-
1
-
-
0025183708
-
Basic local alignment search tool
-
Altschul, S. F., W. Gish, W. Miller, E. W. Myers, and D. J. Lipman. 1990. Basic local alignment search tool. J. Mol. Biol. 215:403-410.
-
(1990)
J. Mol. Biol.
, vol.215
, pp. 403-410
-
-
Altschul, S.F.1
Gish, W.2
Miller, W.3
Myers, E.W.4
Lipman, D.J.5
-
2
-
-
50949131523
-
Comparative analysis of human gut microbiota by barcoded pyrosequencing
-
Andersson, A. F., M. Lindberg, H. Jakobsson, F. Backhed, P. Nyren, and L. Engstrand. 2008. Comparative analysis of human gut microbiota by barcoded pyrosequencing. FLoS One 3:e2836.
-
(2008)
FLoS One
, vol.3
-
-
Andersson, A.F.1
Lindberg, M.2
Jakobsson, H.3
Backhed, F.4
Nyren, P.5
Engstrand, L.6
-
3
-
-
0022050946
-
Use of nonprotein nitrogen in pigs: Effects of dietary urea on the intestinal microflora
-
Benno, Y., K. Endo, K. Suzuki, T. Mitsuoka, and S. Namioka. 1985. Use of nonprotein nitrogen in pigs: effects of dietary urea on the intestinal microflora. Am. J. Vet. Res. 46:959-962.
-
(1985)
Am. J. Vet. Res.
, vol.46
, pp. 959-962
-
-
Benno, Y.1
Endo, K.2
Suzuki, K.3
Mitsuoka, T.4
Namioka, S.5
-
4
-
-
66249086220
-
Development of cpn60-based real-time quantitative PCR assays for the detection of 14 Campylobacter species and application to screening canine fecal samples
-
Chaban, B., K. M. Musil, C. G. Himsworth, and J. E. Hill. 2009. Development of cpn60-based real-time quantitative PCR assays for the detection of 14 Campylobacter species and application to screening canine fecal samples. Appl. Environ. Microbiol. 75:3055-3061.
-
(2009)
Appl. Environ. Microbiol.
, vol.75
, pp. 3055-3061
-
-
Chaban, B.1
Musil, K.M.2
Himsworth, C.G.3
Hill, J.E.4
-
5
-
-
0028126829
-
The phylogeny of the genus Clostridium: Proposal of five new genera and eleven new species combinations
-
Collins, M. D., P. A. Lawson, A. Willems, J. J. Cordoba, J. FernandezGarayzabal, P. Garcia, J. Cai, H. Hippe, and J. A. Farrow. 1994. The phylogeny of the genus Clostridium: proposal of five new genera and eleven new species combinations. Int. J. Syst. Bacteriol. 44:812-826.
-
(1994)
Int. J. Syst. Bacteriol.
, vol.44
, pp. 812-826
-
-
Collins, M.D.1
Lawson, P.A.2
Willems, A.3
Cordoba, J.J.4
FernandezGarayzabal, J.5
Garcia, P.6
Cai, J.7
Hippe, H.8
Farrow, J.A.9
-
6
-
-
67349174279
-
Characterization and quantification of feline fecal microbiota using cpn60 sequence-based methods and investigation of animal-to-animal variation in microbial population structure
-
Desai, A. R., K. M. Musil, A. P. Carr, and J. E. Hill. 2009. Characterization and quantification of feline fecal microbiota using cpn60 sequence-based methods and investigation of animal-to-animal variation in microbial population structure. Vet. Microbiol. 137:120-128.
-
(2009)
Vet. Microbiol.
, vol.137
, pp. 120-128
-
-
Desai, A.R.1
Musil, K.M.2
Carr, A.P.3
Hill, J.E.4
-
7
-
-
33747177087
-
Assembly of the human intestinal microbiota
-
Dethlefsen, L., P. B. Eckburg, E. M. Bik, and D. A. Relman. 2006. Assembly of the human intestinal microbiota. Trends Ecol. Evol. 21:517-523.
-
(2006)
Trends Ecol. Evol.
, vol.21
, pp. 517-523
-
-
Dethlefsen, L.1
Eckburg, P.B.2
Bik, E.M.3
Relman, D.A.4
-
8
-
-
0026745606
-
Some modifications in the procedure of direct sequencing of PCR amplified 16S rDNA
-
DOI 10.1016/0167-7012(92)90017-X
-
Dorsch, M., and E. Stackebrandt. 1992. Some modifications in the procedure of direct sequencing of PCR amplified 16S rDNA. J. Microbiol. Methods 16:271-279. (Pubitemid 23007548)
-
(1992)
Journal of Microbiological Methods
, vol.16
, Issue.4
, pp. 271-279
-
-
Dorsch, M.1
Stackebrandt, E.2
-
9
-
-
29044443396
-
Enumeration of specific bacterial populations in complex intestinal communities using quantitative PCR based on the chaperonin-60 target
-
Dumonceaux, T. J., J. E. Hill, S. A. Briggs, K. K. Amoako, S. M. Hemmingsen, and A. G. Van Kessel. 2006. Enumeration of specific bacterial populations in complex intestinal communities using quantitative PCR based on the chaperonin-60 target. J. Microbiol. Methods 64:46-62.
-
(2006)
J. Microbiol. Methods
, vol.64
, pp. 46-62
-
-
Dumonceaux, T.J.1
Hill, J.E.2
Briggs, S.A.3
Amoako, K.K.4
Hemmingsen, S.M.5
Van Kessel, A.G.6
-
10
-
-
33646112924
-
Characterization of intestinal microbiota and response to dietary virginiamycin supplementation in the broiler chicken
-
Dumonceaux, T. J., J. E. Hill, S. M. Hemmingsen, and A. G. Van Kessel. 2006. Characterization of intestinal microbiota and response to dietary virginiamycin supplementation in the broiler chicken. Appl. Environ. Microbiol. 72:2815-2823.
-
(2006)
Appl. Environ. Microbiol.
, vol.72
, pp. 2815-2823
-
-
Dumonceaux, T.J.1
Hill, J.E.2
Hemmingsen, S.M.3
Van Kessel, A.G.4
-
11
-
-
33746606040
-
Molecular characterization of microbial communities in Canadian pulp and paper activated sludge and quantification of a novel Thiothrix eikelboomii-Vike bulking filament
-
Dumonceaux, T. J., J. E. Hill, C. Pelletier, M. G. Pake, A. G. Van Kessel, and S. M. Hemmingsen. 2006. Molecular characterization of microbial communities in Canadian pulp and paper activated sludge and quantification of a novel Thiothrix eikelboomii-Vike bulking filament. Can. J. Microbiol. 52:494-500.
-
(2006)
Can. J. Microbiol.
, vol.52
, pp. 494-500
-
-
Dumonceaux, T.J.1
Hill, J.E.2
Pelletier, C.3
Pake, M.G.4
Van Kessel, A.G.5
Hemmingsen, S.M.6
-
12
-
-
0036866628
-
Growth requirements and fermentation products of Fusobacterium prausnitzii, and a proposal to reclassify it as Faecalibacterium prausnitzii gen. nov., comb. nov
-
Duncan, S. H., G. L. Hold, H. J. Harmsen, C. S. Stewart, and H. J. Flint. 2002. Growth requirements and fermentation products of Fusobacterium prausnitzii, and a proposal to reclassify it as Faecalibacterium prausnitzii gen. nov., comb. nov. Int. J. Syst. Evol. Microbiol. 52:2141-2146.
-
(2002)
Int. J. Syst. Evol. Microbiol.
, vol.52
, pp. 2141-2146
-
-
Duncan, S.H.1
Hold, G.L.2
Harmsen, H.J.3
Stewart, C.S.4
Flint, H.J.5
-
13
-
-
34848925453
-
Detection of Actinobacteria cultivated from environmental samples reveals bias in universal primers
-
Farris, M. H., and J. B. Olson. 2007. Detection of Actinobacteria cultivated from environmental samples reveals bias in universal primers. Lett. Appl. Microbiol. 45:376-381.
-
(2007)
Lett. Appl. Microbiol.
, vol.45
, pp. 376-381
-
-
Farris, M.H.1
Olson, J.B.2
-
14
-
-
77954261344
-
Diets supplemented with chickpea or its main oligosaccharide component raffinose modify fecal microbial composition in healthy adults
-
Fernando, W. M. U., J. E. Hill, G. A. Zello, R. T. Tyler, W. J. Dahl, and A. G. Van Kessel. Diets supplemented with chickpea or its main oligosaccharide component raffinose modify fecal microbial composition in healthy adults. Beneficial Microbes, in press.
-
Beneficial Microbes, in Press
-
-
Fernando, W.M.U.1
Hill, J.E.2
Zello, G.A.3
Tyler, R.T.4
Dahl, W.J.5
Van Kessel, A.G.6
-
15
-
-
3242743112
-
New real-time quantitative PCR procedure for quantification of bifidobacteria in human fecal samples
-
Gueimonde, M., S. Tolkko, T. Korpimaki, and S. Salminen. 2004. New real-time quantitative PCR procedure for quantification of bifidobacteria in human fecal samples. Appl. Environ. Microbiol. 70:4165-4169.
-
(2004)
Appl. Environ. Microbiol.
, vol.70
, pp. 4165-4169
-
-
Gueimonde, M.1
Tolkko, S.2
Korpimaki, T.3
Salminen, S.4
-
16
-
-
0032921264
-
Comparison of media for the detection of bifidobacteria, lactobacilli and total anaerobes from faecal samples
-
DOI 10.1016/S0167-7012(99)00031-7, PII S0167701299000317
-
Hartemink, R., and F. M. Rombouts. 1999. Comparison of media for the detection of bifidobacteria, lactobacilli and total anaerobes from faecal samples. J. Microbiol. Methods 36:181-192. (Pubitemid 29222042)
-
(1999)
Journal of Microbiological Methods
, vol.36
, Issue.3
, pp. 181-192
-
-
Hartemink, R.1
Rombouts, F.M.2
-
17
-
-
24344504553
-
Characterization of vaginal microflora of healthy, nonpregnant women by chaperonin-60 sequence-based methods
-
Hill, J. E., S. H. Goh, D. M. Money, M. Doyle, A. Li, W. L. Crosby, M. Links, A. Leung, D. Chan, and S. M. Hemmingsen. 2005. Characterization of vaginal microflora of healthy, nonpregnant women by chaperonin-60 sequence-based methods. Am. J. Obstet. Gynecol. 193:682-692.
-
(2005)
Am. J. Obstet. Gynecol.
, vol.193
, pp. 682-692
-
-
Hill, J.E.1
Goh, S.H.2
Money, D.M.3
Doyle, M.4
Li, A.5
Crosby, W.L.6
Links, M.7
Leung, A.8
Chan, D.9
Hemmingsen, S.M.10
-
18
-
-
13544258663
-
Comparison of ileum microflora of pigs fed corn-, wheat-, or barley-based diets by chaperonin-60 sequencing and quantitative PCR
-
Hill, J. E., S. M. Hemmingsen, B. G. Goldade, T. J. Dumonceaux, J. Klassen, R. T. Zijlstra, S. H. Goh, and A. G. Van Kessel. 2005. Comparison of ileum microflora of pigs fed corn-, wheat-, or barley-based diets by chaperonin-60 sequencing and quantitative PCR. Appl. Environ. Microbiol. 71:867-875.
-
(2005)
Appl. Environ. Microbiol.
, vol.71
, pp. 867-875
-
-
Hill, J.E.1
Hemmingsen, S.M.2
Goldade, B.G.3
Dumonceaux, T.J.4
Klassen, J.5
Zijlstra, R.T.6
Goh, S.H.7
Van Kessel, A.G.8
-
19
-
-
4444360858
-
CpnDB: A chaperonin sequence database
-
Hill, J. E., S. L. Penny, K. G. Crowell, S. H. Goh, and S. M. Hemmingsen. 2004. cpnDB: a chaperonin sequence database. Genome Res. 14:1669-1675.
-
(2004)
Genome Res.
, vol.14
, pp. 1669-1675
-
-
Hill, J.E.1
Penny, S.L.2
Crowell, K.G.3
Goh, S.H.4
Hemmingsen, S.M.5
-
20
-
-
0036271968
-
Extensive profiling of a complex microbial community by high-throughput sequencing
-
Hill, J. E., R. P. Seipp, M. Betts, L. Hawkins, A. G. Van Kessel, W. L. Crosby, and S. M. Hemmingsen. 2002. Extensive profiling of a complex microbial community by high-throughput sequencing. Appl. Environ. Microbiol. 68: 3055-3066.
-
(2002)
Appl. Environ. Microbiol.
, vol.68
, pp. 3055-3066
-
-
Hill, J.E.1
Seipp, R.P.2
Betts, M.3
Hawkins, L.4
Van Kessel, A.G.5
Crosby, W.L.6
Hemmingsen, S.M.7
-
21
-
-
33644840902
-
Improved template representation in cpn60 PCR product libraries generated from complex templates by application of a specific mixture of PCR primers
-
Hill, J. E., J. R. Town, and S. M. Hemmingsen. 2006. Improved template representation in cpn60 PCR product libraries generated from complex templates by application of a specific mixture of PCR primers. Environ. Microbiol. 8:741-746.
-
(2006)
Environ. Microbiol.
, vol.8
, pp. 741-746
-
-
Hill, J.E.1
Town, J.R.2
Hemmingsen, S.M.3
-
22
-
-
0029162158
-
Quantitative fluorescence in situ hybridization of Bifidobacterium spp. with genus-specific 16S rRNA-targeted probes and its application in fecal samples
-
Langendijk, P. S., F. Schut, G. J. Jansen, G. C. Raangs, G. R. Kamphuis, M. H. Wilkinson, and G. W. Welling. 1995. Quantitative fluorescence in situ hybridization of Bifidobacterium spp. with genus-specific 16S rRNA-targeted probes 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.R.5
Wilkinson, M.H.6
Welling, G.W.7
-
23
-
-
46249085739
-
Evolution of mammals and their gut microbes
-
Ley, R. E., M. Hamady, C. Lozupone, P. J. Turnbaugh, R. R. Ramey, J. S. Bircher, M. L. Schlegel, T. A. Tucker, M. D. Schrenzel, R. Knight, and J. I. Gordon. 2008. Evolution of mammals and their gut microbes. Science 320: 1647-1651.
-
(2008)
Science
, vol.320
, pp. 1647-1651
-
-
Ley, R.E.1
Hamady, M.2
Lozupone, C.3
Turnbaugh, P.J.4
Ramey, R.R.5
Bircher, J.S.6
Schlegel, M.L.7
Tucker, T.A.8
Schrenzel, M.D.9
Knight, R.10
Gordon, J.I.11
-
24
-
-
32944466887
-
Ecological and evolutionary forces shaping microbial diversity in the human intestine
-
Ley, R. E., D. A. Peterson, and J. I. Gordon. 2006. Ecological and evolutionary forces shaping microbial diversity in the human intestine. Cell 124:837-848.
-
(2006)
Cell
, vol.124
, pp. 837-848
-
-
Ley, R.E.1
Peterson, D.A.2
Gordon, J.I.3
-
26
-
-
0036841520
-
Development of 16S rRNA-gene-targeted group-specific primers for the detection and identification of predominant bacteria in human feces
-
Matsuki, T., K. Watanabe, J. Fujimoto, Y. Miyamoto, T. Takada, K. Matsumoto, H. Oyaizu, and R. Tanaka. 2002. Development of 16S rRNA-gene-targeted group-specific primers for the detection and identification of predominant bacteria in human feces. Appl. Environ. Microbiol. 68:5445-5451.
-
(2002)
Appl. Environ. Microbiol.
, vol.68
, pp. 5445-5451
-
-
Matsuki, T.1
Watanabe, K.2
Fujimoto, J.3
Miyamoto, Y.4
Takada, T.5
Matsumoto, K.6
Oyaizu, H.7
Tanaka, R.8
-
27
-
-
10444226583
-
Use of 16S rRNA gene-targeted group-specific primers for real-time PCR analysis of predominant bacteria in human feces
-
Matsuki, T., K. Watanabe, J. Fujimoto, T. Takada, and R. Tanaka. 2004. Use of 16S rRNA gene-targeted group-specific primers for real-time PCR analysis of predominant bacteria in human feces. Appl. Environ. Microbiol. 70:7220-7228.
-
(2004)
Appl. Environ. Microbiol.
, vol.70
, pp. 7220-7228
-
-
Matsuki, T.1
Watanabe, K.2
Fujimoto, J.3
Takada, T.4
Tanaka, R.5
-
28
-
-
50949121882
-
Effects of transgenic hybrid aspen overexpressing polyphenol oxidase on rhizosphere diversity
-
Oliver, K. L., R. C. Hamelin, and W. E. Hintz. 2008. Effects of transgenic hybrid aspen overexpressing polyphenol oxidase on rhizosphere diversity. Appl. Environ. Microbiol. 74:5340-5348.
-
(2008)
Appl. Environ. Microbiol.
, vol.74
, pp. 5340-5348
-
-
Oliver, K.L.1
Hamelin, R.C.2
Hintz, W.E.3
-
29
-
-
0023989064
-
Improved tools for biological sequence comparison
-
Pearson, W. R., and D. J. Lipman. 1988. Improved tools for biological sequence comparison. Proc. Natl. Acad. Sci. U. S. A. 85:2444-2448.
-
(1988)
Proc. Natl. Acad. Sci. U. S. A.
, vol.85
, pp. 2444-2448
-
-
Pearson, W.R.1
Lipman, D.J.2
-
30
-
-
62149123627
-
Novel 16S rRNA gene analyses reveal new in vitro effects of insoluble barley fibres on the human faecal microbiota
-
Rudi, K., M. Zimonja, I. M. Aasen, S. H. Knutsen, and S. Sahlstrom. 2009. Novel 16S rRNA gene analyses reveal new in vitro effects of insoluble barley fibres on the human faecal microbiota. Lett. Appl. Microbiol. 48:433-439.
-
(2009)
Lett. Appl. Microbiol.
, vol.48
, pp. 433-439
-
-
Rudi, K.1
Zimonja, M.2
Aasen, I.M.3
Knutsen, S.H.4
Sahlstrom, S.5
-
31
-
-
65549089957
-
Fyrosequencing of the chaperonin-60 universal target for phylogenetic analysis of microbial communities
-
Schellenberg, J., M. G. Links, J. E. Hill, T. J. Dumonceaux, G. A. Peters, S. Tyler, B. Ball, A. Severini, and F. A. Plummer. 2009. Fyrosequencing of the chaperonin-60 universal target for phylogenetic analysis of microbial communities. Appl. Environ. Microbiol. 75:2889-2898.
-
(2009)
Appl. Environ. Microbiol.
, vol.75
, pp. 2889-2898
-
-
Schellenberg, J.1
Links, M.G.2
Hill, J.E.3
Dumonceaux, T.J.4
Peters, G.A.5
Tyler, S.6
Ball, B.7
Severini, A.8
Plummer, F.A.9
-
32
-
-
0032781650
-
Phylogenetic basis for a taxonomic dissection of the genus Clostridium
-
DOI 10.1016/S0928-8244(99)00039-5, PII S0928824499000395
-
Stackebrandt, E., I. Kramer, J. Swiderski, and H. Hippe. 1999. Phylogenetic basis for a taxonomic dissection of the genus Clostridium. FEMS Immunol. Med. Microbiol. 24:253-258. (Pubitemid 29332600)
-
(1999)
FEMS Immunology and Medical Microbiology
, vol.24
, Issue.3
, pp. 253-258
-
-
Stackebrandt, E.1
Kramer, I.2
Swiderski, J.3
Hippe, H.4
-
33
-
-
58749112734
-
A core gut microbiome in obese and lean twins
-
Turnbaugh, P. J., M. Hamady, T. Yatsunenko, B. L. Cantarel, A. Duncan, R. E. Ley, M. L. Sogin, W. J. Jones, B. A. Roe, J. P. Affourtit, M. Egholm, B. Henrissat, A. C. Heath, R. Knight, and J. I. Gordon. 2009. 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
Cantarel, B.L.4
Duncan, A.5
Ley, R.E.6
Sogin, M.L.7
Jones, W.J.8
Roe, B.A.9
Affourtit, J.P.10
Egholm, M.11
Henrissat, B.12
Heath, A.C.13
Knight, R.14
Gordon, J.I.15
-
34
-
-
62149124800
-
Exploring the diversity of the bifidobacterial population in the human intestinal tract
-
Turroni, F., E. Foroni, P. Pizzetti, V. Giubellini, A. Ribbera, P. Merusi, P. Cagnasso, B. Bizzarri, G. L. de'Angelis, F. Shanahan, D. van Sinderen, and M. Ventura. 2009. Exploring the diversity of the bifidobacterial population in the human intestinal tract. Appl. Environ. Microbiol. 75:1534-1545.
-
(2009)
Appl. Environ. Microbiol.
, vol.75
, pp. 1534-1545
-
-
Turroni, F.1
Foroni, E.2
Pizzetti, P.3
Giubellini, V.4
Ribbera, A.5
Merusi, P.6
Cagnasso, P.7
Bizzarri, B.8
De'Angelis, G.L.9
Shanahan, F.10
Van Sinderen, D.11
Ventura, M.12
-
35
-
-
67549119095
-
Microbiomic analysis of the bifidobacterial population in the human distal gut
-
Turroni, F., J. R. Marchesl, E. Foroni, M. Gueimonde, F. Shanahan, A. Margolles, D. van Sinderen, and M. Ventura. 2009. Microbiomic analysis of the bifidobacterial population in the human distal gut. ISME J. 3:745-751.
-
(2009)
ISME J.
, vol.3
, pp. 745-751
-
-
Turroni, F.1
Marchesl, J.R.2
Foroni, E.3
Gueimonde, M.4
Shanahan, F.5
Margolles, A.6
Van Sinderen, D.7
Ventura, M.8
-
36
-
-
49749121708
-
The species composition of the human intestinal microbiota differs between particle-associated and liquid phase communities
-
Walker, A. W., S. H. Duncan, H. J. Harmsen, G. Holtrop, G. W. Welling, and H. J. Flint. 2008. The species composition of the human intestinal microbiota differs between particle-associated and liquid phase communities. Environ. Microbiol. 10:3275-3283.
-
(2008)
Environ. Microbiol.
, vol.10
, pp. 3275-3283
-
-
Walker, A.W.1
Duncan, S.H.2
Harmsen, H.J.3
Holtrop, G.4
Welling, G.W.5
Flint, H.J.6
|