-
1
-
-
70349448695
-
Cultivating the uncultured: Limits, advances and future challenges
-
Alain, K. & Querellou, J. (2009). Cultivating the uncultured: limits, advances and future challenges. Extremophiles 13, 583-594.
-
(2009)
Extremophiles
, vol.13
, pp. 583-594
-
-
Alain, K.1
Querellou, J.2
-
2
-
-
0025183708
-
Basic local alignment search tool
-
Altschul, S. F., Gish, W., Miller, W., Myers, E. W. & Lipman, D. J. (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
-
3
-
-
0014587586
-
Combined screw-cap and rubber-stopper closure for Hungate tubes (pre-reduced anaerobically sterilized roll tubes and liquid media)
-
Attebery, H. R. & Finegold, S. M. (1969). Combined screw-cap and rubber-stopper closure for Hungate tubes (pre-reduced anaerobically sterilized roll tubes and liquid media). Appl Microbiol 18, 558-561.
-
(1969)
Appl Microbiol
, vol.18
, pp. 558-561
-
-
Attebery, H.R.1
Finegold, S.M.2
-
4
-
-
15544369658
-
Host-bacterial mutualism in the human intestine
-
Bäckhed, F., Ley, R. E., Sonnenburg, J. L., Peterson, D. A. & Gordon, J. I. (2005). Host-bacterial mutualism in the human intestine. Science 307, 1915-1920.
-
(2005)
Science
, vol.307
, pp. 1915-1920
-
-
Bäckhed, F.1
Ley, R.E.2
Sonnenburg, J.L.3
Peterson, D.A.4
Gordon, J.I.5
-
5
-
-
78449296237
-
Individuality in gut microbiota composition is a complex polygenic trait shaped by multiple environmental and host genetic factors
-
Benson, A. K., Kelly, S. A., Legge, R., Ma, F., Low, S. J., Kim, J., Zhang, M., Oh, P. L., Nehrenberg, D. & other authors (2010). Individuality in gut microbiota composition is a complex polygenic trait shaped by multiple environmental and host genetic factors. Proc Natl Acad Sci U S A 107, 18933-18938.
-
(2010)
Proc Natl Acad Sci U S A
, vol.107
, pp. 18933-18938
-
-
Benson, A.K.1
Kelly, S.A.2
Legge, R.3
Ma, F.4
Low, S.J.5
Kim, J.6
Zhang, M.7
Oh, P.L.8
Nehrenberg, D.9
-
6
-
-
33845261493
-
A rapid method of total lipid extraction and purification
-
Bligh, E. G. & Dyer, W. J. (1959). A rapid method of total lipid extraction and purification. Can J Biochem Physiol 37, 911-917.
-
(1959)
Can J Biochem Physiol
, vol.37
, pp. 911-917
-
-
Bligh, E.G.1
Dyer, W.J.2
-
7
-
-
0017758250
-
A rapid method for the base ratio determination of bacterial DNA
-
Cashion, P., Holder-Franklin, M. A., McCully, J. & Franklin, M. (1977). A rapid method for the base ratio determination of bacterial DNA. Anal Biochem 81, 461-466.
-
(1977)
Anal Biochem
, vol.81
, pp. 461-466
-
-
Cashion, P.1
Holder-Franklin, M.A.2
McCully, J.3
Franklin, M.4
-
8
-
-
79956075540
-
Colonization-induced host-gut microbial metabolic interaction
-
Claus, S. P., Ellero, S. L., Berger, B., Krause, L., Bruttin, A., Molina, J., Paris, A., Want, E. J., de Waziers, I. & other authors (2011). Colonization-induced host-gut microbial metabolic interaction. mBio 2, e00271-10.
-
(2011)
mBio
, vol.2
-
-
Claus, S.P.1
Ellero, S.L.2
Berger, B.3
Krause, L.4
Bruttin, A.5
Molina, J.6
Paris, A.7
Want, E.J.8
de Waziers, I.9
-
9
-
-
33845699975
-
Clostridium saccharogumia sp. nov. and Lactonifactor longoviformis gen. nov., sp. nov., two novel human faecal bacteria involved in the conversion of the dietary phytoestrogen secoisolariciresinol diglucoside
-
Clavel, T., Lippman, R., Gavini, F., Doré, J. & Blaut, M. (2007). Clostridium saccharogumia sp. nov. and Lactonifactor longoviformis gen. nov., sp. nov., two novel human faecal bacteria involved in the conversion of the dietary phytoestrogen secoisolariciresinol diglucoside. Syst Appl Microbiol 30, 16-26.
-
(2007)
Syst Appl Microbiol
, vol.30
, pp. 16-26
-
-
Clavel, T.1
Lippman, R.2
Gavini, F.3
Doré, J.4
Blaut, M.5
-
10
-
-
69449101626
-
Isolation of bacteria from the ileal mucosa of TNFdeltaARE mice and description of Enterorhabdus mucosicola gen. nov., sp. nov
-
Clavel, T., Charrier, C., Braune, A., Wenning, M., Blaut, M. & Haller, D. (2009). Isolation of bacteria from the ileal mucosa of TNFdeltaARE mice and description of Enterorhabdus mucosicola gen. nov., sp. nov. Int J Syst Evol Microbiol 59, 1805-1812.
-
(2009)
Int J Syst Evol Microbiol
, vol.59
, pp. 1805-1812
-
-
Clavel, T.1
Charrier, C.2
Braune, A.3
Wenning, M.4
Blaut, M.5
Haller, D.6
-
11
-
-
77954626040
-
Enterorhabdus caecimuris sp. nov., a member of the family Coriobacteriaceae isolated from a mouse model of spontaneous colitis, and emended description of the genus Enterorhabdus Clavel et al. 2009
-
Clavel, T., Duck, W., Charrier, C., Wenning, M., Elson, C. & Haller, D. (2010). Enterorhabdus caecimuris sp. nov., a member of the family Coriobacteriaceae isolated from a mouse model of spontaneous colitis, and emended description of the genus Enterorhabdus Clavel et al. 2009. Int J Syst Evol Microbiol 60, 1527-1531.
-
(2010)
Int J Syst Evol Microbiol
, vol.60
, pp. 1527-1531
-
-
Clavel, T.1
Duck, W.2
Charrier, C.3
Wenning, M.4
Elson, C.5
Haller, D.6
-
12
-
-
33746061683
-
Greengenes, a chimera-checked 16S rRNA gene database and workbench compatible with ARB
-
DeSantis, T. Z., Hugenholtz, P., Larsen, N., Rojas, M., Brodie, E. L., Keller, K., Huber, T., Dalevi, D., Hu, P. & Andersen, G. L. (2006a). Greengenes, a chimera-checked 16S rRNA gene database and workbench compatible with ARB. Appl Environ Microbiol 72, 5069-5072.
-
(2006)
Appl Environ Microbiol
, vol.72
, pp. 5069-5072
-
-
DeSantis, T.Z.1
Hugenholtz, P.2
Larsen, N.3
Rojas, M.4
Brodie, E.L.5
Keller, K.6
Huber, T.7
Dalevi, D.8
Hu, P.9
Andersen, G.L.10
-
13
-
-
33747827586
-
NAST: A multiple sequence alignment server for comparative analysis of 16S rRNA genes
-
Web Server issue
-
DeSantis, T. Z., Jr, Hugenholtz, P., Keller, K., Brodie, E. L., Larsen, N., Piceno, Y. M., Phan, R. & Andersen, G. L. (2006b). NAST: a multiple sequence alignment server for comparative analysis of 16S rRNA genes. Nucleic Acids Res 34 (Web Server issue,), W394-W399.
-
(2006)
Nucleic Acids Res
, vol.34
-
-
DeSantis Jr., T.Z.1
Hugenholtz, P.2
Keller, K.3
Brodie, E.L.4
Larsen, N.5
Piceno, Y.M.6
Phan, R.7
Andersen, G.L.8
-
14
-
-
79955025122
-
Extensive personal human gut microbiota culture collections characterized and manipulated in gnotobiotic mice
-
Goodman, A. L., Kallstrom, G., Faith, J. J., Reyes, A., Moore, A., Dantas, G. & Gordon, J. I. (2011). Extensive personal human gut microbiota culture collections characterized and manipulated in gnotobiotic mice. Proc Natl Acad Sci U S A 108, 6252-6257.
-
(2011)
Proc Natl Acad Sci U S A
, 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
-
15
-
-
0002051540
-
BioEdit: A user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT
-
Hall, T. A. (1999). BioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT. Nucleic Acids Symp Ser 41, 95-98.
-
(1999)
Nucleic Acids Symp Ser
, vol.41
, pp. 95-98
-
-
Hall, T.A.1
-
16
-
-
0032726894
-
Phylogenetic evidence for the transfer of Eubacterium lentum to the genus Eggerthella as Eggerthella lenta gen. nov., comb. nov
-
Kageyama, A., Benno, Y. & Nakase, T. (1999). Phylogenetic evidence for the transfer of Eubacterium lentum to the genus Eggerthella as Eggerthella lenta gen. nov., comb. nov. Int J Syst Bacteriol 49, 1725-1732.
-
(1999)
Int J Syst Bacteriol
, vol.49
, pp. 1725-1732
-
-
Kageyama, A.1
Benno, Y.2
Nakase, T.3
-
17
-
-
34447104397
-
The fecal microbiota of irritable bowel syndrome patients differs significantly from that of healthy subjects
-
Kassinen, A., Krogius-Kurikka, L., Mäkivuokko, H., Rinttilä, T., Paulin, L., Corander, J., Malinen, E., Apajalahti, J. & Palva, A. (2007). The fecal microbiota of irritable bowel syndrome patients differs significantly from that of healthy subjects. Gastroenterology 133, 24-33.
-
(2007)
Gastroenterology
, vol.133
, pp. 24-33
-
-
Kassinen, A.1
Krogius-Kurikka, L.2
Mäkivuokko, H.3
Rinttilä, T.4
Paulin, L.5
Corander, J.6
Malinen, E.7
Apajalahti, J.8
Palva, A.9
-
18
-
-
4143081458
-
Eggerthella hongkongensis sp. nov. and Eggerthella sinensis sp. nov., two novel Eggerthella species, account for half of the cases of Eggerthella bacteremia
-
Lau, S. K., Woo, P. C., Woo, G. K., Fung, A. M., Wong, M. K., Chan, K. M., Tam, D. M. & Yuen, K. Y. (2004). Eggerthella hongkongensis sp. nov. and Eggerthella sinensis sp. nov., two novel Eggerthella species, account for half of the cases of Eggerthella bacteremia. Diagn Microbiol Infect Dis 49, 255-263.
-
(2004)
Diagn Microbiol Infect Dis
, vol.49
, pp. 255-263
-
-
Lau, S.K.1
Woo, P.C.2
Woo, G.K.3
Fung, A.M.4
Wong, M.K.5
Chan, K.M.6
Tam, D.M.7
Yuen, K.Y.8
-
19
-
-
84871124415
-
A metagenomic insight into our gut's microbiome
-
Lepage, P., Leclerc, M. C., Joossens, M., Mondot, S., Blottiere, H. M., Raes, J., Ehrlich, D. & Dore, J. (2013). A metagenomic insight into our gut's microbiome. Gut 62, 146-158.
-
(2013)
Gut
, vol.62
, pp. 146-158
-
-
Lepage, P.1
Leclerc, M.C.2
Joossens, M.3
Mondot, S.4
Blottiere, H.M.5
Raes, J.6
Ehrlich, D.7
Dore, J.8
-
20
-
-
47049107667
-
Adlercreutzia equolifaciens gen. nov., sp. nov., an equol-producing bacterium isolated from human faeces, and emended description of the genus Eggerthella
-
Maruo, T., Sakamoto, M., Ito, C., Toda, T. & Benno, Y. (2008). Adlercreutzia equolifaciens gen. nov., sp. nov., an equol-producing bacterium isolated from human faeces, and emended description of the genus Eggerthella. Int J Syst Evol Microbiol 58, 1221-1227.
-
(2008)
Int J Syst Evol Microbiol
, vol.58
, pp. 1221-1227
-
-
Maruo, T.1
Sakamoto, M.2
Ito, C.3
Toda, T.4
Benno, Y.5
-
21
-
-
84855565780
-
Daidzein and genistein are converted to equol and 5-hydroxy-equol by human intestinal Slackia isoflavoniconvertens in gnotobiotic rats
-
Matthies, A., Loh, G., Blaut, M. & Braune, A. (2012). Daidzein and genistein are converted to equol and 5-hydroxy-equol by human intestinal Slackia isoflavoniconvertens in gnotobiotic rats. J Nutr 142, 40-46.
-
(2012)
J Nutr
, vol.142
, pp. 40-46
-
-
Matthies, A.1
Loh, G.2
Blaut, M.3
Braune, A.4
-
22
-
-
0000198211
-
Precise measurement of the G+C content of deoxyribonucleic acid by high performance liquid chromatography
-
Mesbah, M., Premachandran, U. & Whitman, W. (1989). Precise measurement of the G+C content of deoxyribonucleic acid by high performance liquid chromatography. Int J Syst Bacteriol 39, 159-167.
-
(1989)
Int J Syst Bacteriol
, vol.39
, pp. 159-167
-
-
Mesbah, M.1
Premachandran, U.2
Whitman, W.3
-
23
-
-
47049093561
-
Asaccharobacter celatus gen. nov., sp. nov., isolated from rat caecum
-
Minamida, K., Ota, K., Nishimukai, M., Tanaka, M., Abe, A., Sone, T., Tomita, F., Hara, H. & Asano, K. (2008). Asaccharobacter celatus gen. nov., sp. nov., isolated from rat caecum. Int J Syst Evol Microbiol 58, 1238-1240.
-
(2008)
Int J Syst Evol Microbiol
, vol.58
, pp. 1238-1240
-
-
Minamida, K.1
Ota, K.2
Nishimukai, M.3
Tanaka, M.4
Abe, A.5
Sone, T.6
Tomita, F.7
Hara, H.8
Asano, K.9
-
24
-
-
77950251400
-
A human gut microbial gene catalogue established by metagenomic sequencing
-
Qin, J., Li, R., Raes, J., Arumugam, M., Burgdorf, K. S., Manichanh, C., Nielsen, T., Pons, N., Levenez, F. & other authors (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
Arumugam, M.4
Burgdorf, K.S.5
Manichanh, C.6
Nielsen, T.7
Pons, N.8
Levenez, F.9
-
25
-
-
33244467651
-
Bile salt biotransformations by human intestinal bacteria
-
Ridlon, J. M., Kang, D. J. & Hylemon, P. B. (2006). Bile salt biotransformations by human intestinal bacteria. J Lipid Res 47, 241-259.
-
(2006)
J Lipid Res
, vol.47
, pp. 241-259
-
-
Ridlon, J.M.1
Kang, D.J.2
Hylemon, P.B.3
-
26
-
-
34249010800
-
The plate debate: Cultivable communities have no utility in contemporary environmental microbial ecology
-
Ritz, K. (2007). The plate debate: cultivable communities have no utility in contemporary environmental microbial ecology. FEMS Microbiol Ecol 60, 358-362.
-
(2007)
FEMS Microbiol Ecol
, vol.60
, pp. 358-362
-
-
Ritz, K.1
-
28
-
-
0023375195
-
The neighbor-joining method: A new method for reconstructing phylogenetic trees
-
Saitou, N. & Nei, M. (1987). The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 4, 406-425.
-
(1987)
Mol Biol Evol
, vol.4
, pp. 406-425
-
-
Saitou, N.1
Nei, M.2
-
29
-
-
3042826875
-
Identification and phylogenetic sorting of bacterial lineages with universally conserved genes and proteins
-
Santos, S. R. & Ochman, H. (2004). Identification and phylogenetic sorting of bacterial lineages with universally conserved genes and proteins. Environ Microbiol 6, 754-759.
-
(2004)
Environ Microbiol
, vol.6
, pp. 754-759
-
-
Santos, S.R.1
Ochman, H.2
-
30
-
-
0021715576
-
Determination of DNA base composition by reversed-phase high-performance liquid chromatography
-
Tamaoka, J. & Komagata, K. (1984). Determination of DNA base composition by reversed-phase high-performance liquid chromatography. FEMS Microbiol Lett 25, 125-128.
-
(1984)
FEMS Microbiol Lett
, vol.25
, pp. 125-128
-
-
Tamaoka, J.1
Komagata, K.2
-
31
-
-
79957613599
-
MEGA5: Molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods
-
Tamura, K., Peterson, D., Peterson, N., Stecher, G., Nei, M. & Kumar, S. (2011). MEGA5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods. Mol Biol Evol 28, 2731-2739.
-
(2011)
Mol Biol Evol
, vol.28
, pp. 2731-2739
-
-
Tamura, K.1
Peterson, D.2
Peterson, N.3
Stecher, G.4
Nei, M.5
Kumar, S.6
-
32
-
-
65949111437
-
Phenotypic characterization and the principles of comparative systematics
-
Edited by C. A. Reddy, T. J. Beveridge, J. A. Breznak, G. Marzluf, T. M. Schmidt & L. R. Snyder. Washington D.C.: American Society for Microbiology
-
Tindall, B. J., Sikorski, J., Smibert, R. M. & Krieg, N. R. (2007). Phenotypic characterization and the principles of comparative systematics. In Methods for General and Molecular Microbiology, pp. 330-393. Edited by C. A. Reddy, T. J. Beveridge, J. A. Breznak, G. Marzluf, T. M. Schmidt & L. R. Snyder. Washington D.C.: American Society for Microbiology.
-
(2007)
In Methods for General and Molecular Microbiology
, pp. 330-393
-
-
Tindall, B.J.1
Sikorski, J.2
Smibert, R.M.3
Krieg, N.R.4
-
33
-
-
33845874101
-
An obesity-associated gut microbiome with increased capacity for energy harvest
-
Turnbaugh, P. J., Ley, R. E., Mahowald, M. A., Magrini, V., Mardis, E. R. & Gordon, J. I. (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
-
34
-
-
61749091265
-
Infrared spectroscopy in the identification of microorganisms
-
Edited by M. Diem, P. R. Griffith & J. M. Chalmers. Chichester: John Wiley & Sons, Ltd
-
Wenning, M., Scherer, S. & Naumann, D. (2008). Infrared spectroscopy in the identification of microorganisms. In Vibrational spectroscopy for medical diagnosis, pp. 71-96. Edited by M. Diem, P. R. Griffith & J. M. Chalmers. Chichester: John Wiley & Sons, Ltd.
-
(2008)
In Vibrational spectroscopy for medical diagnosis
, pp. 71-96
-
-
Wenning, M.1
Scherer, S.2
Naumann, D.3
-
35
-
-
79851513757
-
Depletion of luminal iron alters the gut microbiota and prevents Crohn's diseaselike ileitis
-
Werner, T., Wagner, S. J., Marti{dotless}́nez, I., Walter, J., Chang, J. S., Clavel, T., Kisling, S., Schuemann, K. & Haller, D. (2011). Depletion of luminal iron alters the gut microbiota and prevents Crohn's diseaselike ileitis. Gut 60, 325-333.
-
(2011)
Gut
, vol.60
, pp. 325-333
-
-
Werner, T.1
Wagner, S.J.2
Martínez, I.3
Walter, J.4
Chang, J.S.5
Clavel, T.6
Kisling, S.7
Schuemann, K.8
Haller, D.9
-
36
-
-
67651112070
-
Gordonibacter pamelaeae gen. nov., sp. nov., a new member of the Coriobacteriaceae isolated from a patient with Crohn's disease, and reclassification of Eggerthella hongkongensis Lau et al. 2006 as Paraeggerthella hongkongensis gen. nov., comb. nov
-
Würdemann, D., Tindall, B. J., Pukall, R., Lünsdorf, H., Strömpl, C., Namuth, T., Nahrstedt, H., Wos-Oxley, M., Ott, S. & other authors (2009). Gordonibacter pamelaeae gen. nov., sp. nov., a new member of the Coriobacteriaceae isolated from a patient with Crohn's disease, and reclassification of Eggerthella hongkongensis Lau et al. 2006 as Paraeggerthella hongkongensis gen. nov., comb. nov. Int J Syst Evol Microbiol 59, 1405-1415.
-
(2009)
Int J Syst Evol Microbiol
, vol.59
, pp. 1405-1415
-
-
Würdemann, D.1
Tindall, B.J.2
Pukall, R.3
Lünsdorf, H.4
Strömpl, C.5
Namuth, T.6
Nahrstedt, H.7
Wos-Oxley, M.8
Ott, S.9
-
37
-
-
52149085893
-
The All-Species Living Tree project: A 16S rRNA-based phylogenetic tree of all sequenced type strains
-
Yarza, P., Richter, M., Peplies, J., Euzeby, J., Amann, R., Schleifer, K. H., Ludwig, W., Glöckner, F. O. & Rosselló-Móra, R. (2008). The All-Species Living Tree project: a 16S rRNA-based phylogenetic tree of all sequenced type strains. Syst Appl Microbiol 31, 241-250.
-
(2008)
Syst Appl Microbiol
, vol.31
, pp. 241-250
-
-
Yarza, P.1
Richter, M.2
Peplies, J.3
Euzeby, J.4
Amann, R.5
Schleifer, K.H.6
Ludwig, W.7
Glöckner, F.O.8
Rosselló-Móra, R.9
|