-
1
-
-
0028946084
-
Phylogenetic identification and in-situ detection of individual microbial-cells without cultivation
-
Amann RI, Ludwig W & Schleifer KH (1995) Phylogenetic identification and in-situ detection of individual microbial-cells without cultivation. Microbiol Rev 59: 143-169.
-
(1995)
Microbiol Rev
, vol.59
, pp. 143-169
-
-
Amann, R.I.1
Ludwig, W.2
Schleifer, K.H.3
-
2
-
-
0035370087
-
The identification of microorganisms by fluorescence in situ hybridisation
-
Amann R, Fuchs BM & Behrens S (2001) The identification of microorganisms by fluorescence in situ hybridisation. Curr Opin Biotechnol 12: 231-236.
-
(2001)
Curr Opin Biotechnol
, vol.12
, pp. 231-236
-
-
Amann, R.1
Fuchs, B.M.2
Behrens, S.3
-
3
-
-
0141815821
-
Selective plating underestimates abundance and shows differential recovery of bifidobacterial species from human feces
-
Apajalahti JHA, Kettunen A, Nurminen PH, Jatila H & Holben WE (2003) Selective plating underestimates abundance and shows differential recovery of bifidobacterial species from human feces. Appl Environ Microbiol 69: 5731-5735.
-
(2003)
Appl Environ Microbiol
, vol.69
, pp. 5731-5735
-
-
Apajalahti, J.H.A.1
Kettunen, A.2
Nurminen, P.H.3
Jatila, H.4
Holben, W.E.5
-
4
-
-
80051682396
-
Flow cytometry to assess biochemical pathways in heat-stressed Cronobacter spp. (formerly Enterobacter sakazakii)
-
Arku B, Fanning S & Jordan K (2011) Flow cytometry to assess biochemical pathways in heat-stressed Cronobacter spp. (formerly Enterobacter sakazakii). J Appl Microbiol 111: 616-624.
-
(2011)
J Appl Microbiol
, vol.111
, pp. 616-624
-
-
Arku, B.1
Fanning, S.2
Jordan, K.3
-
5
-
-
85027927719
-
Enterotypes of the human gut microbiome
-
Arumugam M, Raes J, Pelletier E et al. (2011) Enterotypes of the human gut microbiome. Nature 473: 174-180.
-
(2011)
Nature
, vol.473
, pp. 174-180
-
-
Arumugam, M.1
Raes, J.2
Pelletier, E.3
-
6
-
-
85027947787
-
Induction of colonic regulatory T cells by indigenous Clostridium species
-
Atarashi K, Tanoue T, Shima T et al. (2011) Induction of colonic regulatory T cells by indigenous Clostridium species. Science 331: 337-341.
-
(2011)
Science
, vol.331
, pp. 337-341
-
-
Atarashi, K.1
Tanoue, T.2
Shima, T.3
-
7
-
-
8144226856
-
The gut microbiota as an environmental factor that regulates fat storage
-
Backhed F, Ding H, Wang T, Hooper LV, Koh GY, Nagy A, Semenkovich CF & Gordon JI (2004) The gut microbiota as an environmental factor that regulates fat storage. P Natl Acad Sci USA 101: 15718-15723.
-
(2004)
P Natl Acad Sci USA
, vol.101
, pp. 15718-15723
-
-
Backhed, F.1
Ding, H.2
Wang, T.3
Hooper, L.V.4
Koh, G.Y.5
Nagy, A.6
Semenkovich, C.F.7
Gordon, J.I.8
-
8
-
-
44249104008
-
Linking microbial phylogeny to metabolic activity at the single-cell level by using enhanced element labeling-catalyzed reporter deposition fluorescence in situ hybridization (EL-FISH) and NanoSIMS
-
Behrens S, Losekann T, Pett-Ridge J, Weber PK, Ng WO, Stevenson BS, Hutcheon ID, Relman DA & Spormann AM (2008) Linking microbial phylogeny to metabolic activity at the single-cell level by using enhanced element labeling-catalyzed reporter deposition fluorescence in situ hybridization (EL-FISH) and NanoSIMS. Appl Environ Microbiol 74: 3143-3150.
-
(2008)
Appl Environ Microbiol
, vol.74
, pp. 3143-3150
-
-
Behrens, S.1
Losekann, T.2
Pett-Ridge, J.3
Weber, P.K.4
Ng, W.O.5
Stevenson, B.S.6
Hutcheon, I.D.7
Relman, D.A.8
Spormann, A.M.9
-
9
-
-
0036841272
-
Multiparametric flow cytometry and cell sorting for the assessment of viable, injured, and dead bifidobacterium cells during bile salt stress
-
Ben Amor K, Breeuwer P, Verbaarschot P, Rombouts FM, Akkermans ADL, De Vos WM & Abee T (2002) Multiparametric flow cytometry and cell sorting for the assessment of viable, injured, and dead bifidobacterium cells during bile salt stress. Appl Environ Microbiol 68: 5209-5216.
-
(2002)
Appl Environ Microbiol
, vol.68
, pp. 5209-5216
-
-
Ben Amor, K.1
Breeuwer, P.2
Verbaarschot, P.3
Rombouts, F.M.4
Akkermans, A.D.L.5
De Vos, W.M.6
Abee, T.7
-
10
-
-
23744446233
-
Genetic diversity of viable, injured, and dead fecal bacteria assessed by fluorescence-activated cell sorting and 16S rRNA gene analysis
-
Ben-Amor K, Heilig H, Smidt H, Vaughan EE, Abee T & de Vos WM (2005) Genetic diversity of viable, injured, and dead fecal bacteria assessed by fluorescence-activated cell sorting and 16S rRNA gene analysis. Appl Environ Microbiol 71: 4679-4689.
-
(2005)
Appl Environ Microbiol
, vol.71
, pp. 4679-4689
-
-
Ben-Amor, K.1
Heilig, H.2
Smidt, H.3
Vaughan, E.E.4
Abee, T.5
de Vos, W.M.6
-
12
-
-
79960418118
-
Sulfatases and a radical S-adenosyl-L-methionine (AdoMet) enzyme are key for mucosal foraging and fitness of the prominent human gut symbiont, Bacteroides thetaiotaomicron
-
Benjdia A, Martens EC, Gordon JI & Berteau O (2011) Sulfatases and a radical S-adenosyl-L-methionine (AdoMet) enzyme are key for mucosal foraging and fitness of the prominent human gut symbiont, Bacteroides thetaiotaomicron. J Biol Chem 286: 25973-25982.
-
(2011)
J Biol Chem
, vol.286
, pp. 25973-25982
-
-
Benjdia, A.1
Martens, E.C.2
Gordon, J.I.3
Berteau, O.4
-
13
-
-
0003776074
-
-
Wiley, New York.
-
Benninghoven A, Rudenauer FG & Werner HW (1987) Secondary Ion Mass Spectrometry: Basic Concepts, Instrumental Aspects, Applications, and Trends. Wiley, New York.
-
(1987)
Secondary Ion Mass Spectrometry: Basic Concepts, Instrumental Aspects, Applications, and Trends
-
-
Benninghoven, A.1
Rudenauer, F.G.2
Werner, H.W.3
-
15
-
-
31444449652
-
Molecular analysis of the bacterial microbiota in the human stomach
-
Bik EM, Eckburg PB, Gill SR, Nelson KE, Purdom EA, Francois F, Perez-Perez G, Blaser MJ & Relman DA (2006) Molecular analysis of the bacterial microbiota in the human stomach. P Natl Acad Sci USA 103: 732-737.
-
(2006)
P Natl Acad Sci USA
, vol.103
, pp. 732-737
-
-
Bik, E.M.1
Eckburg, P.B.2
Gill, S.R.3
Nelson, K.E.4
Purdom, E.A.5
Francois, F.6
Perez-Perez, G.7
Blaser, M.J.8
Relman, D.A.9
-
16
-
-
84876122754
-
The future is now: single-cell genomics of bacteria and archaea
-
Blainey PC (2013) The future is now: single-cell genomics of bacteria and archaea. FEMS Microbiol Rev. 37: 407-427.
-
(2013)
FEMS Microbiol Rev
, vol.37
, pp. 407-427
-
-
Blainey, P.C.1
-
17
-
-
34447327017
-
A comparative study of the cytometric characteristics of high and low nucleic-acid bacterioplankton cells from different aquatic ecosystems
-
Bouvier T, Del Giorgio PA & Gasol JM (2007) A comparative study of the cytometric characteristics of high and low nucleic-acid bacterioplankton cells from different aquatic ecosystems. Environ Microbiol 9: 2050-2066.
-
(2007)
Environ Microbiol
, vol.9
, pp. 2050-2066
-
-
Bouvier, T.1
Del Giorgio, P.A.2
Gasol, J.M.3
-
18
-
-
77953904042
-
Virus-plus-susceptibility gene interaction determines Crohn's disease gene Atg16L1 phenotypes in intestine
-
Cadwell K, Patel KK, Maloney NS, Liu TC, Ng AC, Storer CE, Head RD, Xavier R, Stappenbeck TS & Virgin HW (2010) Virus-plus-susceptibility gene interaction determines Crohn's disease gene Atg16L1 phenotypes in intestine. Cell 141: 1135-1145.
-
(2010)
Cell
, vol.141
, pp. 1135-1145
-
-
Cadwell, K.1
Patel, K.K.2
Maloney, N.S.3
Liu, T.C.4
Ng, A.C.5
Storer, C.E.6
Head, R.D.7
Xavier, R.8
Stappenbeck, T.S.9
Virgin, H.W.10
-
19
-
-
84867238386
-
Multidomain carbohydrate-binding proteins involved in Bacteroides thetaiotaomicron starch metabolism
-
Cameron EA, Maynard MA, Smith CJ, Smith TJ, Koropatkin NM & Martens EC (2012) Multidomain carbohydrate-binding proteins involved in Bacteroides thetaiotaomicron starch metabolism. J Biol Chem 287: 34614-34625.
-
(2012)
J Biol Chem
, vol.287
, pp. 34614-34625
-
-
Cameron, E.A.1
Maynard, M.A.2
Smith, C.J.3
Smith, T.J.4
Koropatkin, N.M.5
Martens, E.C.6
-
20
-
-
84865477413
-
Antibiotics in early life alter the murine colonic microbiome and adiposity
-
Cho I, Yamanishi S, Cox L et al. (2012) Antibiotics in early life alter the murine colonic microbiome and adiposity. Nature 488: 621-626.
-
(2012)
Nature
, vol.488
, pp. 621-626
-
-
Cho, I.1
Yamanishi, S.2
Cox, L.3
-
21
-
-
84862637797
-
Gut immune maturation depends on colonization with a host-specific microbiota
-
Chung H, Pamp SJ, Hill JA et al. (2012) Gut immune maturation depends on colonization with a host-specific microbiota. Cell 149: 1578-1593.
-
(2012)
Cell
, vol.149
, pp. 1578-1593
-
-
Chung, H.1
Pamp, S.J.2
Hill, J.A.3
-
22
-
-
84862276328
-
Structure, function and diversity of the healthy human microbiome
-
Consortium THMP (2012) Structure, function and diversity of the healthy human microbiome. Nature 486: 207-214.
-
(2012)
Nature
, vol.486
, pp. 207-214
-
-
Consortium, T.H.M.P.1
-
23
-
-
72949091232
-
Bacterial community variation in human body habitats across space and time
-
Costello EK, Lauber CL, Hamady M, Fierer N, Gordon JI & Knight R (2009) Bacterial community variation in human body habitats across space and time. Science 326: 1694-1697.
-
(2009)
Science
, vol.326
, pp. 1694-1697
-
-
Costello, E.K.1
Lauber, C.L.2
Hamady, M.3
Fierer, N.4
Gordon, J.I.5
Knight, R.6
-
24
-
-
0034469143
-
Community composition of marine bacterioplankton determined by 16S rRNA gene clone libraries and fluorescence in situ hybridization
-
Cottrell MT & Kirchman DL (2000) Community composition of marine bacterioplankton determined by 16S rRNA gene clone libraries and fluorescence in situ hybridization. Appl Environ Microbiol 66: 5116-5122.
-
(2000)
Appl Environ Microbiol
, vol.66
, pp. 5116-5122
-
-
Cottrell, M.T.1
Kirchman, D.L.2
-
25
-
-
79959827651
-
Trade-off between bile resistance and nutritional competence drives Escherichia coli diversification in the mouse gut
-
De Paepe M, Gaboriau-Routhiau V, Rainteau D, Rakotobe S, Taddei F & Cerf-Bensussan N (2011) Trade-off between bile resistance and nutritional competence drives Escherichia coli diversification in the mouse gut. PLoS Genet 7: e1002107.
-
(2011)
PLoS Genet
, vol.7
-
-
De Paepe, M.1
Gaboriau-Routhiau, V.2
Rainteau, D.3
Rakotobe, S.4
Taddei, F.5
Cerf-Bensussan, N.6
-
26
-
-
84891283567
-
Physiological structure and single-cell activity in marine bacterioplankton
-
Kirchman DL, ed. Wiley-Blackwell, Hoboken, NJ.
-
Del Giorgio PA & Gasol JM (2008) Physiological structure and single-cell activity in marine bacterioplankton. Microbial Ecology of the Oceans (Kirchman DL, ed), pp. 243-285. Wiley-Blackwell, Hoboken, NJ.
-
(2008)
Microbial Ecology of the Oceans
, pp. 243-285
-
-
Del Giorgio, P.A.1
Gasol, J.M.2
-
27
-
-
0024507744
-
Phylogenetic stains: ribosomal RNA-based probes for the identification of single cells
-
DeLong EF, Wickham GS & Pace NR (1989) Phylogenetic stains: ribosomal RNA-based probes for the identification of single cells. Science 243: 1360-1363.
-
(1989)
Science
, vol.243
, pp. 1360-1363
-
-
DeLong, E.F.1
Wickham, G.S.2
Pace, N.R.3
-
28
-
-
84863436944
-
Dietary-fat-induced taurocholic acid promotes pathobiont expansion and colitis in Il10-/- mice
-
Devkota S, Wang Y, Musch MW, Leone V, Fehlner-Peach H, Nadimpalli A, Antonopoulos DA, Jabri B & Chang EB (2012) Dietary-fat-induced taurocholic acid promotes pathobiont expansion and colitis in Il10-/- mice. Nature 487: 104-108.
-
(2012)
Nature
, vol.487
, pp. 104-108
-
-
Devkota, S.1
Wang, Y.2
Musch, M.W.3
Leone, V.4
Fehlner-Peach, H.5
Nadimpalli, A.6
Antonopoulos, D.A.7
Jabri, B.8
Chang, E.B.9
-
30
-
-
33845542334
-
Population dynamics of Bifidobacterium species in human feces during raffinose administration monitored by fluorescence in situ hybridization-flow cytometry
-
Dinoto A, Marques TM, Sakamoto K, Fukiya S, Watanabe J, Ito S & Yokota A (2006) Population dynamics of Bifidobacterium species in human feces during raffinose administration monitored by fluorescence in situ hybridization-flow cytometry. Appl Environ Microbiol 72: 7739-7747.
-
(2006)
Appl Environ Microbiol
, vol.72
, pp. 7739-7747
-
-
Dinoto, A.1
Marques, T.M.2
Sakamoto, K.3
Fukiya, S.4
Watanabe, J.5
Ito, S.6
Yokota, A.7
-
31
-
-
0024021765
-
Polar fluorescein derivatives as improved substrate probes for flow cytoenzymological assay of cellular esterases
-
Dive C, Cox H, Watson JV & Workman P (1988) Polar fluorescein derivatives as improved substrate probes for flow cytoenzymological assay of cellular esterases. Mol Cell Probes 2: 131-145.
-
(1988)
Mol Cell Probes
, vol.2
, pp. 131-145
-
-
Dive, C.1
Cox, H.2
Watson, J.V.3
Workman, P.4
-
32
-
-
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 (2010) Delivery mode shapes the acquisition and structure of the initial microbiota across multiple body habitats in newborns. P Natl Acad Sci USA 107: 11971-11975.
-
(2010)
P Natl Acad Sci USA
, 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
-
33
-
-
19144372182
-
Stable isotope probing - linking microbial identity to function
-
Dumont MG & Murrell JC (2005) Stable isotope probing - linking microbial identity to function. Nat Rev Microbiol 3: 499-504.
-
(2005)
Nat Rev Microbiol
, vol.3
, pp. 499-504
-
-
Dumont, M.G.1
Murrell, J.C.2
-
34
-
-
8144224956
-
Lactate-utilizing bacteria, isolated from human feces, that produce butyrate as a major fermentation product
-
Duncan SH, Louis P & Flint HJ (2004) Lactate-utilizing bacteria, isolated from human feces, that produce butyrate as a major fermentation product. Appl Environ Microbiol 70: 5810-5817.
-
(2004)
Appl Environ Microbiol
, vol.70
, pp. 5810-5817
-
-
Duncan, S.H.1
Louis, P.2
Flint, H.J.3
-
35
-
-
20544444045
-
Diversity of the human intestinal microbial flora
-
Eckburg PB, Bik EM, Bernstein CN, Purdom E, Dethlefsen L, Sargent M, Gill SR, Nelson KE & Relman DA (2005) Diversity of the human intestinal microbial flora. Science 308: 1635-1638.
-
(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
Gill, S.R.7
Nelson, K.E.8
Relman, D.A.9
-
36
-
-
33947199799
-
Identification of glucose-fermenting bacteria in an in vitro model of the human intestine by RNA-stable isotope probing
-
Egert M, de Graaf AA, Maathuis A, de Waard P, Plugge CM, Smidt H, Deutz NEP, Dijkema C, de Vos WM & Venema K (2007) Identification of glucose-fermenting bacteria in an in vitro model of the human intestine by RNA-stable isotope probing. FEMS Microbiol Ecol 60: 126-135.
-
(2007)
FEMS Microbiol Ecol
, vol.60
, pp. 126-135
-
-
Egert, M.1
de Graaf, A.A.2
Maathuis, A.3
de Waard, P.4
Plugge, C.M.5
Smidt, H.6
Deutz, N.E.P.7
Dijkema, C.8
de Vos, W.M.9
Venema, K.10
-
37
-
-
77956094318
-
Creating and characterizing communities of human gut microbes in gnotobiotic mice
-
Faith JJ, Rey FE, O'Donnell D, Karlsson M, McNulty NP, Kallstrom G, Goodman AL & Gordon JI (2010) Creating and characterizing communities of human gut microbes in gnotobiotic mice. ISME J 4: 1094-1098.
-
(2010)
ISME J
, vol.4
, pp. 1094-1098
-
-
Faith, J.J.1
Rey, F.E.2
O'Donnell, D.3
Karlsson, M.4
McNulty, N.P.5
Kallstrom, G.6
Goodman, A.L.7
Gordon, J.I.8
-
38
-
-
79959855078
-
Predicting a human gut microbiota's response to diet in gnotobiotic mice
-
Faith JJ, McNulty NP, Rey FE & Gordon JI (2011) Predicting a human gut microbiota's response to diet in gnotobiotic mice. Science 333: 101-104.
-
(2011)
Science
, vol.333
, pp. 101-104
-
-
Faith, J.J.1
McNulty, N.P.2
Rey, F.E.3
Gordon, J.I.4
-
39
-
-
84863920287
-
Microbial interactions: from networks to models
-
Faust K & Raes J (2012) Microbial interactions: from networks to models. Nat Rev Microbiol 10: 538-550.
-
(2012)
Nat Rev Microbiol
, vol.10
, pp. 538-550
-
-
Faust, K.1
Raes, J.2
-
40
-
-
84864579031
-
Microbial co-occurrence relationships in the human microbiome
-
Faust K, Sathirapongsasuti JF, Izard J, Segata N, Gevers D, Raes J & Huttenhower C (2012) Microbial co-occurrence relationships in the human microbiome. PLoS Comput Biol 8: e1002606.
-
(2012)
PLoS Comput Biol
, vol.8
-
-
Faust, K.1
Sathirapongsasuti, J.F.2
Izard, J.3
Segata, N.4
Gevers, D.5
Raes, J.6
Huttenhower, C.7
-
41
-
-
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 (1998) Variations of bacterial populations in human feces measured by fluorescent in situ hybridization with group-specific 16S rRNA-targeted oligonucleotide probes. Appl Environ Microbiol 64: 3336-3345.
-
(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
-
42
-
-
79952266302
-
The evolution of host specialization in the vertebrate gut symbiont Lactobacillus reuteri
-
Frese SA, Benson AK, Tannock GW et al. (2011) The evolution of host specialization in the vertebrate gut symbiont Lactobacillus reuteri. PLoS Genet 7: e1001314.
-
(2011)
PLoS Genet
, vol.7
-
-
Frese, S.A.1
Benson, A.K.2
Tannock, G.W.3
-
43
-
-
3142752686
-
Allergic symptoms and microflora in schoolchildren
-
Fukuda S, Ishikawa H, Koga Y, Aiba Y, Nakashima K, Cheng L & Shirakawa T (2004) Allergic symptoms and microflora in schoolchildren. J Adolesc Health 35: 156-158.
-
(2004)
J Adolesc Health
, vol.35
, pp. 156-158
-
-
Fukuda, S.1
Ishikawa, H.2
Koga, Y.3
Aiba, Y.4
Nakashima, K.5
Cheng, L.6
Shirakawa, T.7
-
44
-
-
0032829065
-
Significance of size and nucleic acid content heterogeneity as measured by flow cytometry in natural planktonic bacteria
-
Gasol JM, Zweifel UL, Peters F, Fuhrman JA & Hagstrom A (1999) Significance of size and nucleic acid content heterogeneity as measured by flow cytometry in natural planktonic bacteria. Appl Environ Microbiol 65: 4475-4483.
-
(1999)
Appl Environ Microbiol
, vol.65
, pp. 4475-4483
-
-
Gasol, J.M.1
Zweifel, U.L.2
Peters, F.3
Fuhrman, J.A.4
Hagstrom, A.5
-
45
-
-
33744804299
-
Metagenomic analysis of the human distal gut microbiome
-
Gill SR, Pop M, Deboy RT, Eckburg PB, Turnbaugh PJ, Samuel BS, Gordon JI, Relman DA, Fraser-Liggett CM & Nelson KE (2006) Metagenomic analysis of the human distal gut microbiome. Science 312: 1355-1359.
-
(2006)
Science
, vol.312
, pp. 1355-1359
-
-
Gill, S.R.1
Pop, M.2
Deboy, R.T.3
Eckburg, P.B.4
Turnbaugh, P.J.5
Samuel, B.S.6
Gordon, J.I.7
Relman, D.A.8
Fraser-Liggett, C.M.9
Nelson, K.E.10
-
46
-
-
69949123813
-
Identifying genetic determinants needed to establish a human gut symbiont in its habitat
-
Goodman AL, McNulty NP, Zhao Y, Leip D, Mitra RD, Lozupone CA, Knight R & Gordon JI (2009) Identifying genetic determinants needed to establish a human gut symbiont in its habitat. Cell Host Microbe 6: 279-289.
-
(2009)
Cell Host Microbe
, vol.6
, pp. 279-289
-
-
Goodman, A.L.1
McNulty, N.P.2
Zhao, Y.3
Leip, D.4
Mitra, R.D.5
Lozupone, C.A.6
Knight, R.7
Gordon, J.I.8
-
47
-
-
79955025122
-
Extensive personal human gut microbiota culture collections characterized and manipulated in gnotobiotic mice
-
Goodman AL, Kallstrom G, Faith JJ, Reyes A, Moore A, Dantas G & Gordon JI (2011) Extensive personal human gut microbiota culture collections characterized and manipulated in gnotobiotic mice. P Natl Acad Sci USA 108: 6252-6257.
-
(2011)
P Natl Acad Sci USA
, vol.108
, pp. 6252-6257
-
-
Goodman, A.L.1
Kallstrom, G.2
Faith, J.J.3
Reyes, A.4
Moore, A.5
Dantas, G.6
Gordon, J.I.7
-
48
-
-
84861982483
-
Honor thy gut symbionts redux
-
Gordon JI (2012) Honor thy gut symbionts redux. Science 336: 1251-1253.
-
(2012)
Science
, vol.336
, pp. 1251-1253
-
-
Gordon, J.I.1
-
49
-
-
84856011484
-
Metagenomic systems biology of the human gut microbiome reveals topological shifts associated with obesity and inflammatory bowel disease
-
Greenblum S, Turnbaugh PJ & Borenstein E (2012) Metagenomic systems biology of the human gut microbiome reveals topological shifts associated with obesity and inflammatory bowel disease. P Natl Acad Sci USA 109: 594-599.
-
(2012)
P Natl Acad Sci USA
, vol.109
, pp. 594-599
-
-
Greenblum, S.1
Turnbaugh, P.J.2
Borenstein, E.3
-
50
-
-
23144451932
-
Progress in analytical imaging of the cell by dynamic secondary ion mass soectrometry (SIMS microscopy)
-
Guerquin-Kern JL, Wu TD, Quintana C & Croisy A (2005) Progress in analytical imaging of the cell by dynamic secondary ion mass soectrometry (SIMS microscopy). Biochim Biophys Acta 1724: 228-238.
-
(2005)
Biochim Biophys Acta
, vol.1724
, pp. 228-238
-
-
Guerquin-Kern, J.L.1
Wu, T.D.2
Quintana, C.3
Croisy, A.4
-
51
-
-
84861964370
-
Is it time for a metagenomic basis of therapeutics?
-
Haiser HJ & Turnbaugh PJ (2012) Is it time for a metagenomic basis of therapeutics? Science 336: 1253-1255.
-
(2012)
Science
, vol.336
, pp. 1253-1255
-
-
Haiser, H.J.1
Turnbaugh, P.J.2
-
52
-
-
84873728735
-
Developing a metagenomic view of xenobiotic metabolism
-
Haiser HJ & Turnbaugh PJ (2013) Developing a metagenomic view of xenobiotic metabolism. Pharmacol Res 69: 21-31.
-
(2013)
Pharmacol Res
, vol.69
, pp. 21-31
-
-
Haiser, H.J.1
Turnbaugh, P.J.2
-
53
-
-
79952749405
-
Pan-genome of the dominant human gut-associated archaeon, Methanobrevibacter smithii, studied in twins
-
Hansen EE, Lozupone CA, Rey FE et al. (2011) Pan-genome of the dominant human gut-associated archaeon, Methanobrevibacter smithii, studied in twins. P Natl Acad Sci USA 108(suppl 1): 4599-4606.
-
(2011)
P Natl Acad Sci USA
, vol.108
, Issue.SUPPL 1
, pp. 4599-4606
-
-
Hansen, E.E.1
Lozupone, C.A.2
Rey, F.E.3
-
54
-
-
0034076597
-
Analysis of intestinal flora development in breast-fed and formula-fed infants by using molecular identification and detection methods
-
Harmsen HJM, Wildeboer-Veloo ACM, Raangs GC, Wagendorp AA, Klijn N, Bindels JG & Welling GW (2000) Analysis of intestinal flora development in breast-fed and formula-fed infants by using molecular identification and detection methods. J Pediatr Gastr Nutr 30: 61-67.
-
(2000)
J Pediatr Gastr Nutr
, vol.30
, pp. 61-67
-
-
Harmsen, H.J.M.1
Wildeboer-Veloo, A.C.M.2
Raangs, G.C.3
Wagendorp, A.A.4
Klijn, N.5
Bindels, J.G.6
Welling, G.W.7
-
55
-
-
0036275614
-
Extensive set of 16S rRNA-based probes for detection of bacteria in human feces
-
Harmsen HJ, Raangs GC, He T, Degener JE & Welling GW (2002) Extensive set of 16S rRNA-based probes for detection of bacteria in human feces. Appl Environ Microbiol 68: 2982-2990.
-
(2002)
Appl Environ Microbiol
, vol.68
, pp. 2982-2990
-
-
Harmsen, H.J.1
Raangs, G.C.2
He, T.3
Degener, J.E.4
Welling, G.W.5
-
56
-
-
61349183929
-
Direct analysis of clinical relevant single bacterial cells from cerebrospinal fluid during bacterial meningitis by means of micro-Raman spectroscopy
-
Harz M, Kiehntopf M, Stockel S, Rosch P, Straube E, Deufel T & Popp J (2009) Direct analysis of clinical relevant single bacterial cells from cerebrospinal fluid during bacterial meningitis by means of micro-Raman spectroscopy. J Biophoton 2: 70-80.
-
(2009)
J Biophoton
, vol.2
, pp. 70-80
-
-
Harz, M.1
Kiehntopf, M.2
Stockel, S.3
Rosch, P.4
Straube, E.5
Deufel, T.6
Popp, J.7
-
58
-
-
77950847866
-
Transfer of carbohydrate-active enzymes from marine bacteria to Japanese gut microbiota
-
Hehemann JH, Correc G, Barbeyron T, Helbert W, Czjzek M & Michel G (2010) Transfer of carbohydrate-active enzymes from marine bacteria to Japanese gut microbiota. Nature 464: 908-912.
-
(2010)
Nature
, vol.464
, pp. 908-912
-
-
Hehemann, J.H.1
Correc, G.2
Barbeyron, T.3
Helbert, W.4
Czjzek, M.5
Michel, G.6
-
59
-
-
84870351198
-
Bacteria of the human gut microbiome catabolize red seaweed glycans with carbohydrate-active enzyme updates from extrinsic microbes
-
Hehemann JH, Kelly AG, Pudlo NA, Martens EC & Boraston AB (2012) Bacteria of the human gut microbiome catabolize red seaweed glycans with carbohydrate-active enzyme updates from extrinsic microbes. P Natl Acad Sci USA 109: 19786-19791.
-
(2012)
P Natl Acad Sci USA
, vol.109
, pp. 19786-19791
-
-
Hehemann, J.H.1
Kelly, A.G.2
Pudlo, N.A.3
Martens, E.C.4
Boraston, A.B.5
-
60
-
-
0036139245
-
Molecular diversity of Lactobacillus spp. and other lactic acid bacteria in the human intestine as determined by specific amplification of 16S ribosomal DNA
-
Heilig HG, Zoetendal EG, Vaughan EE, Marteau P, Akkermans AD & de Vos WM (2002) Molecular diversity of Lactobacillus spp. and other lactic acid bacteria in the human intestine as determined by specific amplification of 16S ribosomal DNA. Appl Environ Microbiol 68: 114-123.
-
(2002)
Appl Environ Microbiol
, vol.68
, pp. 114-123
-
-
Heilig, H.G.1
Zoetendal, E.G.2
Vaughan, E.E.3
Marteau, P.4
Akkermans, A.D.5
de Vos, W.M.6
-
61
-
-
78149431196
-
Detection of Mycoplasma pneumoniae in simulated and true clinical throat swab specimens by nanorod array-surface-enhanced Raman spectroscopy
-
Hennigan SL, Driskell JD, Dluhy RA, Zhao Y, Tripp RA, Waites KB & Krause DC (2010) Detection of Mycoplasma pneumoniae in simulated and true clinical throat swab specimens by nanorod array-surface-enhanced Raman spectroscopy. PLoS ONE 5: e13633.
-
(2010)
PLoS ONE
, vol.5
-
-
Hennigan, S.L.1
Driskell, J.D.2
Dluhy, R.A.3
Zhao, Y.4
Tripp, R.A.5
Waites, K.B.6
Krause, D.C.7
-
62
-
-
13544250559
-
Isotope labeling and microautoradiography of active heterotrophic bacteria on the basis of assimilation of 14CO2
-
Hesselsoe M, Nielsen JL, Roslev P & Nielsen PH (2005) Isotope labeling and microautoradiography of active heterotrophic bacteria on the basis of assimilation of 14CO2. Appl Environ Microbiol 71: 646-655.
-
(2005)
Appl Environ Microbiol
, vol.71
, pp. 646-655
-
-
Hesselsoe, M.1
Nielsen, J.L.2
Roslev, P.3
Nielsen, P.H.4
-
63
-
-
0034067069
-
Neochlamydia hartmannellae gen. nov., sp. nov. (Parachlamydiaceae), an endoparasite of the amoeba Hartmannella vermiformis
-
Horn M, Wagner M, Muller KD, Schmid EN, Fritsche TR, Schleifer KH & Michel R (2000) Neochlamydia hartmannellae gen. nov., sp. nov. (Parachlamydiaceae), an endoparasite of the amoeba Hartmannella vermiformis. Microbiology 146(Pt 5): 1231-1239.
-
(2000)
Microbiology
, vol.146
, Issue.PART 5
, pp. 1231-1239
-
-
Horn, M.1
Wagner, M.2
Muller, K.D.3
Schmid, E.N.4
Fritsche, T.R.5
Schleifer, K.H.6
Michel, R.7
-
65
-
-
3543020298
-
Raman microscopic analysis of single microbial cells
-
Huang WE, Griffiths RI, Thompson IP, Bailey MJ & Whiteley AS (2004) Raman microscopic analysis of single microbial cells. Anal Chem 76: 4452-4458.
-
(2004)
Anal Chem
, vol.76
, pp. 4452-4458
-
-
Huang, W.E.1
Griffiths, R.I.2
Thompson, I.P.3
Bailey, M.J.4
Whiteley, A.S.5
-
66
-
-
34249950990
-
Raman-FISH: combining stable-isotope Raman spectroscopy and fluorescence in situ hybridization for the single cell analysis of identity and function
-
Huang WE, Stoecker K, Griffiths R, Newbold L, Daims H, Whiteley AS & Wagner M (2007) Raman-FISH: combining stable-isotope Raman spectroscopy and fluorescence in situ hybridization for the single cell analysis of identity and function. Environ Microbiol 9: 1878-1889.
-
(2007)
Environ Microbiol
, vol.9
, pp. 1878-1889
-
-
Huang, W.E.1
Stoecker, K.2
Griffiths, R.3
Newbold, L.4
Daims, H.5
Whiteley, A.S.6
Wagner, M.7
-
68
-
-
70350343544
-
Induction of intestinal Th17 cells by segmented filamentous bacteria
-
Ivanov II, Atarashi K, Manel N et al. (2009) Induction of intestinal Th17 cells by segmented filamentous bacteria. Cell 139: 485-498.
-
(2009)
Cell
, vol.139
, pp. 485-498
-
-
Ivanov, I.I.1
Atarashi, K.2
Manel, N.3
-
69
-
-
57849124962
-
Towards a nondestructive chemical characterization of biofilm matrix by Raman microscopy
-
Ivleva NP, Wagner M, Horn H, Niessner R & Haisch C (2009) Towards a nondestructive chemical characterization of biofilm matrix by Raman microscopy. Anal Bioanal Chem 393: 197-206.
-
(2009)
Anal Bioanal Chem
, vol.393
, pp. 197-206
-
-
Ivleva, N.P.1
Wagner, M.2
Horn, H.3
Niessner, R.4
Haisch, C.5
-
70
-
-
0346100346
-
Discrimination of bacteria using surface-enhanced Raman spectroscopy
-
Jarvis RM & Goodacre R (2004) Discrimination of bacteria using surface-enhanced Raman spectroscopy. Anal Chem 76: 40-47.
-
(2004)
Anal Chem
, vol.76
, pp. 40-47
-
-
Jarvis, R.M.1
Goodacre, R.2
-
71
-
-
0029017409
-
Development of a robust flow cytometric assay for determining numbers of viable bacteria
-
Jepras RI, Carter J, Pearson SC, Paul FE & Wilkinson MJ (1995) Development of a robust flow cytometric assay for determining numbers of viable bacteria. Appl Environ Microbiol 61: 2696-2701.
-
(1995)
Appl Environ Microbiol
, vol.61
, pp. 2696-2701
-
-
Jepras, R.I.1
Carter, J.2
Pearson, S.C.3
Paul, F.E.4
Wilkinson, M.J.5
-
72
-
-
84881254162
-
Impact of chronic exposure to low doses of chlorpyrifos on the intestinal microbiota in the Simulator of the Human Intestinal Microbial Ecosystem (SHIME(R)) and in the rat
-
Epub ahead of print.
-
Joly C, Gay-Queheillard J, Leke A, Chardon K, Delanaud S, Bach V & Khorsi-Cauet H (2012) Impact of chronic exposure to low doses of chlorpyrifos on the intestinal microbiota in the Simulator of the Human Intestinal Microbial Ecosystem (SHIME(R)) and in the rat. Environ Sci Pollut Res Int. Epub ahead of print.
-
(2012)
Environ Sci Pollut Res Int
-
-
Joly, C.1
Gay-Queheillard, J.2
Leke, A.3
Chardon, K.4
Delanaud, S.5
Bach, V.6
Khorsi-Cauet, H.7
-
74
-
-
84861972274
-
Regulated virulence controls the ability of a pathogen to compete with the gut microbiota
-
Kamada N, Kim YG, Sham HP, Vallance BA, Puente JL, Martens EC & Nunez G (2012) Regulated virulence controls the ability of a pathogen to compete with the gut microbiota. Science 336: 1325-1329.
-
(2012)
Science
, vol.336
, pp. 1325-1329
-
-
Kamada, N.1
Kim, Y.G.2
Sham, H.P.3
Vallance, B.A.4
Puente, J.L.5
Martens, E.C.6
Nunez, G.7
-
75
-
-
0030724650
-
Fecal microflora in a patient with short-bowel syndrome and identification of dominant lactobacilli
-
Kaneko T, Banda Y, Kurihara K, Satomi K, Nonoyama K & Matsuura N (1997) Fecal microflora in a patient with short-bowel syndrome and identification of dominant lactobacilli. J Clin Microbiol 35: 3181-3185.
-
(1997)
J Clin Microbiol
, vol.35
, pp. 3181-3185
-
-
Kaneko, T.1
Banda, Y.2
Kurihara, K.3
Satomi, K.4
Nonoyama, K.5
Matsuura, N.6
-
76
-
-
0027368554
-
Dormancy in stationary-phase cultures of Micrococcus luteus: flow cytometry analysis of starvation and resuscitation
-
Kaprelyants AS & Kell DB (1993) Dormancy in stationary-phase cultures of Micrococcus luteus: flow cytometry analysis of starvation and resuscitation. Appl Environ Microbiol 59: 3187-3196.
-
(1993)
Appl Environ Microbiol
, vol.59
, pp. 3187-3196
-
-
Kaprelyants, A.S.1
Kell, D.B.2
-
77
-
-
77951700268
-
Changes in the composition of the human fecal microbiome after bacteriotherapy for recurrent Clostridium difficile-associated diarrhea
-
Khoruts A, Dicksved J, Jansson JK & Sadowsky MJ (2010) Changes in the composition of the human fecal microbiome after bacteriotherapy for recurrent Clostridium difficile-associated diarrhea. J Clin Gastroenterol 44: 354-360.
-
(2010)
J Clin Gastroenterol
, vol.44
, pp. 354-360
-
-
Khoruts, A.1
Dicksved, J.2
Jansson, J.K.3
Sadowsky, M.J.4
-
78
-
-
84863022950
-
Genomic analysis identifies association of Fusobacterium with colorectal carcinoma
-
Kostic AD, Gevers D, Pedamallu CS et al. (2012) Genomic analysis identifies association of Fusobacterium with colorectal carcinoma. Genome Res 22: 292-298.
-
(2012)
Genome Res
, vol.22
, pp. 292-298
-
-
Kostic, A.D.1
Gevers, D.2
Pedamallu, C.S.3
-
79
-
-
38449088143
-
Comparative metagenomics revealed commonly enriched gene sets in human gut microbiomes
-
Kurokawa K, Itoh T, Kuwahara T et al. (2007) Comparative metagenomics revealed commonly enriched gene sets in human gut microbiomes. DNA Res 14: 169-181.
-
(2007)
DNA Res
, vol.14
, pp. 169-181
-
-
Kurokawa, K.1
Itoh, T.2
Kuwahara, T.3
-
80
-
-
33846056558
-
The future of single-cell environmental microbiology
-
Kuypers MMM & Jorgensen BB (2007) The future of single-cell environmental microbiology. Environ Microbiol 9: 6-7.
-
(2007)
Environ Microbiol
, vol.9
, pp. 6-7
-
-
Kuypers, M.M.M.1
Jorgensen, B.B.2
-
81
-
-
0029162158
-
Quantitative fluorescence ihybridization of Bifidobacterium spp. with genus-specific 16S rRNA targeted probe and its application in fecal samples
-
Langendijk PS, Schut F, Jansen GJ, Raangs GC, Kamphuis G, Wilkinson MHF & Welling GW (1995) Quantitative fluorescence ihybridization of Bifidobacterium spp. with genus-specific 16S rRNA targeted probe and its application in fecal samples. Appl Environ Microbiol 61: 3069-3075.
-
(1995)
Appl Environ Microbiol
, vol.61
, pp. 3069-3075
-
-
Langendijk, P.S.1
Schut, F.2
Jansen, G.J.3
Raangs, G.C.4
Kamphuis, G.5
Wilkinson, M.H.F.6
Welling, G.W.7
-
82
-
-
0037178049
-
Variations of bacterial-specific activity with cell size and nucleic acid content assessed by flow cytometry
-
Lebaron P, Servais P, Baudoux AC, Bourrain M, Courties C & Parthuisot N (2002) Variations of bacterial-specific activity with cell size and nucleic acid content assessed by flow cytometry. Aquat Microb Ecol 28: 131-140.
-
(2002)
Aquat Microb Ecol
, vol.28
, pp. 131-140
-
-
Lebaron, P.1
Servais, P.2
Baudoux, A.C.3
Bourrain, M.4
Courties, C.5
Parthuisot, N.6
-
83
-
-
33746192015
-
High-resolution quantitative imaging of mammalian and bacterial cells using stable isotope mass spectrometry
-
Lechene C, Hillion F, McMahon G et al. (2006) High-resolution quantitative imaging of mammalian and bacterial cells using stable isotope mass spectrometry. J Biol 5: 20.
-
(2006)
J Biol
, vol.5
, pp. 20
-
-
Lechene, C.1
Hillion, F.2
McMahon, G.3
-
84
-
-
34548669100
-
Quantitative imaging of nitrogen fixation by individual bacteria within animal cells
-
Lechene CP, Luyten Y, McMahon G & Distel DL (2007) Quantitative imaging of nitrogen fixation by individual bacteria within animal cells. Science 317: 1563-1566.
-
(2007)
Science
, vol.317
, pp. 1563-1566
-
-
Lechene, C.P.1
Luyten, Y.2
McMahon, G.3
Distel, D.L.4
-
85
-
-
23344442120
-
Obesity alters gut microbial ecology
-
Ley RE, Backhed F, Turnbaugh P, Lozupone CA, Knight RD & Gordon JI (2005) Obesity alters gut microbial ecology. P Natl Acad Sci USA 102: 11070-11075.
-
(2005)
P Natl Acad Sci USA
, vol.102
, pp. 11070-11075
-
-
Ley, R.E.1
Backhed, F.2
Turnbaugh, P.3
Lozupone, C.A.4
Knight, R.D.5
Gordon, J.I.6
-
87
-
-
0242516065
-
IgG antibodies against microorganisms and atopic disease in Danish adults: the Copenhagen Allergy Study
-
Linneberg A, Ostergaard C, Tvede M, Andersen LP, Nielsen NH, Madsen F, Frolund L, Dirksen A & Jorgensen T (2003) IgG antibodies against microorganisms and atopic disease in Danish adults: the Copenhagen Allergy Study. J Allergy Clin Immunol 111: 847-853.
-
(2003)
J Allergy Clin Immunol
, vol.111
, pp. 847-853
-
-
Linneberg, A.1
Ostergaard, C.2
Tvede, M.3
Andersen, L.P.4
Nielsen, N.H.5
Madsen, F.6
Frolund, L.7
Dirksen, A.8
Jorgensen, T.9
-
88
-
-
84876139394
-
Conserved shifts in the gut microbiota due to gastric bypass reduce host weight and adiposity
-
Liou AP, Paziuk M, Luevano Jr J, Machineni S, Turnbaugh PJ & Kaplan LM (2013) Conserved shifts in the gut microbiota due to gastric bypass reduce host weight and adiposity. Sci Transl Med 5: 178ra141.
-
(2013)
Sci Transl Med
, vol.5
-
-
Liou, A.P.1
Paziuk, M.2
Luevano Jr, J.3
Machineni, S.4
Turnbaugh, P.J.5
Kaplan, L.M.6
-
89
-
-
84867161176
-
Identifying genomic and metabolic features that can underlie early successional and opportunistic lifestyles of human gut symbionts
-
Lozupone C, Faust K, Raes J, Faith JJ, Frank DN, Zaneveld J, Gordon JI & Knight R (2012) Identifying genomic and metabolic features that can underlie early successional and opportunistic lifestyles of human gut symbionts. Genome Res 22: 1974-1984.
-
(2012)
Genome Res
, vol.22
, pp. 1974-1984
-
-
Lozupone, C.1
Faust, K.2
Raes, J.3
Faith, J.J.4
Frank, D.N.5
Zaneveld, J.6
Gordon, J.I.7
Knight, R.8
-
90
-
-
84863544278
-
Galacto-oligosaccharides have prebiotic activity in a dynamic in vitro colon model using a 13C-labeling technique
-
Maathuis AJH, ven den Heuvel EG, Schoterman MHC & Venema K (2012) Galacto-oligosaccharides have prebiotic activity in a dynamic in vitro colon model using a 13C-labeling technique. J Nutr 142: 1205-1212.
-
(2012)
J Nutr
, vol.142
, pp. 1205-1212
-
-
Maathuis, A.J.H.1
ven den Heuvel, E.G.2
Schoterman, M.H.C.3
Venema, K.4
-
91
-
-
80054886353
-
Bacteroides in the infant gut consume milk oligosaccharides via mucus-utilization pathways
-
Marcobal A, Barboza M, Sonnenburg ED et al. (2011) Bacteroides in the infant gut consume milk oligosaccharides via mucus-utilization pathways. Cell Host Microbe 10: 507-514.
-
(2011)
Cell Host Microbe
, vol.10
, pp. 507-514
-
-
Marcobal, A.1
Barboza, M.2
Sonnenburg, E.D.3
-
92
-
-
34547540925
-
Dissecting biological "dark matter" with single-cell genetic analysis of rare and uncultivated TM7 microbes from the human mouth
-
Marcy Y, Ouverney C, Bik EM et al. (2007) Dissecting biological "dark matter" with single-cell genetic analysis of rare and uncultivated TM7 microbes from the human mouth. P Natl Acad Sci USA 104: 11889-11894.
-
(2007)
P Natl Acad Sci USA
, vol.104
, pp. 11889-11894
-
-
Marcy, Y.1
Ouverney, C.2
Bik, E.M.3
-
93
-
-
84855173898
-
Recognition and degradation of plant cell wall polysaccharides by two human gut symbionts
-
Martens EC, Lowe EC, Chiang H et al. (2011) Recognition and degradation of plant cell wall polysaccharides by two human gut symbionts. PLoS Biol 9: e1001221.
-
(2011)
PLoS Biol
, vol.9
-
-
Martens, E.C.1
Lowe, E.C.2
Chiang, H.3
-
94
-
-
84872535919
-
Xenobiotics shape the physiology and gene expression of the active human gut microbiome
-
Maurice CF, Haiser HJ & Turnbaugh PJ (2013) Xenobiotics shape the physiology and gene expression of the active human gut microbiome. Cell 152: 39-50.
-
(2013)
Cell
, vol.152
, pp. 39-50
-
-
Maurice, C.F.1
Haiser, H.J.2
Turnbaugh, P.J.3
-
95
-
-
3142582980
-
Nucleic acid stain-dependent single strand conformation polymorphisms
-
McKee DR & Thomson MS (2004) Nucleic acid stain-dependent single strand conformation polymorphisms. Biotechniques 37: 46-50.
-
(2004)
Biotechniques
, vol.37
, pp. 46-50
-
-
McKee, D.R.1
Thomson, M.S.2
-
96
-
-
80054960299
-
The impact of a consortium of fermented milk strains on the gut microbiome of gnotobiotic mice and monozygotic twins
-
McNulty NP, Yatsunenko T, Hsiao A et al. (2011) The impact of a consortium of fermented milk strains on the gut microbiome of gnotobiotic mice and monozygotic twins. Sci Transl Med 3: 106ra106.
-
(2011)
Sci Transl Med
, vol.3
-
-
McNulty, N.P.1
Yatsunenko, T.2
Hsiao, A.3
-
97
-
-
0027251567
-
Development of a 5-step multi-chamber reactor as a simulator of the human intestinal microbial ecosystem
-
Molly K, Vande Woestyne M & Verstraete W (1993) Development of a 5-step multi-chamber reactor as a simulator of the human intestinal microbial ecosystem. Appl Microbiol Biotechnol 39: 254-258.
-
(1993)
Appl Microbiol Biotechnol
, vol.39
, pp. 254-258
-
-
Molly, K.1
Vande Woestyne, M.2
Verstraete, W.3
-
98
-
-
0343192453
-
Fluorescence in situ hybridization (FISH) for direct visualization of microorganisms
-
Moter A & Gobel UB (2000) Fluorescence in situ hybridization (FISH) for direct visualization of microorganisms. J Microbiol Methods 41: 85-112.
-
(2000)
J Microbiol Methods
, vol.41
, pp. 85-112
-
-
Moter, A.1
Gobel, U.B.2
-
99
-
-
84856716159
-
Detecting metabolic activities in single cells, with emphasis on nanoSIMS
-
Musat N, Foster R, Vagner T, Adam B & Kuypers MM (2012) Detecting metabolic activities in single cells, with emphasis on nanoSIMS. FEMS Microbiol Rev 36: 486-511.
-
(2012)
FEMS Microbiol Rev
, vol.36
, pp. 486-511
-
-
Musat, N.1
Foster, R.2
Vagner, T.3
Adam, B.4
Kuypers, M.M.5
-
100
-
-
63849171250
-
Global diversity in the human salivary microbiome
-
Nasidze I, Li J, Quinque D, Tang K & Stoneking M (2009) Global diversity in the human salivary microbiome. Genome Res 19: 636-643.
-
(2009)
Genome Res
, vol.19
, pp. 636-643
-
-
Nasidze, I.1
Li, J.2
Quinque, D.3
Tang, K.4
Stoneking, M.5
-
101
-
-
79953025268
-
Spatial organization of intestinal microbiota in the mouse ascending colon
-
Nava GM, Friedrichsen HJ & Stappenbeck TS (2011) Spatial organization of intestinal microbiota in the mouse ascending colon. ISME J 5: 627-638.
-
(2011)
ISME J
, vol.5
, pp. 627-638
-
-
Nava, G.M.1
Friedrichsen, H.J.2
Stappenbeck, T.S.3
-
102
-
-
34248137874
-
Methodological considerations for the use of stable isotope probing in microbial ecology
-
Neufeld JD, Dumont MG, Vohra J & Murrell JC (2007a) Methodological considerations for the use of stable isotope probing in microbial ecology. Microb Ecol 53: 435-442.
-
(2007)
Microb Ecol
, vol.53
, pp. 435-442
-
-
Neufeld, J.D.1
Dumont, M.G.2
Vohra, J.3
Murrell, J.C.4
-
103
-
-
34248577608
-
DNA stable-isotope probing
-
Neufeld JD, Vohra J, Dumont MG, Lueders T, Manefield M, Friedrich MW & Murrell JC (2007b) DNA stable-isotope probing. Nat Protoc 2: 860-866.
-
(2007)
Nat Protoc
, vol.2
, pp. 860-866
-
-
Neufeld, J.D.1
Vohra, J.2
Dumont, M.G.3
Lueders, T.4
Manefield, M.5
Friedrich, M.W.6
Murrell, J.C.7
-
104
-
-
7044246191
-
Five essential oils from aromatic plants of Cameroon: thier antibacterial activity and ability to permeabilize the cytoplasmic membrane of Listeria innocua examined by flow cytometry
-
Nguefack J, Budde BB & Jakobsen M (2004) Five essential oils from aromatic plants of Cameroon: thier antibacterial activity and ability to permeabilize the cytoplasmic membrane of Listeria innocua examined by flow cytometry. Lett Appl Microbiol 39: 395-400.
-
(2004)
Lett Appl Microbiol
, vol.39
, pp. 395-400
-
-
Nguefack, J.1
Budde, B.B.2
Jakobsen, M.3
-
105
-
-
27644486738
-
Advances in microscopy: microautoradiography of single cells
-
Nielsen JL & Nielsen PH (2005) Advances in microscopy: microautoradiography of single cells. Methods Enzymol 397: 237-256.
-
(2005)
Methods Enzymol
, vol.397
, pp. 237-256
-
-
Nielsen, J.L.1
Nielsen, P.H.2
-
106
-
-
0036727261
-
Abundance and phylogenetic affiliation of iron reducers in activated sludge as assessed by fluorescence in situ hybridization and microautoradiography
-
Nielsen JL, Juretschko S, Wagner M & Nielsen PH (2002) Abundance and phylogenetic affiliation of iron reducers in activated sludge as assessed by fluorescence in situ hybridization and microautoradiography. Appl Environ Microbiol 68: 4629-4636.
-
(2002)
Appl Environ Microbiol
, vol.68
, pp. 4629-4636
-
-
Nielsen, J.L.1
Juretschko, S.2
Wagner, M.3
Nielsen, P.H.4
-
107
-
-
0032958213
-
Combined microautoradiography-16rRNA probe technique for determination of radioisotope uptake by specific microbial cell types in situ
-
Ouverney CC & Fuhrman JA (1999) Combined microautoradiography-16rRNA probe technique for determination of radioisotope uptake by specific microbial cell types in situ. Appl Environ Microbiol 65: 1746-1752.
-
(1999)
Appl Environ Microbiol
, vol.65
, pp. 1746-1752
-
-
Ouverney, C.C.1
Fuhrman, J.A.2
-
108
-
-
84861895026
-
Single-cell sequencing provides clues about the host interactions of segmented filamentous bacteria (SFB)
-
Pamp SJ, Harrington ED, Quake SR, Relman DA & Blainey PC (2012) Single-cell sequencing provides clues about the host interactions of segmented filamentous bacteria (SFB). Genome Res 22: 1107-1119.
-
(2012)
Genome Res
, vol.22
, pp. 1107-1119
-
-
Pamp, S.J.1
Harrington, E.D.2
Quake, S.R.3
Relman, D.A.4
Blainey, P.C.5
-
109
-
-
55449135470
-
Barcoding bacterial cells: a SERS based methodology for pathogen identification
-
Patel IS, Premasiri WR, Moir DT & Ziegler LD (2008) Barcoding bacterial cells: a SERS based methodology for pathogen identification. J Raman Spectrosc 39: 1660-1672.
-
(2008)
J Raman Spectrosc
, vol.39
, pp. 1660-1672
-
-
Patel, I.S.1
Premasiri, W.R.2
Moir, D.T.3
Ziegler, L.D.4
-
110
-
-
34247466932
-
Gut microbiota composition and development of atopic manifestations in infancy: the KOALA birth cohort study
-
Penders J, Thijs C, van den Brandt PA, Kummeling I, Snijders B, Stelma F, Adams H, van Ree R & Stobberingh EE (2007) Gut microbiota composition and development of atopic manifestations in infancy: the KOALA birth cohort study. Gut 56: 661-667.
-
(2007)
Gut
, vol.56
, pp. 661-667
-
-
Penders, J.1
Thijs, C.2
van den Brandt, P.A.3
Kummeling, I.4
Snijders, B.5
Stelma, F.6
Adams, H.7
van Ree, R.8
Stobberingh, E.E.9
-
112
-
-
21244484895
-
Sensitive multi-color fluorescence in situ hybridization for the identification of environmental microorganisms
-
(Kowalchuk GA, De Bruijn FJ, Head IM, Akkermans AD & van Elsas JD, eds) - Kluwer Academic Publishers, Dordrecht.
-
Pernthaler A, Pernthaler J & Amann R (2004) Sensitive multi-color fluorescence in situ hybridization for the identification of environmental microorganisms. Molecular Microbial Ecology Manual, Vol. 3 (Kowalchuk GA, De Bruijn FJ, Head IM, Akkermans AD & van Elsas JD, eds), pp. 711-726. Kluwer Academic Publishers, Dordrecht.
-
(2004)
Molecular Microbial Ecology Manual
, vol.3
, pp. 711-726
-
-
Pernthaler, A.1
Pernthaler, J.2
Amann, R.3
-
113
-
-
0027290436
-
Assessment of fluorochromes for cellular structure and function studies by flow cytometry
-
Petit JM, Denis-Gay M & Ratinaud MH (1993) Assessment of fluorochromes for cellular structure and function studies by flow cytometry. Biol Cell 78: 1-13.
-
(1993)
Biol Cell
, vol.78
, pp. 1-13
-
-
Petit, J.M.1
Denis-Gay, M.2
Ratinaud, M.H.3
-
114
-
-
83655171998
-
The intestinal microbiota and viral susceptibility
-
Pfeiffer JK & Sonnenburg JL (2011) The intestinal microbiota and viral susceptibility. Front Microbiol 2: 92.
-
(2011)
Front Microbiol
, vol.2
, pp. 92
-
-
Pfeiffer, J.K.1
Sonnenburg, J.L.2
-
115
-
-
46249120181
-
Eubacterium limosum activates isoxanthohumol from Hops (Humulus lupulus L.) into the potent phytoestrogen 8-prenylnaringenin in vitro and in rat intestine
-
Possemiers S, Rabot S, Espin JC, Bruneau A, Philippe C, Gonzalez-Sarrias A, Heyerick A, Tomas-Barberan FA, De Keukeleire D & Verstraete W (2008) Eubacterium limosum activates isoxanthohumol from Hops (Humulus lupulus L.) into the potent phytoestrogen 8-prenylnaringenin in vitro and in rat intestine. J Nutr 138: 1310-1316.
-
(2008)
J Nutr
, vol.138
, pp. 1310-1316
-
-
Possemiers, S.1
Rabot, S.2
Espin, J.C.3
Bruneau, A.4
Philippe, C.5
Gonzalez-Sarrias, A.6
Heyerick, A.7
Tomas-Barberan, F.A.8
De Keukeleire, D.9
Verstraete, W.10
-
116
-
-
77950251400
-
A human gut microbial gene catalogue established by metagenomic sequencing
-
Qin J, Li R, Raes J et al. (2010) A human gut microbial gene catalogue established by metagenomic sequencing. Nature 464: 59-65.
-
(2010)
Nature
, vol.464
, pp. 59-65
-
-
Qin, J.1
Li, R.2
Raes, J.3
-
117
-
-
84867074831
-
A metagenome-wide association study of gut microbiota in type 2 diabetes
-
Qin J, Li Y, Cai Z et al. (2012) A metagenome-wide association study of gut microbiota in type 2 diabetes. Nature 490: 55-60.
-
(2012)
Nature
, vol.490
, pp. 55-60
-
-
Qin, J.1
Li, Y.2
Cai, Z.3
-
118
-
-
0038482074
-
Stable-isotope probing of nucleic acids: a window to the function of uncultured microorganisms
-
Radajewski S, McDonald IR & Murrell JC (2003) Stable-isotope probing of nucleic acids: a window to the function of uncultured microorganisms. Curr Opin Biotechnol 14: 296-302.
-
(2003)
Curr Opin Biotechnol
, vol.14
, pp. 296-302
-
-
Radajewski, S.1
McDonald, I.R.2
Murrell, J.C.3
-
119
-
-
84868535694
-
Molecular analysis of model gut microbiotas by imaging mass spectrometry and nanodesorption electrospray ionization reveals dietary metabolite transformations
-
Rath CM, Alexandrov T, Higginbottom SK, Song J, Milla ME, Fischbach MA, Sonnenburg JL & Dorrestein PC (2012) Molecular analysis of model gut microbiotas by imaging mass spectrometry and nanodesorption electrospray ionization reveals dietary metabolite transformations. Anal Chem 84: 9259-9267.
-
(2012)
Anal Chem
, vol.84
, pp. 9259-9267
-
-
Rath, C.M.1
Alexandrov, T.2
Higginbottom, S.K.3
Song, J.4
Milla, M.E.5
Fischbach, M.A.6
Sonnenburg, J.L.7
Dorrestein, P.C.8
-
120
-
-
83055188805
-
Use of stable isotopes to measure the metabolic activity of the human intestinal microbiota
-
Reichardt N, Barclay AR, Weaver LT & Morrison DJ (2011) Use of stable isotopes to measure the metabolic activity of the human intestinal microbiota. Appl Environ Microbiol 77: 8009-8014.
-
(2011)
Appl Environ Microbiol
, vol.77
, pp. 8009-8014
-
-
Reichardt, N.1
Barclay, A.R.2
Weaver, L.T.3
Morrison, D.J.4
-
121
-
-
83755163018
-
Detecting novel associations in large data sets
-
Reshef DN, Reshef YA, Finucane HK, Grossman SR, McVean G, Turnbaugh PJ, Lander ES, Mitzenmacher M & Sabeti PC (2011) Detecting novel associations in large data sets. Science 334: 1518-1524.
-
(2011)
Science
, vol.334
, pp. 1518-1524
-
-
Reshef, D.N.1
Reshef, Y.A.2
Finucane, H.K.3
Grossman, S.R.4
McVean, G.5
Turnbaugh, P.J.6
Lander, E.S.7
Mitzenmacher, M.8
Sabeti, P.C.9
-
122
-
-
0037445321
-
Fluorescent hybridisation combined with flow cytometry and hybridisation of total RNA to analyse the composition of microbial communities in human faeces using 16S rRNA probes
-
Rigottier-Gois L, Le Bourhis AG, Gramet G, Rochet V & Dore J (2003) Fluorescent hybridisation combined with flow cytometry and hybridisation of total RNA to analyse the composition of microbial communities in human faeces using 16S rRNA probes. FEMS Microbiol Ecol 43: 237-245.
-
(2003)
FEMS Microbiol Ecol
, vol.43
, pp. 237-245
-
-
Rigottier-Gois, L.1
Le Bourhis, A.G.2
Gramet, G.3
Rochet, V.4
Dore, J.5
-
123
-
-
0035348185
-
Morphological and physiological characterization of Listeria monocytogenes subjected to high hydrostatic pressure
-
Ritz M, Tholozan JL, Federighi M & Pilet MF (2001) Morphological and physiological characterization of Listeria monocytogenes subjected to high hydrostatic pressure. Appl Environ Microbiol 67: 2240-2247.
-
(2001)
Appl Environ Microbiol
, vol.67
, pp. 2240-2247
-
-
Ritz, M.1
Tholozan, J.L.2
Federighi, M.3
Pilet, M.F.4
-
124
-
-
0026642952
-
Use of a fluorescent redox probe for direct visualization of actively respiring bacteria
-
Rodriguez GG, Phipps D, Ishiguro K & Ridgway HF (1992) Use of a fluorescent redox probe for direct visualization of actively respiring bacteria. Appl Environ Microbiol 58: 1801-1808.
-
(1992)
Appl Environ Microbiol
, vol.58
, pp. 1801-1808
-
-
Rodriguez, G.G.1
Phipps, D.2
Ishiguro, K.3
Ridgway, H.F.4
-
125
-
-
77954738601
-
Inducible Foxp3 + regulatory T-cell development by a commensal bacterium of the intestinal microbiota
-
Round JL & Mazmanian SK (2010) Inducible Foxp3 + regulatory T-cell development by a commensal bacterium of the intestinal microbiota. P Natl Acad Sci USA 107: 12204-12209.
-
(2010)
P Natl Acad Sci USA
, vol.107
, pp. 12204-12209
-
-
Round, J.L.1
Mazmanian, S.K.2
-
126
-
-
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 (2011) The Toll-like receptor 2 pathway establishes colonization by a commensal of the human microbiota. Science 332: 974-977.
-
(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
-
127
-
-
0001140586
-
Dependency on medium and temperature of cell size and chemical composition during balanced growth of Salmonella typhimurium
-
Schaechter M, Maaloe O & Kjeldgaard NO (1958) Dependency on medium and temperature of cell size and chemical composition during balanced growth of Salmonella typhimurium. J Gen Microbiol 19: 592-606.
-
(1958)
J Gen Microbiol
, vol.19
, pp. 592-606
-
-
Schaechter, M.1
Maaloe, O.2
Kjeldgaard, N.O.3
-
128
-
-
0033986423
-
Quantification of different Eubacterium spp. in human fecal samples with species-specific 16S rRNA-targeted oligonucleotide probes
-
Schwiertz A, Le Blay G & Blaut M (2000) Quantification of different Eubacterium spp. in human fecal samples with species-specific 16S rRNA-targeted oligonucleotide probes. Appl Environ Microbiol 66: 375-382.
-
(2000)
Appl Environ Microbiol
, vol.66
, pp. 375-382
-
-
Schwiertz, A.1
Le Blay, G.2
Blaut, M.3
-
129
-
-
84866404780
-
Microbiota regulate intestinal absorption and metabolism of fatty acids in the zebrafish
-
Semova I, Carten JD, Stombaugh J, Mackey LC, Knight R, Farber SA & Rawls JF (2012) Microbiota regulate intestinal absorption and metabolism of fatty acids in the zebrafish. Cell Host Microbe 12: 277-288.
-
(2012)
Cell Host Microbe
, vol.12
, pp. 277-288
-
-
Semova, I.1
Carten, J.D.2
Stombaugh, J.3
Mackey, L.C.4
Knight, R.5
Farber, S.A.6
Rawls, J.F.7
-
131
-
-
0034431166
-
Membrane potential estimation by flow cytometry
-
Shapiro HM (2000) Membrane potential estimation by flow cytometry. Methods 21: 271-279.
-
(2000)
Methods
, vol.21
, pp. 271-279
-
-
Shapiro, H.M.1
-
132
-
-
84867656021
-
Outer membrane vesicles of a human commensal mediate immune regulation and disease protection
-
Shen Y, Torchia ML, Lawson GW, Karp CL, Ashwell JD & Mazmanian SK (2012) Outer membrane vesicles of a human commensal mediate immune regulation and disease protection. Cell Host Microbe 12: 509-520.
-
(2012)
Cell Host Microbe
, vol.12
, pp. 509-520
-
-
Shen, Y.1
Torchia, M.L.2
Lawson, G.W.3
Karp, C.L.4
Ashwell, J.D.5
Mazmanian, S.K.6
-
133
-
-
0033538855
-
Estimating abundance and single-cell characteristics of respiring bacteria via the redox dye CTC
-
Sherr BF, del Giorgio P & Sherr EB (1999) Estimating abundance and single-cell characteristics of respiring bacteria via the redox dye CTC. Aquat Microb Ecol 18: 117-131.
-
(1999)
Aquat Microb Ecol
, vol.18
, pp. 117-131
-
-
Sherr, B.F.1
del Giorgio, P.2
Sherr, E.B.3
-
134
-
-
0032976005
-
Flow cytometric analysis of 5-cyano-2,3-ditolyl tetrazolium chloride activity of marine bacterioplankton in dilution cultures
-
Sieracki ME, Cucci TL & Nicinski J (1999) Flow cytometric analysis of 5-cyano-2, 3-ditolyl tetrazolium chloride activity of marine bacterioplankton in dilution cultures. Appl Environ Microbiol 65: 2409-2417.
-
(1999)
Appl Environ Microbiol
, vol.65
, pp. 2409-2417
-
-
Sieracki, M.E.1
Cucci, T.L.2
Nicinski, J.3
-
135
-
-
33750967657
-
Quantifying substrate uptake by individual cells of marine bacterioplankton by catalyzed reporter deposition fluorescence in situ hybridization combined with microautoradiography
-
Sintes E & Herndl GJ (2006) Quantifying substrate uptake by individual cells of marine bacterioplankton by catalyzed reporter deposition fluorescence in situ hybridization combined with microautoradiography. Appl Environ Microbiol 72: 7022-7028.
-
(2006)
Appl Environ Microbiol
, vol.72
, pp. 7022-7028
-
-
Sintes, E.1
Herndl, G.J.2
-
136
-
-
0030804406
-
Mechanisms of INT (2-(4-iodophenyl)-3-(4-nitrophenyl)-5-phenyl tetrazolium chloride), and CTC (5-cyano-2,3-ditolyl tetrazolium chloride) reduction in Escherichia coli K-12
-
Smith JJ & McFeters GA (1997) Mechanisms of INT (2-(4-iodophenyl)-3-(4-nitrophenyl)-5-phenyl tetrazolium chloride), and CTC (5-cyano-2, 3-ditolyl tetrazolium chloride) reduction in Escherichia coli K-12. J Microbiol Meth 29: 161-175.
-
(1997)
J Microbiol Meth
, vol.29
, pp. 161-175
-
-
Smith, J.J.1
McFeters, G.A.2
-
137
-
-
77955102352
-
Quantifying E. coli proteome and transcriptome with single-molecule sensitivity in single cells
-
Taniguchi Y, Choi PJ, Li GW, Chen H, Babu M, Hearn J, Emili A & Xie XS (2010) Quantifying E. coli proteome and transcriptome with single-molecule sensitivity in single cells. Science 329: 533-538.
-
(2010)
Science
, vol.329
, pp. 533-538
-
-
Taniguchi, Y.1
Choi, P.J.2
Li, G.W.3
Chen, H.4
Babu, M.5
Hearn, J.6
Emili, A.7
Xie, X.S.8
-
138
-
-
0034020328
-
Localization of symbiotic clostridia in the mixed segment of the termite Nasutitermes takasagoensis (Shiraki)
-
Tokuda G, Yamaoka I & Noda H (2000) Localization of symbiotic clostridia in the mixed segment of the termite Nasutitermes takasagoensis (Shiraki). Appl Environ Microbiol 66: 2199-2207.
-
(2000)
Appl Environ Microbiol
, vol.66
, pp. 2199-2207
-
-
Tokuda, G.1
Yamaoka, I.2
Noda, H.3
-
139
-
-
77950629061
-
Flow cytometry for bacteria: enabling metabolic engineering, synthetic biology and the elucidation of complex phenotypes
-
Tracy BP, Gaida SM & Papoutsakis ET (2010) Flow cytometry for bacteria: enabling metabolic engineering, synthetic biology and the elucidation of complex phenotypes. Curr Opin Biotechnol 21: 85-99.
-
(2010)
Curr Opin Biotechnol
, vol.21
, pp. 85-99
-
-
Tracy, B.P.1
Gaida, S.M.2
Papoutsakis, E.T.3
-
140
-
-
84872116197
-
Infant antibiotic exposures and early-life body mass
-
Trasande L, Blustein J, Liu M, Corwin E, Cox LM & Blaser MJ (2012) Infant antibiotic exposures and early-life body mass. Int J Obes (Lond). 37: 16-23.
-
(2012)
Int J Obes (Lond)
, vol.37
, pp. 16-23
-
-
Trasande, L.1
Blustein, J.2
Liu, M.3
Corwin, E.4
Cox, L.M.5
Blaser, M.J.6
-
141
-
-
0033559581
-
Characterization of SYBR gold nucleic acid gel stain: a dye optimized for use with 300-nm ultraviolet transilluminators
-
Tuma RS, Beaudet MP, Jin XK, Jones LJ, Cheung CY, Yue S & Singer VL (1999) Characterization of SYBR gold nucleic acid gel stain: a dye optimized for use with 300-nm ultraviolet transilluminators. Anal Biochem 268: 278-288.
-
(1999)
Anal Biochem
, vol.268
, pp. 278-288
-
-
Tuma, R.S.1
Beaudet, M.P.2
Jin, X.K.3
Jones, L.J.4
Cheung, C.Y.5
Yue, S.6
Singer, V.L.7
-
142
-
-
33845874101
-
An obesity-associated gut microbiome with increased capacity for energy harvest
-
Turnbaugh PJ, Ley RE, Mahowald MA, Magrini V, Mardis ER & Gordon JI (2006) An obesity-associated gut microbiome with increased capacity for energy harvest. Nature 444: 1027-1031.
-
(2006)
Nature
, vol.444
, pp. 1027-1031
-
-
Turnbaugh, P.J.1
Ley, R.E.2
Mahowald, M.A.3
Magrini, V.4
Mardis, E.R.5
Gordon, J.I.6
-
143
-
-
41849127118
-
Diet-induced obesity is linked to marked but reversible alterations in the mouse distal gut microbiome
-
Turnbaugh PJ, Backhed F, Fulton L & Gordon JI (2008) Diet-induced obesity is linked to marked but reversible alterations in the mouse distal gut microbiome. Cell Host Microbe 3: 213-223.
-
(2008)
Cell Host Microbe
, vol.3
, pp. 213-223
-
-
Turnbaugh, P.J.1
Backhed, F.2
Fulton, L.3
Gordon, J.I.4
-
144
-
-
77950669604
-
The effect of diet on the human gut microbiome: a metagenomic analysis in humanized gnotobiotic mice
-
Turnbaugh PJ, Ridaura VK, Faith JJ, Rey FE, Knight R & Gordon JI (2009a) The effect of diet on the human gut microbiome: a metagenomic analysis in humanized gnotobiotic mice. Sci Transl Med 1: 6ra14.
-
(2009)
Sci Transl Med
, vol.1
-
-
Turnbaugh, P.J.1
Ridaura, V.K.2
Faith, J.J.3
Rey, F.E.4
Knight, R.5
Gordon, J.I.6
-
145
-
-
58749112734
-
A core gut microbiome in obese and lean twins
-
Turnbaugh PJ, Hamady M, Yatsunenko T et al. (2009b) A core gut microbiome in obese and lean twins. Nature 457: 480-484.
-
(2009)
Nature
, vol.457
, pp. 480-484
-
-
Turnbaugh, P.J.1
Hamady, M.2
Yatsunenko, T.3
-
146
-
-
77958063480
-
Viewing the human microbiome through three-dimensional glasses: integrating structural and functional studies to better define the properties of myriad carbohydrate-active enzymes
-
Turnbaugh PJ, Henrissat B & Gordon JI (2010a) Viewing the human microbiome through three-dimensional glasses: integrating structural and functional studies to better define the properties of myriad carbohydrate-active enzymes. Acta Crystallogr Sect F Struct Biol Cryst Commun 66: 1261-1264.
-
(2010)
Acta Crystallogr Sect F Struct Biol Cryst Commun
, vol.66
, pp. 1261-1264
-
-
Turnbaugh, P.J.1
Henrissat, B.2
Gordon, J.I.3
-
147
-
-
77952158672
-
Organismal, genetic, and transcriptional variation in the deeply sequenced gut microbiomes of identical twins
-
Turnbaugh PJ, Quince C, Faith JJ et al. (2010b) Organismal, genetic, and transcriptional variation in the deeply sequenced gut microbiomes of identical twins. P Natl Acad Sci USA 107: 7503-7508.
-
(2010)
P Natl Acad Sci USA
, vol.107
, pp. 7503-7508
-
-
Turnbaugh, P.J.1
Quince, C.2
Faith, J.J.3
-
148
-
-
27744574905
-
Quantification of bacteria in human feces using 16S rRNA-hybridization, DNA-staining and flow cytometry
-
Vaahtovuo J, Korkeamaki M, Munukka E, Viljanen MK & Toivanen P (2005) Quantification of bacteria in human feces using 16S rRNA-hybridization, DNA-staining and flow cytometry. J Microbiol Methods 63: 276-286.
-
(2005)
J Microbiol Methods
, vol.63
, pp. 276-286
-
-
Vaahtovuo, J.1
Korkeamaki, M.2
Munukka, E.3
Viljanen, M.K.4
Toivanen, P.5
-
149
-
-
79952769971
-
Systems-level analysis of microbial community organization through combinatorial labeling and spectral imaging
-
Valm AM, Mark Welch JL, Rieken CW, Hasegawa Y, Sogin ML, Oldenbourg R, Dewhirst FE & Borisy GG (2011) Systems-level analysis of microbial community organization through combinatorial labeling and spectral imaging. P Natl Acad Sci USA 108: 4152-4157.
-
(2011)
P Natl Acad Sci USA
, vol.108
, pp. 4152-4157
-
-
Valm, A.M.1
Mark Welch, J.L.2
Rieken, C.W.3
Hasegawa, Y.4
Sogin, M.L.5
Oldenbourg, R.6
Dewhirst, F.E.7
Borisy, G.G.8
-
151
-
-
77950250064
-
Metabolic syndrome and altered gut microbiota in mice lacking Toll-like receptor 5
-
Vijay-Kumar M, Aitken JD, Carvalho FA, Cullender TC, Mwangi S, Srinivasan S, Sitaraman SV, Knight R, Ley RE & Gewirtz AT (2010) Metabolic syndrome and altered gut microbiota in mice lacking Toll-like receptor 5. Science 328: 228-231.
-
(2010)
Science
, vol.328
, pp. 228-231
-
-
Vijay-Kumar, M.1
Aitken, J.D.2
Carvalho, F.A.3
Cullender, T.C.4
Mwangi, S.5
Srinivasan, S.6
Sitaraman, S.V.7
Knight, R.8
Ley, R.E.9
Gewirtz, A.T.10
-
152
-
-
70349531263
-
Single-cell ecophysiology of microbes as revealed by Raman microspectroscopy or secondary ion mass spectrometry imaging
-
Wagner M (2009) Single-cell ecophysiology of microbes as revealed by Raman microspectroscopy or secondary ion mass spectrometry imaging. Annu Rev Microbiol 63: 411-429.
-
(2009)
Annu Rev Microbiol
, vol.63
, pp. 411-429
-
-
Wagner, M.1
-
153
-
-
78149295964
-
Alleviating cancer drug toxicity by inhibiting a bacterial enzyme
-
Wallace BD, Wang H, Lane KT et al. (2010) Alleviating cancer drug toxicity by inhibiting a bacterial enzyme. Science 330: 831-835.
-
(2010)
Science
, vol.330
, pp. 831-835
-
-
Wallace, B.D.1
Wang, H.2
Lane, K.T.3
-
154
-
-
0027339723
-
Optimizing fluorescent in situ hybridization with rRNA-targeted oligonucleotide probes for flow cytometric identification of microorganisms
-
Wallner G, Amann R & Beisker W (1993) Optimizing fluorescent in situ hybridization with rRNA-targeted oligonucleotide probes for flow cytometric identification of microorganisms. Cytometry 14: 136-143.
-
(1993)
Cytometry
, vol.14
, pp. 136-143
-
-
Wallner, G.1
Amann, R.2
Beisker, W.3
-
155
-
-
0029070337
-
Flow cytometric analysis of activated sludge with rRNA-targeted probes
-
Wallner G, Erhart R & Amann R (1995) Flow cytometric analysis of activated sludge with rRNA-targeted probes. Appl Environ Microbiol 61: 1859-1866.
-
(1995)
Appl Environ Microbiol
, vol.61
, pp. 1859-1866
-
-
Wallner, G.1
Erhart, R.2
Amann, R.3
-
156
-
-
0029591349
-
An assessment of the metabolic activity of starved and vegetative bacteria using two redox dyes
-
Walsh S, Lappin-Scott HM, Stockdale H & Herbert BN (1995) An assessment of the metabolic activity of starved and vegetative bacteria using two redox dyes. J Microbiol Meth 24: 1-9.
-
(1995)
J Microbiol Meth
, vol.24
, pp. 1-9
-
-
Walsh, S.1
Lappin-Scott, H.M.2
Stockdale, H.3
Herbert, B.N.4
-
157
-
-
68649121851
-
Isolation and characterization of low nucleic acid (LNA)-content bacteria
-
Wang Y, Hammes F, Boon N, Chami M & Egli T (2009) Isolation and characterization of low nucleic acid (LNA)-content bacteria. ISME J 3: 889-902.
-
(2009)
ISME J
, vol.3
, pp. 889-902
-
-
Wang, Y.1
Hammes, F.2
Boon, N.3
Chami, M.4
Egli, T.5
-
158
-
-
79953733693
-
Gut flora metabolism of phosphatidylcholine promotes cardiovascular disease
-
Wang Z, Klipfell E, Bennett BJ et al. (2011) Gut flora metabolism of phosphatidylcholine promotes cardiovascular disease. Nature 472: 57-63.
-
(2011)
Nature
, vol.472
, pp. 57-63
-
-
Wang, Z.1
Klipfell, E.2
Bennett, B.J.3
-
159
-
-
55849125576
-
Alternatively activated macrophages in intestinal helminth infection: effects on concurrent bacterial colitis
-
Weng M, Huntley D, Huang IF, Foye-Jackson O, Wang L, Sarkissian A, Zhou Q, Walker WA, Cherayil BJ & Shi HN (2007) Alternatively activated macrophages in intestinal helminth infection: effects on concurrent bacterial colitis. J Immunol 179: 4721-4731.
-
(2007)
J Immunol
, vol.179
, pp. 4721-4731
-
-
Weng, M.1
Huntley, D.2
Huang, I.F.3
Foye-Jackson, O.4
Wang, L.5
Sarkissian, A.6
Zhou, Q.7
Walker, W.A.8
Cherayil, B.J.9
Shi, H.N.10
-
160
-
-
31944439042
-
Stable isotope probing links taxonomy with function in microbial communities - microbial ecologists have a culture-independent means for analyzing sources of metabolic activities among complex mixtures of microbes
-
Whitby C, Bailey M, Whiteley A, Murrell C, Kilham K, Prosser J & Lappin-Scott H (2005) Stable isotope probing links taxonomy with function in microbial communities - microbial ecologists have a culture-independent means for analyzing sources of metabolic activities among complex mixtures of microbes. ASM News 71: 169-173.
-
(2005)
ASM News
, vol.71
, pp. 169-173
-
-
Whitby, C.1
Bailey, M.2
Whiteley, A.3
Murrell, C.4
Kilham, K.5
Prosser, J.6
Lappin-Scott, H.7
-
161
-
-
84862141704
-
Human gut microbiome viewed across age and geography
-
Yatsunenko T, Rey FE, Manary MJ et al. (2012) Human gut microbiome viewed across age and geography. Nature 486: 222-227.
-
(2012)
Nature
, vol.486
, pp. 222-227
-
-
Yatsunenko, T.1
Rey, F.E.2
Manary, M.J.3
-
162
-
-
79955749319
-
Minimum information about a marker gene sequence (MIMARKS) and minimum information about any (x) sequence (MIxS) specifications
-
Yilmaz P, Kottmann R, Field D et al. (2011) Minimum information about a marker gene sequence (MIMARKS) and minimum information about any (x) sequence (MIxS) specifications. Nat Biotechnol 29: 415-420.
-
(2011)
Nat Biotechnol
, vol.29
, pp. 415-420
-
-
Yilmaz, P.1
Kottmann, R.2
Field, D.3
-
163
-
-
42349106044
-
Meta-analysis of genome-wide association data and large-scale replication identifies additional susceptibility loci for type 2 diabetes
-
Zeggini E, Scott LJ, Saxena R et al. (2008) Meta-analysis of genome-wide association data and large-scale replication identifies additional susceptibility loci for type 2 diabetes. Nat Genet 40: 638-645.
-
(2008)
Nat Genet
, vol.40
, pp. 638-645
-
-
Zeggini, E.1
Scott, L.J.2
Saxena, R.3
-
164
-
-
0036729237
-
Quantification of uncultured Ruminococcus obeum-like bacteria in human fecal samples by fluorescent in situ hybridization and flow cytometry using 16S rRNA-targeted probes
-
Zoetendal EG, Ben-Amor K, Harmsen HJM, Schut F, Akkermans ADL & de Vos WM (2002) Quantification of uncultured Ruminococcus obeum-like bacteria in human fecal samples by fluorescent in situ hybridization and flow cytometry using 16S rRNA-targeted probes. Appl Environ Microbiol 68: 4225-4232.
-
(2002)
Appl Environ Microbiol
, vol.68
, pp. 4225-4232
-
-
Zoetendal, E.G.1
Ben-Amor, K.2
Harmsen, H.J.M.3
Schut, F.4
Akkermans, A.D.L.5
de Vos, W.M.6
-
165
-
-
3042572549
-
Coexistence of dominant groups in marine bacterioplankton community - a combination of experimental and modelling approaches
-
Zubkov MV, Allen JI & Fuchs BM (2004) Coexistence of dominant groups in marine bacterioplankton community - a combination of experimental and modelling approaches. J Mar Biol Assoc UK 84: 519-529.
-
(2004)
J Mar Biol Assoc UK
, vol.84
, pp. 519-529
-
-
Zubkov, M.V.1
Allen, J.I.2
Fuchs, B.M.3
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