures of Crohn's disease. PLoS One. 2012;7, e49138.
-
(2012)
PLoS One
, vol.7
-
-
Erickson, A.R.1
Cantarel, B.L.2
Lamendella, R.3
Darzi, Y.4
Mongodin, E.F.5
Pan, C.6
-
32
-
-
84974635271
-
Revised estimates for the number of human and bacteria cells in the body.
-
Sender R, Fuchs S, Milo R. Revised estimates for the number of human and bacteria cells in the body. bioRxiv. 2016. http://dx.doi.org/10.1101/036103.
-
(2016)
bioRxiv.
-
-
Sender, R.1
Fuchs, S.2
Milo, R.3
-
33
-
-
84873708523
-
The oral microbiome in health and disease
-
Wade WG. The oral microbiome in health and disease. Pharmacol Res. 2013;69:137-43.
-
(2013)
Pharmacol Res
, vol.69
, pp. 137-143
-
-
Wade, W.G.1
-
34
-
-
66349083859
-
Topographical and temporal diversity of the human skin microbiome
-
Grice EA, Kong HH, Conlan S, Deming CB, Davis J, Young AC, et al. Topographical and temporal diversity of the human skin microbiome. Science. 2009;324:1190-2.
-
(2009)
Science
, vol.324
, pp. 1190-1192
-
-
Grice, E.A.1
Kong, H.H.2
Conlan, S.3
Deming, C.B.4
Davis, J.5
Young, A.C.6
-
35
-
-
79952750340
-
Vaginal microbiome of reproductive-age women
-
Ravel J, Gajer P, Abdo Z, Schneider GM, Koenig SS, McCulle SL, et al. Vaginal microbiome of reproductive-age women. Proc Natl Acad Sci U S A. 2011;108(1):4680-7.
-
(2011)
Proc Natl Acad Sci U S A
, vol.108
, Issue.1
, pp. 4680-4687
-
-
Ravel, J.1
Gajer, P.2
Abdo, Z.3
Schneider, G.M.4
Koenig, S.S.5
McCulle, S.L.6
-
36
-
-
84941005620
-
Temporal and spatial variation of the human microbiota during pregnancy
-
DiGiulio DB, Callahan BJ, McMurdie PJ, Costello EK, Lyell DJ, Robaczewska A, et al. Temporal and spatial variation of the human microbiota during pregnancy. Proc Natl Acad Sci U S A. 2015;112:11060-5.
-
(2015)
Proc Natl Acad Sci U S A
, vol.112
, pp. 11060-11065
-
-
DiGiulio, D.B.1
Callahan, B.J.2
McMurdie, P.J.3
Costello, E.K.4
Lyell, D.J.5
Robaczewska, A.6
-
37
-
-
84908078004
-
Differences in vaginal microbiome in African American women versus women of European ancestry
-
Fettweis JM, Brooks JP, Serrano MG, Sheth NU, Girerd PH, Edwards DJ, et al. Differences in vaginal microbiome in African American women versus women of European ancestry. Microbiology. 2014;160:2272-82.
-
(2014)
Microbiology
, vol.160
, pp. 2272-2282
-
-
Fettweis, J.M.1
Brooks, J.P.2
Serrano, M.G.3
Sheth, N.U.4
Girerd, P.H.5
Edwards, D.J.6
-
38
-
-
80053122563
-
Topographical continuity of bacterial populations in the healthy human respiratory tract
-
Charlson ES, Bittinger K, Haas AR, Fitzgerald AS, Frank I, Yadav A, et al. Topographical continuity of bacterial populations in the healthy human respiratory tract. Am J Respir Crit Care Med. 2011;184:957-63.
-
(2011)
Am J Respir Crit Care Med
, vol.184
, pp. 957-963
-
-
Charlson, E.S.1
Bittinger, K.2
Haas, A.R.3
Fitzgerald, A.S.4
Frank, I.5
Yadav, A.6
-
39
-
-
84877899252
-
Comparison of the respiratory microbiome in healthy nonsmokers and smokers
-
Morris A, Beck JM, Schloss PD, Campbell TB, Crothers K, Curtis JL, et al. Comparison of the respiratory microbiome in healthy nonsmokers and smokers. Am J Respir Crit Care Med. 2013;187:1067-75.
-
(2013)
Am J Respir Crit Care Med
, vol.187
, pp. 1067-1075
-
-
Morris, A.1
Beck, J.M.2
Schloss, P.D.3
Campbell, T.B.4
Crothers, K.5
Curtis, J.L.6
-
40
-
-
77649119443
-
Disordered microbial communities in asthmatic airways
-
Hilty M, Burke C, Pedro H, Cardenas P, Bush A, Bossley C, et al. Disordered microbial communities in asthmatic airways. PLoS One. 2010;5, e8578.
-
(2010)
PLoS One
, vol.5
-
-
Hilty, M.1
Burke, C.2
Pedro, H.3
Cardenas, P.4
Bush, A.5
Bossley, C.6
-
41
-
-
79959247053
-
Characterization of the diversity and temporal stability of bacterial communities in human milk
-
Hunt KM, Foster JA, Forney LJ, Schutte UM, Beck DL, Abdo Z, et al. Characterization of the diversity and temporal stability of bacterial communities in human milk. PLoS One. 2011;6, e21313.
-
(2011)
PLoS One
, vol.6
-
-
Hunt, K.M.1
Foster, J.A.2
Forney, L.J.3
Schutte, U.M.4
Beck, D.L.5
Abdo, Z.6
-
42
-
-
84907287922
-
Comment on "the placenta harbors a unique microbiome"
-
Kliman HJ. Comment on "the placenta harbors a unique microbiome". Sci Transl Med. 2014;6:254le254.
-
(2014)
Sci Transl Med
, vol.6
, pp. 254le254
-
-
Kliman, H.J.1
-
43
-
-
84958211659
-
Comprehensive description of blood microbiome from healthy donors assessed by 16S targeted metagenomic sequencing
-
Paisse S, Valle C, Servant F, Courtney M, Burcelin R, Amar J, Lelouvier B. Comprehensive description of blood microbiome from healthy donors assessed by 16S targeted metagenomic sequencing. Transfusion. 2016. doi: 10.1111/trf.13477.
-
(2016)
Transfusion
-
-
Paisse, S.1
Valle, C.2
Servant, F.3
Courtney, M.4
Burcelin, R.5
Amar, J.6
Lelouvier, B.7
-
44
-
-
84883509271
-
Metagenome and metabolism. The tissue microbiota hypothesis
-
Burcelin R, Serino M, Chabo C, Garidou L, Pomie C, Courtney M, et al. Metagenome and metabolism. The tissue microbiota hypothesis. Diabetes Obesity Metab. 2013;15(3):61-70.
-
(2013)
Diabetes Obesity Metab
, vol.15
, Issue.3
, pp. 61-70
-
-
Burcelin, R.1
Serino, M.2
Chabo, C.3
Garidou, L.4
Pomie, C.5
Courtney, M.6
-
45
-
-
84874613039
-
The microbiome extends to subepidermal compartments of normal skin
-
Nakatsuji T, Chiang HI, Jiang SB, Nagarajan H, Zengler K, Gallo RL. The microbiome extends to subepidermal compartments of normal skin. Nat Commun. 2013;4:1431.
-
(2013)
Nat Commun
, vol.4
, pp. 1431
-
-
Nakatsuji, T.1
Chiang, H.I.2
Jiang, S.B.3
Nagarajan, H.4
Zengler, K.5
Gallo, R.L.6
-
46
-
-
84920644670
-
Reagent and laboratory contamination can critically impact sequence-based microbiome analyses
-
Salter SJ, Cox MJ, Turek EM, Calus ST, Cookson WO, Moffatt MF, et al. Reagent and laboratory contamination can critically impact sequence-based microbiome analyses. BMC Biol. 2014;12:87.
-
(2014)
BMC Biol
, vol.12
, pp. 87
-
-
Salter, S.J.1
Cox, M.J.2
Turek, E.M.3
Calus, S.T.4
Cookson, W.O.5
Moffatt, M.F.6
-
47
-
-
84930959073
-
Archaeal lineages within the human microbiome: absent, rare or elusive?
-
Horz HP. Archaeal lineages within the human microbiome: absent, rare or elusive? Life (Basel). 2015;5:1333-45.
-
(2015)
Life (Basel)
, vol.5
, pp. 1333-1345
-
-
Horz, H.P.1
-
48
-
-
79958292341
-
Diversity and quantitative analysis of Archaea in aggressive periodontitis and periodontally healthy subjects
-
Matarazzo F, Ribeiro AC, Feres M, Faveri M, Mayer MP. Diversity and quantitative analysis of Archaea in aggressive periodontitis and periodontally healthy subjects. J Clin Periodontol. 2011;38:621-7.
-
(2011)
J Clin Periodontol
, vol.38
, pp. 621-627
-
-
Matarazzo, F.1
Ribeiro, A.C.2
Feres, M.3
Faveri, M.4
Mayer, M.P.5
-
49
-
-
34447296622
-
Genomic and metabolic adaptations of Methanobrevibacter smithii to the human gut
-
Samuel BS, Hansen EE, Manchester JK, Coutinho PM, Henrissat B, Fulton R, et al. Genomic and metabolic adaptations of Methanobrevibacter smithii to the human gut. Proc Natl Acad Sci U S A. 2007;104:10643-8.
-
(2007)
Proc Natl Acad Sci U S A
, vol.104
, pp. 10643-10648
-
-
Samuel, B.S.1
Hansen, E.E.2
Manchester, J.K.3
Coutinho, P.M.4
Henrissat, B.5
Fulton, R.6
-
50
-
-
84897127283
-
The virome in mammalian physiology and disease
-
Virgin HW. The virome in mammalian physiology and disease. Cell. 2014;157:142-50.
-
(2014)
Cell
, vol.157
, pp. 142-150
-
-
Virgin, H.W.1
-
51
-
-
84880652104
-
Rapid evolution of the human gut virome
-
Minot S, Bryson A, Chehoud C, Wu GD, Lewis JD, Bushman FD. Rapid evolution of the human gut virome. Proc Natl Acad Sci U S A. 2013;110:12450-5.
-
(2013)
Proc Natl Acad Sci U S A
, vol.110
, pp. 12450-12455
-
-
Minot, S.1
Bryson, A.2
Chehoud, C.3
Wu, G.D.4
Lewis, J.D.5
Bushman, F.D.6
-
52
-
-
77954627922
-
Viruses in the faecal microbiota of monozygotic twins and their mothers
-
Reyes A, Haynes M, Hanson N, Angly FE, Heath AC, Rohwer F, Gordon JI. Viruses in the faecal microbiota of monozygotic twins and their mothers. Nature. 2010;466:334-8.
-
(2010)
Nature
, vol.466
, pp. 334-338
-
-
Reyes, A.1
Haynes, M.2
Hanson, N.3
Angly, F.E.4
Heath, A.C.5
Rohwer, F.6
Gordon, J.I.7
-
53
-
-
85027930100
-
Phage-bacteria interaction network in human oral microbiome
-
Wang J, Gao Y, Zhao F. Phage-bacteria interaction network in human oral microbiome. Environ Microbiol. 2015. doi: 10.1111/1462-2920.
-
(2015)
Environ Microbiol
-
-
Wang, J.1
Gao, Y.2
Zhao, F.3
-
54
-
-
84897128562
-
Kingdom-agnostic metagenomics and the importance of complete characterization of enteric microbial communities
-
Norman JM, Handley SA, Virgin HW. Kingdom-agnostic metagenomics and the importance of complete characterization of enteric microbial communities. Gastroenterology. 2014;146:1459-69.
-
(2014)
Gastroenterology
, vol.146
, pp. 1459-1469
-
-
Norman, J.M.1
Handley, S.A.2
Virgin, H.W.3
-
55
-
-
84879786685
-
The emerging world of the fungal microbiome
-
Huffnagle GB, Noverr MC. The emerging world of the fungal microbiome. Trends Microbiol. 2013;21:334-41.
-
(2013)
Trends Microbiol
, vol.21
, pp. 334-341
-
-
Huffnagle, G.B.1
Noverr, M.C.2
-
57
-
-
84901296354
-
The mycobiota: interactions between commensal fungi and the host immune system
-
Underhill DM, Iliev ID. The mycobiota: interactions between commensal fungi and the host immune system. Nat Rev Immunol. 2014;14:405-16.
-
(2014)
Nat Rev Immunol
, vol.14
, pp. 405-416
-
-
Underhill, D.M.1
Iliev, I.D.2
-
58
-
-
84904890500
-
Communities of microbial eukaryotes in the mammalian gut within the context of environmental eukaryotic diversity
-
Parfrey LW, Walters WA, Lauber CL, Clemente JC, Berg-Lyons D, Teiling C, et al. Communities of microbial eukaryotes in the mammalian gut within the context of environmental eukaryotic diversity. Front Microbiol. 2014;5:298.
-
(2014)
Front Microbiol
, vol.5
, pp. 298
-
-
Parfrey, L.W.1
Walters, W.A.2
Lauber, C.L.3
Clemente, J.C.4
Berg-Lyons, D.5
Teiling, C.6
-
59
-
-
84879414990
-
Topographic diversity of fungal and bacterial communities in human skin
-
Findley K, Oh J, Yang J, Conlan S, Deming C, Meyer JA, et al. Topographic diversity of fungal and bacterial communities in human skin. Nature. 2013;498:367-70.
-
(2013)
Nature
, vol.498
, pp. 367-370
-
-
Findley, K.1
Oh, J.2
Yang, J.3
Conlan, S.4
Deming, C.5
Meyer, J.A.6
-
60
-
-
84886536182
-
Lactobacillus crispatus modulates epithelial cell defense against Candida albicans through Toll-like receptors 2 and 4, interleukin 8 and human beta-defensins 2 and 3
-
Rizzo A, Losacco A, Carratelli CR. Lactobacillus crispatus modulates epithelial cell defense against Candida albicans through Toll-like receptors 2 and 4, interleukin 8 and human beta-defensins 2 and 3. Immunol Lett. 2013;156:102-9.
-
(2013)
Immunol Lett
, vol.156
, pp. 102-109
-
-
Rizzo, A.1
Losacco, A.2
Carratelli, C.R.3
-
61
-
-
84875903218
-
Antimicrobial and probiotic properties of yeasts: from fundamental to novel applications
-
Hatoum R, Labrie S, Fliss I. Antimicrobial and probiotic properties of yeasts: from fundamental to novel applications. Front Microbiol. 2012;3:421.
-
(2012)
Front Microbiol
, vol.3
, pp. 421
-
-
Hatoum, R.1
Labrie, S.2
Fliss, I.3
-
62
-
-
84907868514
-
The microbial eukaryote Blastocystis is a prevalent and diverse member of the healthy human gut microbiota
-
Scanlan PD, Stensvold CR, Rajilic-Stojanovic M, Heilig HG, De Vos WM, O'Toole PW, Cotter PD. The microbial eukaryote Blastocystis is a prevalent and diverse member of the healthy human gut microbiota. FEMS Microbiol Ecol. 2014;90:326-30.
-
(2014)
FEMS Microbiol Ecol
, vol.90
, pp. 326-330
-
-
Scanlan, P.D.1
Stensvold, C.R.2
Rajilic-Stojanovic, M.3
Heilig, H.G.4
Vos, W.M.5
O'Toole, P.W.6
Cotter, P.D.7
-
63
-
-
84928487252
-
Low prevalence of Blastocystis sp. in active ulcerative colitis patients
-
Rossen NG, Bart A, Verhaar N, van Nood E, Kootte R, de Groot PF, et al. Low prevalence of Blastocystis sp. in active ulcerative colitis patients. Eur J Clin Microbiol Infect Dis. 2015;34:1039-44.
-
(2015)
Eur J Clin Microbiol Infect Dis
, vol.34
, pp. 1039-1044
-
-
Rossen, N.G.1
Bart, A.2
Verhaar, N.3
Nood, E.4
Kootte, R.5
Groot, P.F.6
-
64
-
-
84929659920
-
Helminths and the microbiota: parts of the hygiene hypothesis
-
Loke P, Lim YA. Helminths and the microbiota: parts of the hygiene hypothesis. Parasite Immunol. 2015;37:314-23.
-
(2015)
Parasite Immunol
, vol.37
, pp. 314-323
-
-
Loke, P.1
Lim, Y.A.2
-
65
-
-
84929115079
-
Commensal-pathogen interactions in the intestinal tract: lactobacilli promote infection with, and are promoted by, helminth parasites
-
Reynolds LA, Smith KA, Filbey KJ, Harcus Y, Hewitson JP, Redpath SA, et al. Commensal-pathogen interactions in the intestinal tract: lactobacilli promote infection with, and are promoted by, helminth parasites. Gut Microbes. 2014;5:522-32.
-
(2014)
Gut Microbes
, vol.5
, pp. 522-532
-
-
Reynolds, L.A.1
Smith, K.A.2
Filbey, K.J.3
Harcus, Y.4
Hewitson, J.P.5
Redpath, S.A.6
-
66
-
-
84862141704
-
Human gut microbiome viewed across age and geography
-
Yatsunenko T, Rey FE, Manary MJ, Trehan I, Dominguez-Bello MG, Contreras M, et al. Human gut microbiome viewed across age and geography. Nature. 2012;486:222-7.
-
(2012)
Nature
, vol.486
, pp. 222-227
-
-
Yatsunenko, T.1
Rey, F.E.2
Manary, M.J.3
Trehan, I.4
Dominguez-Bello, M.G.5
Contreras, M.6
-
67
-
-
77957075815
-
Impact of diet in shaping gut microbiota revealed by a comparative study in children from Europe and rural Africa
-
De Filippo C, Cavalieri D, Di Paola M, Ramazzotti M, Poullet JB, Massart S, et al. Impact of diet in shaping gut microbiota revealed by a comparative study in children from Europe and rural Africa. Proc Natl Acad Sci U S A. 2010;107:14691-6.
-
(2010)
Proc Natl Acad Sci U S A
, vol.107
, pp. 14691-14696
-
-
Filippo, C.1
Cavalieri, D.2
Paola, M.3
Ramazzotti, M.4
Poullet, J.B.5
Massart, S.6
-
68
-
-
84938764374
-
Distinct composition of the oral indigenous microbiota in South Korean and Japanese adults
-
Takeshita T, Matsuo K, Furuta M, Shibata Y, Fukami K, Shimazaki Y, et al. Distinct composition of the oral indigenous microbiota in South Korean and Japanese adults. Sci Rep. 2014;4:6990.
-
(2014)
Sci Rep
, vol.4
, pp. 6990
-
-
Takeshita, T.1
Matsuo, K.2
Furuta, M.3
Shibata, Y.4
Fukami, K.5
Shimazaki, Y.6
-
69
-
-
84884238541
-
Human gut microbiota community structures in urban and rural populations in Russia
-
Tyakht AV, Kostryukova ES, Popenko AS, Belenikin MS, Pavlenko AV, Larin AK, et al. Human gut microbiota community structures in urban and rural populations in Russia. Nat Commun. 2013;4:2469.
-
(2013)
Nat Commun
, vol.4
, pp. 2469
-
-
Tyakht, A.V.1
Kostryukova, E.S.2
Popenko, A.S.3
Belenikin, M.S.4
Pavlenko, A.V.5
Larin, A.K.6
-
70
-
-
84939571535
-
A phylo-functional core of gut microbiota in healthy young Chinese cohorts across lifestyles, geography and ethnicities
-
Zhang J, Guo Z, Xue Z, Sun Z, Zhang M, Wang L, et al. A phylo-functional core of gut microbiota in healthy young Chinese cohorts across lifestyles, geography and ethnicities. ISME J. 2015;9:1979-90.
-
(2015)
ISME J
, vol.9
, pp. 1979-1990
-
-
Zhang, J.1
Guo, Z.2
Xue, Z.3
Sun, Z.4
Zhang, M.5
Wang, L.6
-
71
-
-
84920909558
-
Diet dominates host genotype in shaping the murine gut microbiota
-
Carmody RN, Gerber GK, Luevano Jr JM, Gatti DM, Somes L, Svenson KL, Turnbaugh PJ. Diet dominates host genotype in shaping the murine gut microbiota. Cell Host Microbe. 2015;17:72-84.
-
(2015)
Cell Host Microbe
, vol.17
, pp. 72-84
-
-
Carmody, R.N.1
Gerber, G.K.2
Luevano, J.M.3
Gatti, D.M.4
Somes, L.5
Svenson, K.L.6
Turnbaugh, P.J.7
-
72
-
-
84922941772
-
The dynamics of the human infant gut microbiome in development and in progression toward type 1 diabetes
-
Kostic AD, Gevers D, Siljander H, Vatanen T, Hyotylainen T, Hamalainen AM, et al. The dynamics of the human infant gut microbiome in development and in progression toward type 1 diabetes. Cell Host Microbe. 2015;17:260-73.
-
(2015)
Cell Host Microbe
, vol.17
, pp. 260-273
-
-
Kostic, A.D.1
Gevers, D.2
Siljander, H.3
Vatanen, T.4
Hyotylainen, T.5
Hamalainen, A.M.6
-
73
-
-
84871732071
-
Genomic variation landscape of the human gut microbiome
-
Schloissnig S, Arumugam M, Sunagawa S, Mitreva M, Tap J, Zhu A, et al. Genomic variation landscape of the human gut microbiome. Nature. 2013;493:45-50.
-
(2013)
Nature
, vol.493
, pp. 45-50
-
-
Schloissnig, S.1
Arumugam, M.2
Sunagawa, S.3
Mitreva, M.4
Tap, J.5
Zhu, A.6
-
74
-
-
84930649544
-
Identifying personal microbiomes using metagenomic codes
-
Franzosa EA, Huang K, Meadow JF, Gevers D, Lemon KP, Bohannan BJ, Huttenhower C. Identifying personal microbiomes using metagenomic codes. Proc Natl Acad Sci U S A. 2015;112:E2930-8.
-
(2015)
Proc Natl Acad Sci U S A
, vol.112
, pp. E2930-E2938
-
-
Franzosa, E.A.1
Huang, K.2
Meadow, J.F.3
Gevers, D.4
Lemon, K.P.5
Bohannan, B.J.6
Huttenhower, C.7
-
75
-
-
84880831180
-
Metagenome-wide analysis of antibiotic resistance genes in a large cohort of human gut microbiota
-
Hu Y, Yang X, Qin J, Lu N, Cheng G, Wu N, et al. Metagenome-wide analysis of antibiotic resistance genes in a large cohort of human gut microbiota. Nat Commun. 2013;4:2151.
-
(2013)
Nat Commun
, vol.4
, pp. 2151
-
-
Hu, Y.1
Yang, X.2
Qin, J.3
Lu, N.4
Cheng, G.5
Wu, N.6
-
76
-
-
0037423837
-
Traces of human migrations in Helicobacter pylori populations
-
Falush D, Wirth T, Linz B, Pritchard JK, Stephens M, Kidd M, et al. Traces of human migrations in Helicobacter pylori populations. Science. 2003;299:1582-5.
-
(2003)
Science
, vol.299
, pp. 1582-1585
-
-
Falush, D.1
Wirth, T.2
Linz, B.3
Pritchard, J.K.4
Stephens, M.5
Kidd, M.6
-
77
-
-
80053410384
-
The human microbiota as a marker for migrations of individuals and populations
-
Dominguez-Bello MG, Blaser MJ. The human microbiota as a marker for migrations of individuals and populations. Annu Rev Anthropol. 2011;40:451-74.
-
(2011)
Annu Rev Anthropol
, vol.40
, pp. 451-474
-
-
Dominguez-Bello, M.G.1
Blaser, M.J.2
-
78
-
-
84929297936
-
Dynamics and stabilization of the human gut microbiome during the first year of life
-
Backhed F, Roswall J, Peng Y, Feng Q, Jia H, Kovatcheva-Datchary P, et al. Dynamics and stabilization of the human gut microbiome during the first year of life. Cell Host Microbe. 2015;17:852.
-
(2015)
Cell Host Microbe
, vol.17
, pp. 852
-
-
Backhed, F.1
Roswall, J.2
Peng, Y.3
Feng, Q.4
Jia, H.5
Kovatcheva-Datchary, P.6
-
79
-
-
0032956143
-
Developmental microbial ecology of the neonatal gastrointestinal tract
-
Mackie RI, Sghir A, Gaskins HR. Developmental microbial ecology of the neonatal gastrointestinal tract. Am J Clin Nutr. 1999;69:1035s-45s.
-
(1999)
Am J Clin Nutr
, vol.69
, pp. 1035s-1045s
-
-
Mackie, R.I.1
Sghir, A.2
Gaskins, H.R.3
-
80
-
-
77955386857
-
Delivery mode shapes the acquisition and structure of the initial microbiota across multiple body habitats in newborns
-
Dominguez-Bello MG, Costello EK, Contreras M, Magris M, Hidalgo G, Fierer N, Knight R. Delivery mode shapes the acquisition and structure of the initial microbiota across multiple body habitats in newborns. Proc Natl Acad Sci U S A. 2010;107:11971-5.
-
(2010)
Proc Natl Acad Sci U S A
, vol.107
, pp. 11971-11975
-
-
Dominguez-Bello, M.G.1
Costello, E.K.2
Contreras, M.3
Magris, M.4
Hidalgo, G.5
Fierer, N.6
Knight, R.7
-
81
-
-
84941183248
-
The role of short chain fatty acids in appetite regulation and energy homeostasis
-
Byrne CS, Chambers ES, Morrison DJ, Frost G. The role of short chain fatty acids in appetite regulation and energy homeostasis. Int J Obes (Lond). 2015;39:1331-8.
-
(2015)
Int J Obes (Lond)
, vol.39
, pp. 1331-1338
-
-
Byrne, C.S.1
Chambers, E.S.2
Morrison, D.J.3
Frost, G.4
-
82
-
-
84881068658
-
The microbial metabolites, short-chain fatty acids, regulate colonic Treg cell homeostasis
-
Smith PM, Howitt MR, Panikov N, Michaud M, Gallini CA, Bohlooly YM, et al. The microbial metabolites, short-chain fatty acids, regulate colonic Treg cell homeostasis. Science. 2013;341:569-73.
-
(2013)
Science
, vol.341
, pp. 569-573
-
-
Smith, P.M.1
Howitt, M.R.2
Panikov, N.3
Michaud, M.4
Gallini, C.A.5
Bohlooly, Y.M.6
-
83
-
-
78650618692
-
G-protein-coupled receptor for short-chain fatty acids suppresses colon cancer
-
Tang Y, Chen Y, Jiang H, Robbins GT, Nie D. G-protein-coupled receptor for short-chain fatty acids suppresses colon cancer. Int J Cancer. 2011;128:847-56.
-
(2011)
Int J Cancer
, vol.128
, pp. 847-856
-
-
Tang, Y.1
Chen, Y.2
Jiang, H.3
Robbins, G.T.4
Nie, D.5
-
84
-
-
84893859801
-
The microbial metabolite butyrate regulates intestinal macrophage function via histone deacetylase inhibition
-
Chang PV, Hao L, Offermanns S, Medzhitov R. The microbial metabolite butyrate regulates intestinal macrophage function via histone deacetylase inhibition. Proc Natl Acad Sci U S A. 2014;111:2247-52.
-
(2014)
Proc Natl Acad Sci U S A
, vol.111
, pp. 2247-2252
-
-
Chang, P.V.1
Hao, L.2
Offermanns, S.3
Medzhitov, R.4
-
85
-
-
79956311926
-
The Toll-like receptor 2 pathway establishes colonization by a commensal of the human microbiota
-
Round JL, Lee SM, Li J, Tran G, Jabri B, Chatila TA, Mazmanian SK. The Toll-like receptor 2 pathway establishes colonization by a commensal of the human microbiota. Science. 2011;332:974-7.
-
(2011)
Science
, vol.332
, pp. 974-977
-
-
Round, J.L.1
Lee, S.M.2
Li, J.3
Tran, G.4
Jabri, B.5
Chatila, T.A.6
Mazmanian, S.K.7
-
86
-
-
79956315886
-
Intestinal bacterial colonization induces mutualistic regulatory T cell responses
-
Geuking MB, Cahenzli J, Lawson MA, Ng DC, Slack E, Hapfelmeier S, et al. Intestinal bacterial colonization induces mutualistic regulatory T cell responses. Immunity. 2011;34:794-806.
-
(2011)
Immunity
, vol.34
, pp. 794-806
-
-
Geuking, M.B.1
Cahenzli, J.2
Lawson, M.A.3
Ng, D.C.4
Slack, E.5
Hapfelmeier, S.6
-
87
-
-
55949124035
-
Faecalibacterium prausnitzii is an anti-inflammatory commensal bacterium identified by gut microbiota analysis of Crohn disease patients
-
Sokol H, Pigneur B, Watterlot L, Lakhdari O, Bermudez-Humaran LG, Gratadoux JJ, et al. Faecalibacterium prausnitzii is an anti-inflammatory commensal bacterium identified by gut microbiota analysis of Crohn disease patients. Proc Natl Acad Sci U S A. 2008;105:16731-6.
-
(2008)
Proc Natl Acad Sci U S A
, vol.105
, pp. 16731-16736
-
-
Sokol, H.1
Pigneur, B.2
Watterlot, L.3
Lakhdari, O.4
Bermudez-Humaran, L.G.5
Gratadoux, J.J.6
-
88
-
-
77955913743
-
A polysaccharide from the human commensal Bacteroides fragilis protects against CNS demyelinating disease
-
Ochoa-Reparaz J, Mielcarz DW, Wang Y, Begum-Haque S, Dasgupta S, Kasper DL, Kasper LH. A polysaccharide from the human commensal Bacteroides fragilis protects against CNS demyelinating disease. Mucosal Immunol. 2010;3:487-95.
-
(2010)
Mucosal Immunol
, vol.3
, pp. 487-495
-
-
Ochoa-Reparaz, J.1
Mielcarz, D.W.2
Wang, Y.3
Begum-Haque, S.4
Dasgupta, S.5
Kasper, D.L.6
Kasper, L.H.7
-
89
-
-
84881477044
-
Treg induction by a rationally selected mixture of Clostridia strains from the human microbiota
-
Atarashi K, Tanoue T, Oshima K, Suda W, Nagano Y, Nishikawa H, et al. Treg induction by a rationally selected mixture of Clostridia strains from the human microbiota. Nature. 2013;500:232-6.
-
(2013)
Nature
, vol.500
, pp. 232-236
-
-
Atarashi, K.1
Tanoue, T.2
Oshima, K.3
Suda, W.4
Nagano, Y.5
Nishikawa, H.6
-
90
-
-
84892828465
-
Diet rapidly and reproducibly alters the human gut microbiome
-
David LA, Maurice CF, Carmody RN, Gootenberg DB, Button JE, Wolfe BE, et al. Diet rapidly and reproducibly alters the human gut microbiome. Nature. 2014;505:559-63.
-
(2014)
Nature
, vol.505
, pp. 559-563
-
-
David, L.A.1
Maurice, C.F.2
Carmody, R.N.3
Gootenberg, D.B.4
Button, J.E.5
Wolfe, B.E.6
-
91
-
-
79952742717
-
Human milk glycobiome and its impact on the infant gastrointestinal microbiota
-
Zivkovic AM, German JB, Lebrilla CB, Mills DA. Human milk glycobiome and its impact on the infant gastrointestinal microbiota. Proc Natl Acad Sci U S A. 2011;108(1):4653-8.
-
(2011)
Proc Natl Acad Sci U S A
, vol.108
, Issue.1
, pp. 4653-4658
-
-
Zivkovic, A.M.1
German, J.B.2
Lebrilla, C.B.3
Mills, D.A.4
-
92
-
-
84959476433
-
Sialylated milk oligosaccharides promote microbiota-dependent growth in models of infant undernutrition
-
Charbonneau MR, O'Donnell D, Blanton LV, Totten SM, Davis JC, Barratt MJ, et al. Sialylated milk oligosaccharides promote microbiota-dependent growth in models of infant undernutrition. Cell. 2016;164:859-71.
-
(2016)
Cell
, vol.164
, pp. 859-871
-
-
Charbonneau, M.R.1
O'Donnell, D.2
Blanton, L.V.3
Totten, S.M.4
Davis, J.C.5
Barratt, M.J.6
-
93
-
-
80053119364
-
Bovine milk as a source of functional oligosaccharides for improving human health
-
Zivkovic AM, Barile D. Bovine milk as a source of functional oligosaccharides for improving human health. Adv Nutr. 2011;2:284-9.
-
(2011)
Adv Nutr
, vol.2
, pp. 284-289
-
-
Zivkovic, A.M.1
Barile, D.2
-
94
-
-
49849093168
-
Infant formula oligosaccharides opening the gates (for speculation): commentary on the article by Barrat et al. on page 34
-
Ninonuevo MR, Bode L. Infant formula oligosaccharides opening the gates (for speculation): commentary on the article by Barrat et al. on page 34. Pediatr Res. 2008;64:8-10.
-
(2008)
Pediatr Res
, vol.64
, pp. 8-10
-
-
Ninonuevo, M.R.1
Bode, L.2
-
95
-
-
77956389414
-
The risks of not breastfeeding for mothers and infants
-
Stuebe A. The risks of not breastfeeding for mothers and infants. Rev Obstet Gynecol. 2009;2:222-31.
-
(2009)
Rev Obstet Gynecol
, vol.2
, pp. 222-231
-
-
Stuebe, A.1
-
96
-
-
84961291157
-
Which is more important for classifying microbial communities: who's there or what they can do?
-
Xu Z, Malmer D, Langille MG, Way SF, Knight R. Which is more important for classifying microbial communities: who's there or what they can do? ISME J. 2014;8:2357-9.
-
(2014)
ISME J
, vol.8
, pp. 2357-2359
-
-
Xu, Z.1
Malmer, D.2
Langille, M.G.3
Way, S.F.4
Knight, R.5
-
98
-
-
84864037467
-
Metabolic reconstruction for metagenomic data and its application to the human microbiome
-
Abubucker S, Segata N, Goll J, Schubert AM, Izard J, Cantarel BL, 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
Segata, N.2
Goll, J.3
Schubert, A.M.4
Izard, J.5
Cantarel, B.L.6
-
101
-
-
84861992014
-
The application of ecological theory toward an understanding of the human microbiome
-
Costello EK, Stagaman K, Dethlefsen L, Bohannan BJ, Relman DA. The application of ecological theory toward an understanding of the human microbiome. Science. 2012;336:1255-62.
-
(2012)
Science
, vol.336
, pp. 1255-1262
-
-
Costello, E.K.1
Stagaman, K.2
Dethlefsen, L.3
Bohannan, B.J.4
Relman, D.A.5
-
102
-
-
80052156440
-
Bacterial community assembly based on functional genes rather than species
-
Burke C, Steinberg P, Rusch D, Kjelleberg S, Thomas T. Bacterial community assembly based on functional genes rather than species. Proc Natl Acad Sci U S A. 2011;108:14288-93.
-
(2011)
Proc Natl Acad Sci U S A
, vol.108
, pp. 14288-14293
-
-
Burke, C.1
Steinberg, P.2
Rusch, D.3
Kjelleberg, S.4
Thomas, T.5
-
103
-
-
84965187800
-
Temporal variability is a personalized feature of the human microbiome
-
Flores GE, Caporaso JG, Henley JB, Rideout JR, Domogala D, Chase J, et al. Temporal variability is a personalized feature of the human microbiome. Genome Biol. 2014;15:531.
-
(2014)
Genome Biol
, vol.15
, pp. 531
-
-
Flores, G.E.1
Caporaso, J.G.2
Henley, J.B.3
Rideout, J.R.4
Domogala, D.5
Chase, J.6
-
104
-
-
84902657697
-
Inflammatory bowel disease as a model for translating the microbiome
-
Huttenhower C, Kostic AD, Xavier RJ. Inflammatory bowel disease as a model for translating the microbiome. Immunity. 2014;40:843-54.
-
(2014)
Immunity
, vol.40
, pp. 843-854
-
-
Huttenhower, C.1
Kostic, A.D.2
Xavier, R.J.3
-
105
-
-
84860560056
-
Temporal shifts in the skin microbiome associated with disease flares and treatment in children with atopic dermatitis
-
Kong HH, Oh J, Deming C, Conlan S, Grice EA, Beatson MA, et al. Temporal shifts in the skin microbiome associated with disease flares and treatment in children with atopic dermatitis. Genome Res. 2012;22:850-9.
-
(2012)
Genome Res
, vol.22
, pp. 850-859
-
-
Kong, H.H.1
Oh, J.2
Deming, C.3
Conlan, S.4
Grice, E.A.5
Beatson, M.A.6
-
106
-
-
84896097133
-
Microbiomic signatures of psoriasis: feasibility and methodology comparison
-
Statnikov A, Alekseyenko AV, Li Z, Henaff M, Perez-Perez GI, Blaser MJ, Aliferis CF. Microbiomic signatures of psoriasis: feasibility and methodology comparison. Sci Rep. 2013;3:2620.
-
(2013)
Sci Rep
, vol.3
, pp. 2620
-
-
Statnikov, A.1
Alekseyenko, A.V.2
Li, Z.3
Henaff, M.4
Perez-Perez, G.I.5
Blaser, M.J.6
Aliferis, C.F.7
-
107
-
-
79952756960
-
Incomplete recovery and individualized responses of the human distal gut microbiota to repeated antibiotic perturbation
-
Dethlefsen L, Relman DA. Incomplete recovery and individualized responses of the human distal gut microbiota to repeated antibiotic perturbation. Proc Natl Acad Sci U S A. 2011;108(1):4554-61.
-
(2011)
Proc Natl Acad Sci U S A
, vol.108
, Issue.1
, pp. 4554-4561
-
-
Dethlefsen, L.1
Relman, D.A.2
-
108
-
-
27644443333
-
Molecular identification of bacteria associated with bacterial vaginosis
-
Fredricks DN, Fiedler TL, Marrazzo JM. Molecular identification of bacteria associated with bacterial vaginosis. New Engl J Med. 2005;353:1899-911.
-
(2005)
New Engl J Med
, vol.353
, pp. 1899-1911
-
-
Fredricks, D.N.1
Fiedler, T.L.2
Marrazzo, J.M.3
-
109
-
-
84947555858
-
Cervical intraepithelial neoplasia disease progression is associated with increased vaginal microbiome diversity
-
Mitra A, MacIntyre DA, Lee YS, Smith A, Marchesi JR, Lehne B, et al. Cervical intraepithelial neoplasia disease progression is associated with increased vaginal microbiome diversity. Sci Rep. 2015;5:16865.
-
(2015)
Sci Rep
, vol.5
, pp. 16865
-
-
Mitra, A.1
MacIntyre, D.A.2
Lee, Y.S.3
Smith, A.4
Marchesi, J.R.5
Lehne, B.6
-
110
-
-
84929688630
-
Cervicovaginal bacteria are a major modulator of host inflammatory responses in the female genital tract
-
Anahtar MN, Byrne EH, Doherty KE, Bowman BA, Yamamoto HS, Soumillon M, et al. Cervicovaginal bacteria are a major modulator of host inflammatory responses in the female genital tract. Immunity. 2015;42:965-76.
-
(2015)
Immunity
, vol.42
, pp. 965-976
-
-
Anahtar, M.N.1
Byrne, E.H.2
Doherty, K.E.3
Bowman, B.A.4
Yamamoto, H.S.5
Soumillon, M.6
-
111
-
-
70449703996
-
What are the consequences of the disappearing human microbiota?
-
Blaser MJ, Falkow S. What are the consequences of the disappearing human microbiota? Nat Rev Microbiol. 2009;7:887-94.
-
(2009)
Nat Rev Microbiol
, vol.7
, pp. 887-894
-
-
Blaser, M.J.1
Falkow, S.2
-
112
-
-
84923080032
-
Gut microbiome of the Hadza hunter-gatherers
-
Schnorr SL, Candela M, Rampelli S, Centanni M, Consolandi C, Basaglia G, et al. Gut microbiome of the Hadza hunter-gatherers. Nat Commun. 2014;5:3654.
-
(2014)
Nat Commun
, vol.5
, pp. 3654
-
-
Schnorr, S.L.1
Candela, M.2
Rampelli, S.3
Centanni, M.4
Consolandi, C.5
Basaglia, G.6
-
113
-
-
84996584385
-
The microbiome of uncontacted Amerindians
-
Clemente JC, Pehrsson EC, Blaser MJ, Sandhu K, Gao Z, Wang B, et al. The microbiome of uncontacted Amerindians. Sci Adv. 2015;1(3):e1500183.
-
(2015)
Sci Adv
, vol.1
, Issue.3
, pp. e1500183
-
-
Clemente, J.C.1
Pehrsson, E.C.2
Blaser, M.J.3
Sandhu, K.4
Gao, Z.5
Wang, B.6
-
114
-
-
84954099831
-
Diet-induced extinctions in the gut microbiota compound over generations
-
Sonnenburg ED, Smits SA, Tikhonov M, Higginbottom SK, Wingreen NS, Sonnenburg JL. Diet-induced extinctions in the gut microbiota compound over generations. Nature. 2016;529:212-5.
-
(2016)
Nature
, vol.529
, pp. 212-215
-
-
Sonnenburg, E.D.1
Smits, S.A.2
Tikhonov, M.3
Higginbottom, S.K.4
Wingreen, N.S.5
Sonnenburg, J.L.6
-
115
-
-
0024417450
-
Hay fever, hygiene, and household size
-
Strachan DP. Hay fever, hygiene, and household size. BMJ. 1989;299:1259-60.
-
(1989)
BMJ
, vol.299
, pp. 1259-1260
-
-
Strachan, D.P.1
-
116
-
-
56849106496
-
The pervasive effects of an antibiotic on the human gut microbiota, as revealed by deep 16S rRNA sequencing
-
Dethlefsen L, Huse S, Sogin ML, Relman DA. The pervasive effects of an antibiotic on the human gut microbiota, as revealed by deep 16S rRNA sequencing. PLoS Biol. 2008;6(11), e280.
-
(2008)
PLoS Biol
, vol.6
, Issue.11
-
-
Dethlefsen, L.1
Huse, S.2
Sogin, M.L.3
Relman, D.A.4
-
117
-
-
84867303343
-
A dynamical-systems view of stem cell biology
-
Furusawa C, Kaneko K. A dynamical-systems view of stem cell biology. Science. 2012;338:215-7.
-
(2012)
Science
, vol.338
, pp. 215-217
-
-
Furusawa, C.1
Kaneko, K.2
-
118
-
-
84862286169
-
A framework for human microbiome research
-
The Human Microbiome Project Consortium. A framework for human microbiome research. Nature. 2012;486:215-21.
-
(2012)
Nature
, vol.486
, pp. 215-221
-
-
-
119
-
-
84904569753
-
Conducting a microbiome study
-
Goodrich JK, Di Rienzi SC, Poole AC, Koren O, Walters WA, Caporaso JG, et al. Conducting a microbiome study. Cell. 2014;158:250-62.
-
(2014)
Cell
, vol.158
, pp. 250-262
-
-
Goodrich, J.K.1
Rienzi, S.C.2
Poole, A.C.3
Koren, O.4
Walters, W.A.5
Caporaso, J.G.6
-
120
-
-
0021316404
-
The Framingham Heart Study: review of epidemiological design and data, limitations and prospects
-
Higgins MW. The Framingham Heart Study: review of epidemiological design and data, limitations and prospects. Prog Clin Biol Res. 1984;147:51-64.
-
(1984)
Prog Clin Biol Res
, vol.147
, pp. 51-64
-
-
Higgins, M.W.1
-
121
-
-
84947812071
-
Personalized nutrition by prediction of glycemic responses
-
Zeevi D, Korem T, Zmora N, Israeli D, Rothschild D, Weinberger A, et al. Personalized nutrition by prediction of glycemic responses. Cell. 2015;163:1079-94.
-
(2015)
Cell
, vol.163
, pp. 1079-1094
-
-
Zeevi, D.1
Korem, T.2
Zmora, N.3
Israeli, D.4
Rothschild, D.5
Weinberger, A.6
-
122
-
-
84907686349
-
The Integrative Human Microbiome Project: dynamic analysis of microbiome-host omics profiles during periods of human health and disease
-
The Integrative Human Microbiome Project Research Network Consortium. The Integrative Human Microbiome Project: dynamic analysis of microbiome-host omics profiles during periods of human health and disease. Cell Host Microbe. 2014;16:276-89.
-
(2014)
Cell Host Microbe
, vol.16
, pp. 276-289
-
-
-
123
-
-
84880931423
-
Functional profiling of the gut microbiome in disease-associated inflammation
-
Bornigen D, Morgan XC, Franzosa EA, Ren B, Xavier RJ, Garrett WS, Huttenhower C. 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
Morgan, X.C.2
Franzosa, E.A.3
Ren, B.4
Xavier, R.J.5
Garrett, W.S.6
Huttenhower, C.7
-
124
-
-
84861539347
-
Regulation of intestinal inflammation by microbiota following allogeneic bone marrow transplantation
-
Jenq RR, Ubeda C, Taur Y, Menezes CC, Khanin R, Dudakov JA, et al. Regulation of intestinal inflammation by microbiota following allogeneic bone marrow transplantation. J Exp Med. 2012;209:903-11.
-
(2012)
J Exp Med
, vol.209
, pp. 903-911
-
-
Jenq, R.R.1
Ubeda, C.2
Taur, Y.3
Menezes, C.C.4
Khanin, R.5
Dudakov, J.A.6
-
125
-
-
84876556918
-
EcoCyc: fusing model organism databases with systems biology
-
Keseler IM, Mackie A, Peralta-Gil M, Santos-Zavaleta A, Gama-Castro S, Bonavides-Martinez C, et al. EcoCyc: fusing model organism databases with systems biology. Nucleic Acids Res. 2013;41(Database issue):D605-12.
-
(2013)
Nucleic Acids Res
, vol.41
, Issue.Database issue
, pp. D605-D612
-
-
Keseler, I.M.1
Mackie, A.2
Peralta-Gil, M.3
Santos-Zavaleta, A.4
Gama-Castro, S.5
Bonavides-Martinez, C.6
-
126
-
-
53849104729
-
The pangenome structure of Escherichia coli: comparative genomic analysis of E. coli commensal and pathogenic isolates
-
Rasko DA, Rosovitz MJ, Myers GS, Mongodin EF, Fricke WF, Gajer P, et al. The pangenome structure of Escherichia coli: comparative genomic analysis of E. coli commensal and pathogenic isolates. J Bacteriol. 2008;190:6881-93.
-
(2008)
J Bacteriol
, vol.190
, pp. 6881-6893
-
-
Rasko, D.A.1
Rosovitz, M.J.2
Myers, G.S.3
Mongodin, E.F.4
Fricke, W.F.5
Gajer, P.6
-
127
-
-
84921508958
-
Using comparative genomics to drive new discoveries in microbiology
-
Haft DH. Using comparative genomics to drive new discoveries in microbiology. Curr Opin Microbiol. 2015;23:189-96.
-
(2015)
Curr Opin Microbiol
, vol.23
, pp. 189-196
-
-
Haft, D.H.1
-
128
-
-
84876515907
-
STRING v9.1: protein-protein interaction networks, with increased coverage and integration
-
Franceschini A, Szklarczyk D, Frankild S, Kuhn M, Simonovic M, Roth A, et al. STRING v9.1: protein-protein interaction networks, with increased coverage and integration. Nucleic Acids Res. 2013;41(Database issue):D808-15.
-
(2013)
Nucleic Acids Res
, vol.41
, Issue.Database issue
, pp. D808-D815
-
-
Franceschini, A.1
Szklarczyk, D.2
Frankild, S.3
Kuhn, M.4
Simonovic, M.5
Roth, A.6
-
129
-
-
84883152491
-
The COMBREX project: design, methodology, and initial results
-
Anton BP, Chang YC, Brown P, Choi HP, Faller LL, Guleria J, et al. The COMBREX project: design, methodology, and initial results. PLoS Biol. 2013;11, e1001638.
-
(2013)
PLoS Biol
, vol.11
-
-
Anton, B.P.1
Chang, Y.C.2
Brown, P.3
Choi, H.P.4
Faller, L.L.5
Guleria, J.6
-
130
-
-
84960101533
-
Chemostat culture systems support diverse bacteriophage communities from human feces
-
Santiago-Rodriguez TM, Ly M, Daigneault MC, Brown IH, McDonald JA, Bonilla N, et al. Chemostat culture systems support diverse bacteriophage communities from human feces. Microbiome. 2015;3:58.
-
(2015)
Microbiome
, vol.3
, pp. 58
-
-
Santiago-Rodriguez, T.M.1
Ly, M.2
Daigneault, M.C.3
Brown, I.H.4
McDonald, J.A.5
Bonilla, N.6
-
131
-
-
84866148001
-
Routine use of microbial whole genome sequencing in diagnostic and public health microbiology
-
Koser CU, Ellington MJ, Cartwright EJ, Gillespie SH, Brown NM, Farrington M, et al. Routine use of microbial whole genome sequencing in diagnostic and public health microbiology. PLoS Pathog. 2012;8, e1002824.
-
(2012)
PLoS Pathog
, vol.8
-
-
Koser, C.U.1
Ellington, M.J.2
Cartwright, E.J.3
Gillespie, S.H.4
Brown, N.M.5
Farrington, M.6
-
132
-
-
84875905994
-
Diagnostic applications of high-throughput DNA sequencing
-
Boyd SD. Diagnostic applications of high-throughput DNA sequencing. Annu Rev Pathol. 2013;8:381-410.
-
(2013)
Annu Rev Pathol
, vol.8
, pp. 381-410
-
-
Boyd, S.D.1
|