-
1
-
-
19944390941
-
Microevolution and history of the plague bacillus, Yersinia pestis
-
Achtman M., Morelli G., Zhu P., Wirth T., Diehl I., Kusecek B., Vogler A.J., Wagner D.M., Allender C.J., Easterday W.R., Chenal-Francisque V., Worsham P., Thomson N.R., Parkhill J., Lindler L.E., Carniel E., Keim P. Microevolution and history of the plague bacillus, Yersinia pestis. Proc. Natl. Acad. Sci. U. S. A. 2004, 101:17837-17842.
-
(2004)
Proc. Natl. Acad. Sci. U. S. A.
, vol.101
, pp. 17837-17842
-
-
Achtman, M.1
Morelli, G.2
Zhu, P.3
Wirth, T.4
Diehl, I.5
Kusecek, B.6
Vogler, A.J.7
Wagner, D.M.8
Allender, C.J.9
Easterday, W.R.10
Chenal-Francisque, V.11
Worsham, P.12
Thomson, N.R.13
Parkhill, J.14
Lindler, L.E.15
Carniel, E.16
Keim, P.17
-
2
-
-
65549169558
-
The expansion of the microbiological spectrum of brain abscesses with use of multiple 16S ribosomal DNA sequencing
-
Al Masalma M., Armougom F., Scheld W.M., Dufour H., Roche P.-H., Drancourt M., Raoult D. The expansion of the microbiological spectrum of brain abscesses with use of multiple 16S ribosomal DNA sequencing. Clin. Infect. Dis. 2009, 48:1169-1178.
-
(2009)
Clin. Infect. Dis.
, vol.48
, pp. 1169-1178
-
-
Al Masalma, M.1
Armougom, F.2
Scheld, W.M.3
Dufour, H.4
Roche, P.-H.5
Drancourt, M.6
Raoult, D.7
-
3
-
-
79952080610
-
Next generation DNA sequencing and the future of genomic medicine
-
Anderson M.W., Schrijver I. Next generation DNA sequencing and the future of genomic medicine. Genes (Basel) 2010, 1:38-69.
-
(2010)
Genes (Basel)
, vol.1
, pp. 38-69
-
-
Anderson, M.W.1
Schrijver, I.2
-
4
-
-
50949131523
-
Comparative analysis of human gut microbiota by barcoded pyrosequencing
-
Andersson A.F., Lindberg M., Jakobsson H., Bäckhed F., Nyrén P., Engstrand L. Comparative analysis of human gut microbiota by barcoded pyrosequencing. PLoS One 2008, 3:e2836.
-
(2008)
PLoS One
, vol.3
-
-
Andersson, A.F.1
Lindberg, M.2
Jakobsson, H.3
Bäckhed, F.4
Nyrén, P.5
Engstrand, L.6
-
5
-
-
58349108870
-
Use of pyrosequencing and DNA barcodes to monitor variations in Firmicutes and Bacteroidetes communities in the gut microbiota of obese humans
-
Armougom F., Raoult D. Use of pyrosequencing and DNA barcodes to monitor variations in Firmicutes and Bacteroidetes communities in the gut microbiota of obese humans. BMC Genomics 2008, 9:576.
-
(2008)
BMC Genomics
, vol.9
, pp. 576
-
-
Armougom, F.1
Raoult, D.2
-
6
-
-
70349695985
-
Microbial diversity in the sputum of a cystic fibrosis patient studied with 16S rDNA pyrosequencing
-
Armougom F., Bittar F., Stremler N., Rolain J.-M., Robert C., Dubus J.-C., Sarles J., Raoult D., La Scola B. Microbial diversity in the sputum of a cystic fibrosis patient studied with 16S rDNA pyrosequencing. Eur. J. Clin. Microbiol. Infect. Dis. 2009, 28:1151-1154.
-
(2009)
Eur. J. Clin. Microbiol. Infect. Dis.
, vol.28
, pp. 1151-1154
-
-
Armougom, F.1
Bittar, F.2
Stremler, N.3
Rolain, J.-M.4
Robert, C.5
Dubus, J.-C.6
Sarles, J.7
Raoult, D.8
La Scola, B.9
-
7
-
-
85027927719
-
MetaHIT Consortium Enterotypes of the human gut microbiome
-
Arumugam M., Raes J., Pelletier E., Le Paslier D., Yamada T., Mende D.R., Fernandes G.R., Tap J., Bruls T., Batto J.M., Bertalan M., Borruel N., Casellas F., Fernandez L., Gautier L., Hansen T., Hattori M., Hayashi T., Kleerebezem M., Kurokawa K., Leclerc M., Levenez F., Manichanh C., Nielsen H.B., Nielsen T., Pons N., Poulain J., Qin J., Sicheritz-Ponten T., Tims S., Torrents D., Ugarte E., Zoetendal E.G., Wang J., Guarner F., Pedersen O., de Vos W.M., Brunak S., Doré J., MetaHIT Consortium, Antolín M., Artiguenave F., Blottiere H.M., Almeida M., Brechot C., Cara C., Chervaux C., Cultrone A., Delorme C., Denariaz G., Dervyn R., Foerstner K.U., Friss C., van de Guchte M., Guedon E., Haimet F., Huber W., van Hylckama-Vlieg J., Jamet A., Juste C., Kaci G., Knol J., Lakhdari O., Layec S., Le Roux K., Maguin E., Mérieux A., Melo Minardi R., M'rini C., Muller J., Oozeer R., Parkhill J., Renault P., Rescigno M., Sanchez N., Sunagawa S., Torrejon A., Turner K., Vandemeulebrouck G., Varela E., Winogradsky Y., Zeller G., Weissenbach J., Ehrlich S.D., Bork P. Enterotypes of the human gut microbiome. Nature 2011, 473:174-180.
-
(2011)
Nature
, vol.473
, pp. 174-180
-
-
Arumugam, M.1
Raes, J.2
Pelletier, E.3
Le Paslier, D.4
Yamada, T.5
Mende, D.R.6
Fernandes, G.R.7
Tap, J.8
Bruls, T.9
Batto, J.M.10
Bertalan, M.11
Borruel, N.12
Casellas, F.13
Fernandez, L.14
Gautier, L.15
Hansen, T.16
Hattori, M.17
Hayashi, T.18
Kleerebezem, M.19
Kurokawa, K.20
Leclerc, M.21
Levenez, F.22
Manichanh, C.23
Nielsen, H.B.24
Nielsen, T.25
Pons, N.26
Poulain, J.27
Qin, J.28
Sicheritz-Ponten, T.29
Tims, S.30
Torrents, D.31
Ugarte, E.32
Zoetendal, E.G.33
Wang, J.34
Guarner, F.35
Pedersen, O.36
de Vos, W.M.37
Brunak, S.38
Doré, J.39
Antolín, M.40
Artiguenave, F.41
Blottiere, H.M.42
Almeida, M.43
Brechot, C.44
Cara, C.45
Chervaux, C.46
Cultrone, A.47
Delorme, C.48
Denariaz, G.49
Dervyn, R.50
Foerstner, K.U.51
Friss, C.52
van de Guchte, M.53
Guedon, E.54
Haimet, F.55
Huber, W.56
van Hylckama-Vlieg, J.57
Jamet, A.58
Juste, C.59
Kaci, G.60
Knol, J.61
Lakhdari, O.62
Layec, S.63
Le Roux, K.64
Maguin, E.65
Mérieux, A.66
Melo Minardi, R.67
M'rini, C.68
Muller, J.69
Oozeer, R.70
Parkhill, J.71
Renault, P.72
Rescigno, M.73
Sanchez, N.74
Sunagawa, S.75
Torrejon, A.76
Turner, K.77
Vandemeulebrouck, G.78
Varela, E.79
Winogradsky, Y.80
Zeller, G.81
Weissenbach, J.82
Ehrlich, S.D.83
Bork, P.84
more..
-
8
-
-
0037460735
-
Sequencing and analysis of the genome of the Whipple's disease bacterium Tropheryma whipplei
-
Bentley S.D., Maiwald M., Murphy L.D., Pallen M.J., Yeats C.A., Dover L.G., Norbertczak H.T., Besra G.S., Quail M.A., Harris D.E., von Herbay A., Goble A., Rutter S., Squares R., Squares S., Barrell B.G., Parkhill J., Relman D.A. Sequencing and analysis of the genome of the Whipple's disease bacterium Tropheryma whipplei. Lancet 2003, 361:637-644.
-
(2003)
Lancet
, vol.361
, pp. 637-644
-
-
Bentley, S.D.1
Maiwald, M.2
Murphy, L.D.3
Pallen, M.J.4
Yeats, C.A.5
Dover, L.G.6
Norbertczak, H.T.7
Besra, G.S.8
Quail, M.A.9
Harris, D.E.10
von Herbay, A.11
Goble, A.12
Rutter, S.13
Squares, R.14
Squares, S.15
Barrell, B.G.16
Parkhill, J.17
Relman, D.A.18
-
9
-
-
79955611184
-
PhymmBL expanded: confidence scores, custom databases, parallelization and more
-
Brady A., Salzberg S. PhymmBL expanded: confidence scores, custom databases, parallelization and more. Nat. Methods 2011, 8:367.
-
(2011)
Nat. Methods
, vol.8
, pp. 367
-
-
Brady, A.1
Salzberg, S.2
-
10
-
-
49349118069
-
Viral diversity and dynamics in an infant gut
-
Breitbart M., Haynes M., Kelley S., Angly F., Edwards R.A., Felts B., Mahaffy J.M., Mueller J., Nulton J., Rayhawk S., Rodriguez-Brito B., Salamon P., Rohwer F. Viral diversity and dynamics in an infant gut. Res. Microbiol. 2008, 159:367-373.
-
(2008)
Res. Microbiol.
, vol.159
, pp. 367-373
-
-
Breitbart, M.1
Haynes, M.2
Kelley, S.3
Angly, F.4
Edwards, R.A.5
Felts, B.6
Mahaffy, J.M.7
Mueller, J.8
Nulton, J.9
Rayhawk, S.10
Rodriguez-Brito, B.11
Salamon, P.12
Rohwer, F.13
-
11
-
-
4644293305
-
Insights into the evolution of Yersinia pestis through whole-genome comparison with Yersinia pseudotuberculosis
-
Chain P.S.G., Carniel E., Larimer F.W., Lamerdin J., Stoutland P.O., Regala W.M., Georgescu a M., Vergez L.M., Land M.L., Motin V.L., Brubaker R.R., Fowler J., Hinnebusch J., Marceau M., Medigue C., Simonet M., Chenal-Francisque V., Souza B., Dacheux D., Elliott J.M., Derbise A., Hauser L.J., Garcia E. Insights into the evolution of Yersinia pestis through whole-genome comparison with Yersinia pseudotuberculosis. Proc. Natl. Acad. Sci. U. S. A. 2004, 101:13826-13831.
-
(2004)
Proc. Natl. Acad. Sci. U. S. A.
, vol.101
, pp. 13826-13831
-
-
Chain, P.S.G.1
Carniel, E.2
Larimer, F.W.3
Lamerdin, J.4
Stoutland, P.O.5
Regala, W.M.6
Georgescu, A.M.7
Vergez, L.M.8
Land, M.L.9
Motin, V.L.10
Brubaker, R.R.11
Fowler, J.12
Hinnebusch, J.13
Marceau, M.14
Medigue, C.15
Simonet, M.16
Chenal-Francisque, V.17
Souza, B.18
Dacheux, D.19
Elliott, J.M.20
Derbise, A.21
Hauser, L.J.22
Garcia, E.23
more..
-
12
-
-
78650854393
-
The origin of the Haitian cholera outbreak strain
-
Chin C.-S., Sorenson J., Harris J.B., Robins W.P., Charles R.C., Jean-Charles R.R., Bullard J., Webster D.R., Kasarskis A., Peluso P., Paxinos E.E., Yamaichi Y., Calderwood S.B., Mekalanos J.J., Schadt E.E., Waldor M.K. The origin of the Haitian cholera outbreak strain. N. Engl. J. Med. 2011, 364:33-42.
-
(2011)
N. Engl. J. Med.
, vol.364
, pp. 33-42
-
-
Chin, C.-S.1
Sorenson, J.2
Harris, J.B.3
Robins, W.P.4
Charles, R.C.5
Jean-Charles, R.R.6
Bullard, J.7
Webster, D.R.8
Kasarskis, A.9
Peluso, P.10
Paxinos, E.E.11
Yamaichi, Y.12
Calderwood, S.B.13
Mekalanos, J.J.14
Schadt, E.E.15
Waldor, M.K.16
-
13
-
-
84880798154
-
Nonhybrid, finished microbial genome assemblies from long-read SMRT sequencing data
-
Chin C.-S., Alexander D.H., Marks P., Klammer A.a, Drake J., Heiner C., Clum A., Copeland A., Huddleston J., Eichler E.E., Turner S.W., Korlach J. Nonhybrid, finished microbial genome assemblies from long-read SMRT sequencing data. Nat. Methods 2013, 10:563-569.
-
(2013)
Nat. Methods
, vol.10
, pp. 563-569
-
-
Chin, C.-S.1
Alexander, D.H.2
Marks, P.3
Klammer, A.A.4
Drake, J.5
Heiner, C.6
Clum, A.7
Copeland, A.8
Huddleston, J.9
Eichler, E.E.10
Turner, S.W.11
Korlach, J.12
-
14
-
-
84880072834
-
Assembly and annotation of Pneumocystis jirovecii from the human lung microbiome
-
Cushion M.T., Keely S.P. Assembly and annotation of Pneumocystis jirovecii from the human lung microbiome. mBio 2013, 4(2):e00224.
-
(2013)
mBio
, vol.4
, Issue.2
-
-
Cushion, M.T.1
Keely, S.P.2
-
15
-
-
77952260431
-
Legionella pneumophila pangenome reveals strain-specific virulence factors
-
D'Auria G., Jiménez-Hernández N., Peris-Bondia F., Moya A., Latorre A. Legionella pneumophila pangenome reveals strain-specific virulence factors. BMC Genomics 2010, 11:181.
-
(2010)
BMC Genomics
, vol.11
, pp. 181
-
-
D'Auria, G.1
Jiménez-Hernández, N.2
Peris-Bondia, F.3
Moya, A.4
Latorre, A.5
-
16
-
-
84865231395
-
Transforming clinical microbiology with bacterial genome sequencing
-
Didelot X., Bowden R., Wilson D.J., Peto T.E.A., Crook D.W. Transforming clinical microbiology with bacterial genome sequencing. Nat. Rev. Genet. 2012, 13:601-612.
-
(2012)
Nat. Rev. Genet.
, vol.13
, pp. 601-612
-
-
Didelot, X.1
Bowden, R.2
Wilson, D.J.3
Peto, T.E.A.4
Crook, D.W.5
-
17
-
-
84882750416
-
Genomic evolution and transmission of Helicobacter pylori in two South African families
-
Didelot X., Nell S., Yang I., Woltemate S., van der Merwe S., Suerbaum S. Genomic evolution and transmission of Helicobacter pylori in two South African families. Proc. Natl. Acad. Sci. U. S. A. 2013, 110(34):13880-13885.
-
(2013)
Proc. Natl. Acad. Sci. U. S. A.
, vol.110
, Issue.34
, pp. 13880-13885
-
-
Didelot, X.1
Nell, S.2
Yang, I.3
Woltemate, S.4
van der Merwe, S.5
Suerbaum, S.6
-
18
-
-
2442449227
-
Genomic islands in pathogenic and environmental microorganisms
-
Dobrindt U., Hochhut B., Hentschel U., Hacker J. Genomic islands in pathogenic and environmental microorganisms. Nat. Rev. Microbiol. 2004, 2:414-424.
-
(2004)
Nat. Rev. Microbiol.
, vol.2
, pp. 414-424
-
-
Dobrindt, U.1
Hochhut, B.2
Hentschel, U.3
Hacker, J.4
-
19
-
-
4444274596
-
Genotyping, Orientalis-like Yersinia pestis, and plague pandemics
-
Drancourt M., Roux V., Dang L.V., Tran-Hung L., Castex D., Chenal-Francisque V., Ogata H., Fournier P.-E., Crubézy E., Raoult D. Genotyping, Orientalis-like Yersinia pestis, and plague pandemics. Emerg. Infect. Dis. 2004, 10:1585-1592.
-
(2004)
Emerg. Infect. Dis.
, vol.10
, pp. 1585-1592
-
-
Drancourt, M.1
Roux, V.2
Dang, L.V.3
Tran-Hung, L.4
Castex, D.5
Chenal-Francisque, V.6
Ogata, H.7
Fournier, P.-E.8
Crubézy, E.9
Raoult, D.10
-
20
-
-
84870035320
-
Taxonomic binning of metagenome samples generated by next-generation sequencing technologies
-
Dröge J., McHardy A.C. Taxonomic binning of metagenome samples generated by next-generation sequencing technologies. Brief. Bioinform. 2012, 13:646-655.
-
(2012)
Brief. Bioinform.
, vol.13
, pp. 646-655
-
-
Dröge, J.1
McHardy, A.C.2
-
21
-
-
20544444045
-
Diversity of the human intestinal microbial flora
-
Eckburg P.B., Bik E.M., Bernstein C.N., Purdom E., Dethlefsen L., Sargent M., Gill S.R., Nelson K.E., Relman D.A. Diversity of the human intestinal microbial flora. Science 2005, 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
-
22
-
-
79551636592
-
Next-generation sequencing of Coccidioides immitis isolated during cluster investigation
-
Engelthaler D.M., Chiller T., Schupp J.A., Colvin J., Beckstrom-Sternberg S.M., Driebe E.M., Moses T., Tembe W., Sinari S., Beckstrom-Sternberg J.S., Christoforides A., Pearson J.V., Carpten J., Keim P., Peterson A., Terashita D., Balajee S.A. Next-generation sequencing of Coccidioides immitis isolated during cluster investigation. Emerg. Infect. Dis. 2011, 17:227-232.
-
(2011)
Emerg. Infect. Dis.
, vol.17
, pp. 227-232
-
-
Engelthaler, D.M.1
Chiller, T.2
Schupp, J.A.3
Colvin, J.4
Beckstrom-Sternberg, S.M.5
Driebe, E.M.6
Moses, T.7
Tembe, W.8
Sinari, S.9
Beckstrom-Sternberg, J.S.10
Christoforides, A.11
Pearson, J.V.12
Carpten, J.13
Keim, P.14
Peterson, A.15
Terashita, D.16
Balajee, S.A.17
-
23
-
-
84867641601
-
Genome analysis of Legionella pneumophila strains using a mixed-genome microarray
-
Euser S.M., Nagelkerke N.J., Schuren F., Jansen R., Den Boer J.W. Genome analysis of Legionella pneumophila strains using a mixed-genome microarray. PLoS One 2012, 7:e47437.
-
(2012)
PLoS One
, vol.7
-
-
Euser, S.M.1
Nagelkerke, N.J.2
Schuren, F.3
Jansen, R.4
Den Boer, J.W.5
-
24
-
-
84862318037
-
A pilot study of rapid benchtop sequencing of Staphylococcus aureus and Clostridium difficile for outbreak detection and surveillance
-
Eyre D.W., Golubchik T., Gordon N.C., Bowden R., Piazza P., Batty E.M., Ip C.L.C., Wilson D.J., Didelot X., O'Connor L., Lay R., Buck D., Kearns A.M., Shaw A., Paul J., Wilcox M.H., Donnelly P.J., Peto T.E.A., Walker A.S., Crook D.W. A pilot study of rapid benchtop sequencing of Staphylococcus aureus and Clostridium difficile for outbreak detection and surveillance. BMJ Open 2012, 2.
-
(2012)
BMJ Open
, vol.2
-
-
Eyre, D.W.1
Golubchik, T.2
Gordon, N.C.3
Bowden, R.4
Piazza, P.5
Batty, E.M.6
Ip, C.L.C.7
Wilson, D.J.8
Didelot, X.9
O'Connor, L.10
Lay, R.11
Buck, D.12
Kearns, A.M.13
Shaw, A.14
Paul, J.15
Wilcox, M.H.16
Donnelly, P.J.17
Peto, T.E.A.18
Walker, A.S.19
Crook, D.W.20
more..
-
25
-
-
67650739248
-
Resistance to trimethoprim/sulfamethoxazole and Tropheryma whipplei
-
Fenollar F., Rolain J.-M., Alric L., Papo T., Chauveheid M.-P., van de Beek D., Raoult D. Resistance to trimethoprim/sulfamethoxazole and Tropheryma whipplei. Int. J. Antimicrob. Agents 2009, 34:255-259.
-
(2009)
Int. J. Antimicrob. Agents
, vol.34
, pp. 255-259
-
-
Fenollar, F.1
Rolain, J.-M.2
Alric, L.3
Papo, T.4
Chauveheid, M.-P.5
van de Beek, D.6
Raoult, D.7
-
26
-
-
77956057409
-
Pyrosequencing study of fecal microflora of autistic and control children
-
Finegold S.M., Dowd S.E., Gontcharova V., Liu C., Henley K.E., Wolcott R.D., Youn E., Summanen P.H., Granpeesheh D., Dixon D., Liu M., Molitoris D.R., Green J.A. Pyrosequencing study of fecal microflora of autistic and control children. Anaerobe 2010, 16:444-453.
-
(2010)
Anaerobe
, vol.16
, pp. 444-453
-
-
Finegold, S.M.1
Dowd, S.E.2
Gontcharova, V.3
Liu, C.4
Henley, K.E.5
Wolcott, R.D.6
Youn, E.7
Summanen, P.H.8
Granpeesheh, D.9
Dixon, D.10
Liu, M.11
Molitoris, D.R.12
Green, J.A.13
-
27
-
-
0029653518
-
Whole-genome random sequencing and assembly of Haemophilus influenzae Rd
-
Fleischmann R.D., Adams M.D., White O., Clayton R.A., Kirkness E.F., Kerlavage A.R., Bult C.J., Tomb J.F., Dougherty B.A., Merrick J.M. Whole-genome random sequencing and assembly of Haemophilus influenzae Rd. Science 1995, 269:496-512.
-
(1995)
Science
, vol.269
, pp. 496-512
-
-
Fleischmann, R.D.1
Adams, M.D.2
White, O.3
Clayton, R.A.4
Kirkness, E.F.5
Kerlavage, A.R.6
Bult, C.J.7
Tomb, J.F.8
Dougherty, B.A.9
Merrick, J.M.10
-
28
-
-
80053226102
-
Prospects for the future using genomics and proteomics in clinical microbiology
-
Fournier P.E., Raoult D. Prospects for the future using genomics and proteomics in clinical microbiology. Annu. Rev. Microbiol. 2011, 65:169-188.
-
(2011)
Annu. Rev. Microbiol.
, vol.65
, pp. 169-188
-
-
Fournier, P.E.1
Raoult, D.2
-
29
-
-
10844284419
-
Use of highly variable intergenic spacer sequences for multispacer typing of Rickettsia conorii strains
-
Fournier P.E., Zhu Y., Ogata H., Raoult D. Use of highly variable intergenic spacer sequences for multispacer typing of Rickettsia conorii strains. J. Clin. Microbiol. 2004, 42:5757-5766.
-
(2004)
J. Clin. Microbiol.
, vol.42
, pp. 5757-5766
-
-
Fournier, P.E.1
Zhu, Y.2
Ogata, H.3
Raoult, D.4
-
30
-
-
33144490023
-
Comparative genomics of multidrug resistance in Acinetobacter baumannii
-
Fournier P.E., Vallenet D., Barbe V., Audic S., Ogata H., Poirel L., Richet H., Robert C., Mangenot S., Abergel C., Nordmann P., Weissenbach J., Raoult D., Claverie J.-M. Comparative genomics of multidrug resistance in Acinetobacter baumannii. PLoS Genet. 2006, 2:e7.
-
(2006)
PLoS Genet.
, vol.2
-
-
Fournier, P.E.1
Vallenet, D.2
Barbe, V.3
Audic, S.4
Ogata, H.5
Poirel, L.6
Richet, H.7
Robert, C.8
Mangenot, S.9
Abergel, C.10
Nordmann, P.11
Weissenbach, J.12
Raoult, D.13
Claverie, J.-M.14
-
31
-
-
33845707803
-
Proposal to create subspecies of Rickettsia sibirica and an emended description of Rickettsia sibirica
-
Fournier P.E., Zhu Y., Yu X., Raoult D. Proposal to create subspecies of Rickettsia sibirica and an emended description of Rickettsia sibirica. Ann. N. Y. Acad. Sci. 2006, 1078:597-606.
-
(2006)
Ann. N. Y. Acad. Sci.
, vol.1078
, pp. 597-606
-
-
Fournier, P.E.1
Zhu, Y.2
Yu, X.3
Raoult, D.4
-
32
-
-
35349014651
-
Bacterial genome sequencing and its use in infectious diseases
-
Fournier P.E., Drancourt M., Raoult D. Bacterial genome sequencing and its use in infectious diseases. Lancet Infect. Dis. 2007, 7:711-723.
-
(2007)
Lancet Infect. Dis.
, vol.7
, pp. 711-723
-
-
Fournier, P.E.1
Drancourt, M.2
Raoult, D.3
-
33
-
-
84876780058
-
Deciphering genomic virulence traits of a Staphylococcus epidermidis strain causing native-valve endocarditis
-
Fournier P.E., Gouriet F., Gimenez G., Robert C., Raoult D. Deciphering genomic virulence traits of a Staphylococcus epidermidis strain causing native-valve endocarditis. J. Clin. Microbiol. 2013, 51:1617-1621.
-
(2013)
J. Clin. Microbiol.
, vol.51
, pp. 1617-1621
-
-
Fournier, P.E.1
Gouriet, F.2
Gimenez, G.3
Robert, C.4
Raoult, D.5
-
34
-
-
33847305053
-
Molecular analysis of human forearm superficial skin bacterial biota
-
Gao Z., Tseng C.H., Pei Z., Blaser M.J. Molecular analysis of human forearm superficial skin bacterial biota. Proc. Natl. Acad. Sci. U. S. A. 2007, 104:2927-2932.
-
(2007)
Proc. Natl. Acad. Sci. U. S. A.
, vol.104
, pp. 2927-2932
-
-
Gao, Z.1
Tseng, C.H.2
Pei, Z.3
Blaser, M.J.4
-
35
-
-
23944437942
-
Opinion: re-evaluating prokaryotic species
-
Gevers D., Cohan F.M., Lawrence J.G., Spratt B.G., Coenye T., Feil E.J., Stackebrandt E., de Peer Y., Vandamme P., Thompson F.L., Swings J. Opinion: re-evaluating prokaryotic species. Nat. Rev. Microbiol. 2005, 3:733-739.
-
(2005)
Nat. Rev. Microbiol.
, vol.3
, pp. 733-739
-
-
Gevers, D.1
Cohan, F.M.2
Lawrence, J.G.3
Spratt, B.G.4
Coenye, T.5
Feil, E.J.6
Stackebrandt, E.7
de Peer, Y.8
Vandamme, P.9
Thompson, F.L.10
Swings, J.11
-
36
-
-
25844449770
-
Galaxy: a platform for interactive large-scale genome analysis
-
Giardine B., Riemer C., Hardison R.C., Burhans R., Elnitski L., Shah P., Zhang Y., Blankenberg D., Albert I., Taylor J., Miller W., Kent W.J., Nekrutenko A. Galaxy: a platform for interactive large-scale genome analysis. Genome Res. 2005, 15:1451-1455.
-
(2005)
Genome Res.
, vol.15
, pp. 1451-1455
-
-
Giardine, B.1
Riemer, C.2
Hardison, R.C.3
Burhans, R.4
Elnitski, L.5
Shah, P.6
Zhang, Y.7
Blankenberg, D.8
Albert, I.9
Taylor, J.10
Miller, W.11
Kent, W.J.12
Nekrutenko, A.13
-
37
-
-
22944433471
-
Coxiella burnetii genotyping
-
Glazunova O., Roux V., Freylikman O., Sekeyova Z., Fournous G., Tyczka J., Tokarevich N., Kovacava E., Marrie T.J., Raoult D. Coxiella burnetii genotyping. Emerg. Infect. Dis. 2005, 11:1211-1217.
-
(2005)
Emerg. Infect. Dis.
, vol.11
, pp. 1211-1217
-
-
Glazunova, O.1
Roux, V.2
Freylikman, O.3
Sekeyova, Z.4
Fournous, G.5
Tyczka, J.6
Tokarevich, N.7
Kovacava, E.8
Marrie, T.J.9
Raoult, D.10
-
38
-
-
33846555715
-
DNA-DNA hybridization values and their relationship to whole-genome sequence similarities
-
Goris J., Konstantinidis K.T., Klappenbach J.A., Coenye T., Vandamme P., Tiedje J.M. DNA-DNA hybridization values and their relationship to whole-genome sequence similarities. Int. J. Syst. Evol. Microbiol. 2007, 57:81-91.
-
(2007)
Int. J. Syst. Evol. Microbiol.
, vol.57
, pp. 81-91
-
-
Goris, J.1
Konstantinidis, K.T.2
Klappenbach, J.A.3
Coenye, T.4
Vandamme, P.5
Tiedje, J.M.6
-
39
-
-
84857411659
-
Genomic epidemiology of the Escherichia coli O104:H4 outbreaks in Europe, 2011
-
Grad Y.H., Lipsitch M., Feldgarden M., Arachchi H.M., Cerqueira G.C., Fitzgerald M., Godfrey P., Haas B.J., Murphy C.I., Russ C., Sykes S., Walker B.J., Wortman J.R., Young S., Zeng Q., Abouelleil A., Bochicchio J., Chauvin S., Desmet T., Gujja S., McCowan C., Montmayeur A., Steelman S., Frimodt-Møller J., Petersen A.M., Struve C., Krogfelt K.A., Bingen E., Weill F.-X., Lander E.S., Nusbaum C., Birren B.W., Hung D.T., Hanage W.P. Genomic epidemiology of the Escherichia coli O104:H4 outbreaks in Europe, 2011. Proc. Natl. Acad. Sci. U. S. A. 2012, 109:3065-3070.
-
(2012)
Proc. Natl. Acad. Sci. U. S. A.
, vol.109
, pp. 3065-3070
-
-
Grad, Y.H.1
Lipsitch, M.2
Feldgarden, M.3
Arachchi, H.M.4
Cerqueira, G.C.5
Fitzgerald, M.6
Godfrey, P.7
Haas, B.J.8
Murphy, C.I.9
Russ, C.10
Sykes, S.11
Walker, B.J.12
Wortman, J.R.13
Young, S.14
Zeng, Q.15
Abouelleil, A.16
Bochicchio, J.17
Chauvin, S.18
Desmet, T.19
Gujja, S.20
McCowan, C.21
Montmayeur, A.22
Steelman, S.23
Frimodt-Møller, J.24
Petersen, A.M.25
Struve, C.26
Krogfelt, K.A.27
Bingen, E.28
Weill, F.-X.29
Lander, E.S.30
Nusbaum, C.31
Birren, B.W.32
Hung, D.T.33
Hanage, W.P.34
more..
-
40
-
-
84861342868
-
Distinct and complex bacterial profiles in human periodontitis and health revealed by 16S pyrosequencing
-
Griffen A.L., Beall C.J., Campbell J.H., Firestone N.D., Kumar P.S., Yang Z.K., Podar M., Leys E.J. Distinct and complex bacterial profiles in human periodontitis and health revealed by 16S pyrosequencing. ISME J. 2012, 6:1176-1185.
-
(2012)
ISME J.
, vol.6
, pp. 1176-1185
-
-
Griffen, A.L.1
Beall, C.J.2
Campbell, J.H.3
Firestone, N.D.4
Kumar, P.S.5
Yang, Z.K.6
Podar, M.7
Leys, E.J.8
-
41
-
-
75649084906
-
Evolution of MRSA during hospital transmission and intercontinental spread
-
Harris S.R., Feil E.J., Holden M.T.G., Quail M.A., Nickerson E.K., Chantratita N., Gardete S., Tavares A., Day N., Lindsay J.A., Edgeworth J.D., de Lencastre H., Parkhill J., Peacock S.J., Bentley S.D. Evolution of MRSA during hospital transmission and intercontinental spread. Science 2010, 327:469-474.
-
(2010)
Science
, vol.327
, pp. 469-474
-
-
Harris, S.R.1
Feil, E.J.2
Holden, M.T.G.3
Quail, M.A.4
Nickerson, E.K.5
Chantratita, N.6
Gardete, S.7
Tavares, A.8
Day, N.9
Lindsay, J.A.10
Edgeworth, J.D.11
de Lencastre, H.12
Parkhill, J.13
Peacock, S.J.14
Bentley, S.D.15
-
42
-
-
84872515273
-
Whole-genome sequencing for analysis of an outbreak of meticillin-resistant Staphylococcus aureus: a descriptive study
-
Harris S.R., Cartwright E.J.P., Török M.E., Holden M.T.G., Brown N.M., Ogilvy-Stuart A.L., Ellington M.J., Quail M.A., Bentley S.D., Parkhill J., Peacock S.J. Whole-genome sequencing for analysis of an outbreak of meticillin-resistant Staphylococcus aureus: a descriptive study. Lancet Infect. Dis. 2013, 13:130-136.
-
(2013)
Lancet Infect. Dis.
, vol.13
, pp. 130-136
-
-
Harris, S.R.1
Cartwright, E.J.P.2
Török, M.E.3
Holden, M.T.G.4
Brown, N.M.5
Ogilvy-Stuart, A.L.6
Ellington, M.J.7
Quail, M.A.8
Bentley, S.D.9
Parkhill, J.10
Peacock, S.J.11
-
43
-
-
80052597651
-
Population genetics of Vibrio cholerae from Nepal in 2010: evidence on the origin of the Haitian outbreak
-
Hendriksen R.S., Price L.B., Schupp J.M., Gillece J.D., Kaas R.S., Engelthaler D.M., Bortolaia V., Pearson T., Waters A.E., Upadhyay B.P., Shrestha S.D., Adhikari S., Shakya G., Keim P.S., Aarestrup F.M. Population genetics of Vibrio cholerae from Nepal in 2010: evidence on the origin of the Haitian outbreak. mBio 2011, 2:e00157-11.
-
(2011)
mBio
, vol.2
-
-
Hendriksen, R.S.1
Price, L.B.2
Schupp, J.M.3
Gillece, J.D.4
Kaas, R.S.5
Engelthaler, D.M.6
Bortolaia, V.7
Pearson, T.8
Waters, A.E.9
Upadhyay, B.P.10
Shrestha, S.D.11
Adhikari, S.12
Shakya, G.13
Keim, P.S.14
Aarestrup, F.M.15
-
44
-
-
84871688395
-
Extremely drug-resistant Salmonella enterica serovar Senftenberg infections in patients in Zambia
-
Hendriksen R.S., Joensen K.G., Lukwesa-Musyani C., Kalondaa A., Leekitcharoenphon P., Nakazwe R., Aarestrup F.M., Hasman H., Mwansa J.C.L. Extremely drug-resistant Salmonella enterica serovar Senftenberg infections in patients in Zambia. J. Clin. Microbiol. 2013, 51:284-286.
-
(2013)
J. Clin. Microbiol.
, vol.51
, pp. 284-286
-
-
Hendriksen, R.S.1
Joensen, K.G.2
Lukwesa-Musyani, C.3
Kalondaa, A.4
Leekitcharoenphon, P.5
Nakazwe, R.6
Aarestrup, F.M.7
Hasman, H.8
Mwansa, J.C.L.9
-
45
-
-
84864671288
-
Vibrio caribbeanicus sp. nov., isolated from the marine sponge Scleritoderma cyanea
-
Hoffmann M., Monday S.R., Allard M.W., Strain E.A., Whittaker P., Naum M., McCarthy P.J., Lopez J.V., Fischer M., Brown E.W. Vibrio caribbeanicus sp. nov., isolated from the marine sponge Scleritoderma cyanea. Int. J. Syst. Evol. Microbiol. 2012, 62:1736-1743.
-
(2012)
Int. J. Syst. Evol. Microbiol.
, vol.62
, pp. 1736-1743
-
-
Hoffmann, M.1
Monday, S.R.2
Allard, M.W.3
Strain, E.A.4
Whittaker, P.5
Naum, M.6
McCarthy, P.J.7
Lopez, J.V.8
Fischer, M.9
Brown, E.W.10
-
46
-
-
84878312979
-
Non-contiguous finished genome sequence and description of Brevibacillus massiliensis sp. nov
-
(epub)
-
Hugon P., Mishra A.K., Lagier J.C., Nguyen T.T., Couderc C., Raoult D., Fournier P.E. Non-contiguous finished genome sequence and description of Brevibacillus massiliensis sp. nov. Stand. Genom. Sci. 2013, 8. (epub).
-
(2013)
Stand. Genom. Sci.
, vol.8
-
-
Hugon, P.1
Mishra, A.K.2
Lagier, J.C.3
Nguyen, T.T.4
Couderc, C.5
Raoult, D.6
Fournier, P.E.7
-
47
-
-
79952244455
-
Single-nucleotide-polymorphism genotyping of Coxiella burnetii during a Q fever outbreak in The Netherlands
-
Huijsmans C.J.J., Schellekens J.J.a, Wever P.C., Toman R., Savelkoul P.H.M., Janse I., Hermans M.H.a Single-nucleotide-polymorphism genotyping of Coxiella burnetii during a Q fever outbreak in The Netherlands. Appl. Environ. Microbiol. 2011, 77:2051-2057.
-
(2011)
Appl. Environ. Microbiol.
, vol.77
, pp. 2051-2057
-
-
Huijsmans, C.J.J.1
Schellekens, J.J.A.2
Wever, P.C.3
Toman, R.4
Savelkoul, P.H.M.5
Janse, I.6
Hermans, M.H.A.7
-
48
-
-
84870044027
-
Metagenomic analysis: the challenge of the data bonanza
-
Hunter C.I., Mitchell A., Jones P., McAnulla C., Pesseat S., Scheremetjew M., Hunter S. Metagenomic analysis: the challenge of the data bonanza. Brief. Bioinform. 2012, 13:743-746.
-
(2012)
Brief. Bioinform.
, vol.13
, pp. 743-746
-
-
Hunter, C.I.1
Mitchell, A.2
Jones, P.3
McAnulla, C.4
Pesseat, S.5
Scheremetjew, M.6
Hunter, S.7
-
49
-
-
20344371715
-
Microbes on the human vaginal epithelium
-
Hyman R.W., Fukushima M., Diamond L., Kumm J., Giudice L.C., Davis R.W. Microbes on the human vaginal epithelium. Proc. Natl. Acad. Sci. U. S. A. 2005, 102:7952-7957.
-
(2005)
Proc. Natl. Acad. Sci. U. S. A.
, vol.102
, pp. 7952-7957
-
-
Hyman, R.W.1
Fukushima, M.2
Diamond, L.3
Kumm, J.4
Giudice, L.C.5
Davis, R.W.6
-
50
-
-
84870718577
-
Genome sequence of Borrelia afzelii strain HLJ01, isolated from a patient in China
-
Jiang B.-G., Zheng Y.-C., Tong Y.-G., Jia N., Huo Q.-B., Fan H., Cao W.-C. Genome sequence of Borrelia afzelii strain HLJ01, isolated from a patient in China. J. Bacteriol. 2012, 194(24):7014-7015. 10.1128/JB.01863-12.
-
(2012)
J. Bacteriol.
, vol.194
, Issue.24
, pp. 7014-7015
-
-
Jiang, B.-G.1
Zheng, Y.-C.2
Tong, Y.-G.3
Jia, N.4
Huo, Q.-B.5
Fan, H.6
Cao, W.-C.7
-
51
-
-
84864754044
-
Bacterial community shift in treated periodontitis patients revealed by ion torrent 16S rRNA gene amplicon sequencing
-
Jünemann S., Prior K., Szczepanowski R., Harks I., Ehmke B., Goesmann A., Stoye J., Harmsen D. Bacterial community shift in treated periodontitis patients revealed by ion torrent 16S rRNA gene amplicon sequencing. PLoS One 2012, 7:e41606.
-
(2012)
PLoS One
, vol.7
-
-
Jünemann, S.1
Prior, K.2
Szczepanowski, R.3
Harks, I.4
Ehmke, B.5
Goesmann, A.6
Stoye, J.7
Harmsen, D.8
-
52
-
-
84880740910
-
Clinical and molecular epidemiology of community-onset bacteremia caused by extended-spectrum β-lactamase-producing Escherichia coli over a 6-year period
-
Kang C.-I., Cha M.K., Kim S.H., Ko K.S., Wi Y.M., Chung D.R., Peck K.R., Lee N.Y., Song J.-H. Clinical and molecular epidemiology of community-onset bacteremia caused by extended-spectrum β-lactamase-producing Escherichia coli over a 6-year period. J. Korean Med. Sci. 2013, 28:998-1004.
-
(2013)
J. Korean Med. Sci.
, vol.28
, pp. 998-1004
-
-
Kang, C.-I.1
Cha, M.K.2
Kim, S.H.3
Ko, K.S.4
Wi, Y.M.5
Chung, D.R.6
Peck, K.R.7
Lee, N.Y.8
Song, J.-H.9
-
53
-
-
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. The fecal microbiota of irritable bowel syndrome patients differs significantly from that of healthy subjects. Gastroenterology 2007, 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
-
54
-
-
84863403643
-
Complete genome sequence of Mycoplasma pneumoniae type 2a strain 309, isolated in Japan
-
Kenri T., Horino A., Matsui M., Sasaki Y., Suzuki S., Narita M., Shibayama K. Complete genome sequence of Mycoplasma pneumoniae type 2a strain 309, isolated in Japan. J. Bacteriol. 2012, 194(5):1253-1254.
-
(2012)
J. Bacteriol.
, vol.194
, Issue.5
, pp. 1253-1254
-
-
Kenri, T.1
Horino, A.2
Matsui, M.3
Sasaki, Y.4
Suzuki, S.5
Narita, M.6
Shibayama, K.7
-
55
-
-
84872051727
-
Non-contiguous finished genome sequence and description of Brevibacterium senegalense sp. nov
-
Kokcha S., Ramasamy D., Lagier J.C., Robert C., Raoult D., Fournier P.E. Non-contiguous finished genome sequence and description of Brevibacterium senegalense sp. nov. Stand. Genom. Sci. 2012, 7:233-245.
-
(2012)
Stand. Genom. Sci.
, vol.7
, pp. 233-245
-
-
Kokcha, S.1
Ramasamy, D.2
Lagier, J.C.3
Robert, C.4
Raoult, D.5
Fournier, P.E.6
-
56
-
-
14044262978
-
Genomic insights that advance the species definition for prokaryotes
-
Konstantinidis K.T., Tiedje J.M. Genomic insights that advance the species definition for prokaryotes. Proc. Natl. Acad. Sci. U. S. A. 2005, 102:2567-2572.
-
(2005)
Proc. Natl. Acad. Sci. U. S. A.
, vol.102
, pp. 2567-2572
-
-
Konstantinidis, K.T.1
Tiedje, J.M.2
-
57
-
-
84866148001
-
Routine use of microbial whole genome sequencing in diagnostic and public health microbiology
-
Köser C.U., Ellington M.J., Cartwright E.J.P., Gillespie S.H., Brown N.M., Farrington M., Holden M.T.G., Dougan G., Bentley S.D., Parkhill J., Peacock S.J. Routine use of microbial whole genome sequencing in diagnostic and public health microbiology. PloS Pathog. 2012, 8:e1002824.
-
(2012)
PloS Pathog.
, vol.8
-
-
Köser, C.U.1
Ellington, M.J.2
Cartwright, E.J.P.3
Gillespie, S.H.4
Brown, N.M.5
Farrington, M.6
Holden, M.T.G.7
Dougan, G.8
Bentley, S.D.9
Parkhill, J.10
Peacock, S.J.11
-
58
-
-
84862199752
-
Rapid whole-genome sequencing for investigation of a neonatal MRSA outbreak
-
Köser C.U., Holden M.T.G., Ellington M.J., Cartwright E.J.P., Brown N.M., Ogilvy-Stuart A.L., Hsu L.Y., Chewapreecha C., Croucher N.J., Harris S.R., Sanders M., Enright M.C., Dougan G., Bentley S.D., Parkhill J., Fraser L.J., Betley J.R., Schulz-Trieglaff O.B., Smith G.P., Peacock S.J. Rapid whole-genome sequencing for investigation of a neonatal MRSA outbreak. N. Engl. J. Med. 2012, 366:2267-2275.
-
(2012)
N. Engl. J. Med.
, vol.366
, pp. 2267-2275
-
-
Köser, C.U.1
Holden, M.T.G.2
Ellington, M.J.3
Cartwright, E.J.P.4
Brown, N.M.5
Ogilvy-Stuart, A.L.6
Hsu, L.Y.7
Chewapreecha, C.8
Croucher, N.J.9
Harris, S.R.10
Sanders, M.11
Enright, M.C.12
Dougan, G.13
Bentley, S.D.14
Parkhill, J.15
Fraser, L.J.16
Betley, J.R.17
Schulz-Trieglaff, O.B.18
Smith, G.P.19
Peacock, S.J.20
more..
-
59
-
-
84865271516
-
Non-contiguous finished genome sequence and description of Alistipes timonensis sp. nov
-
Lagier J.C., Armougom F., Mishra A.K., Nguyen T.T., Raoult D., Fournier P.E. Non-contiguous finished genome sequence and description of Alistipes timonensis sp. nov. Stand. Genom. Sci. 2012, 6:315-324.
-
(2012)
Stand. Genom. Sci.
, vol.6
, pp. 315-324
-
-
Lagier, J.C.1
Armougom, F.2
Mishra, A.K.3
Nguyen, T.T.4
Raoult, D.5
Fournier, P.E.6
-
60
-
-
84946721396
-
Non-contiguous finished genome sequence and description of Anaerococcus senegalensis sp. nov
-
Lagier J.C., El Karkouri K., Nguyen T.T., Armougom F., Raoult D., Fournier P.E. Non-contiguous finished genome sequence and description of Anaerococcus senegalensis sp. nov. Stand. Genom. Sci. 2012, 6:116-125.
-
(2012)
Stand. Genom. Sci.
, vol.6
, pp. 116-125
-
-
Lagier, J.C.1
El Karkouri, K.2
Nguyen, T.T.3
Armougom, F.4
Raoult, D.5
Fournier, P.E.6
-
61
-
-
84872023569
-
Non-contiguous finished genome sequence and description of Herbaspirillum massiliense sp. nov
-
Lagier J.C., Gimenez G., Robert C., Raoult D., Fournier P.E. Non-contiguous finished genome sequence and description of Herbaspirillum massiliense sp. nov. Stand. Genom. Sci. 2012, 7:200-209.
-
(2012)
Stand. Genom. Sci.
, vol.7
, pp. 200-209
-
-
Lagier, J.C.1
Gimenez, G.2
Robert, C.3
Raoult, D.4
Fournier, P.E.5
-
62
-
-
84878120468
-
Human gut microbiota: repertoire and variations
-
Lagier J.C., Million M.M., Hugon P., Armougom F., Raoult D. Human gut microbiota: repertoire and variations. Front. Cell. Infect. Microbiol. 2012, 2:136.
-
(2012)
Front. Cell. Infect. Microbiol.
, vol.2
, pp. 136
-
-
Lagier, J.C.1
Million, M.M.2
Hugon, P.3
Armougom, F.4
Raoult, D.5
-
63
-
-
77949393654
-
Gut microbiota in human adults with type 2 diabetes differs from non-diabetic adults
-
Larsen N., Vogensen F.K., van den Berg F.W., Nielsen D.S., Andreasen A.S., Pedersen B.K., Al-Soud W.A., Sørensen S.J., Hansen L.H., Jakobsen M. Gut microbiota in human adults with type 2 diabetes differs from non-diabetic adults. PLoS One 2010, 5:e9085.
-
(2010)
PLoS One
, vol.5
-
-
Larsen, N.1
Vogensen, F.K.2
van den Berg, F.W.3
Nielsen, D.S.4
Andreasen, A.S.5
Pedersen, B.K.6
Al-Soud, W.A.7
Sørensen, S.J.8
Hansen, L.H.9
Jakobsen, M.10
-
64
-
-
84864394611
-
Genomic sequencing of uncultured microorganisms from single cells
-
Lasken R.S. Genomic sequencing of uncultured microorganisms from single cells. Nat. Rev. Microbiol. 2012, 10:631-640.
-
(2012)
Nat. Rev. Microbiol.
, vol.10
, pp. 631-640
-
-
Lasken, R.S.1
-
65
-
-
70449530747
-
Metagenomic study of the oral microbiota by Illumina high-throughput sequencing
-
Lazarevic V., Whiteson K., Huse S., Hernandez D., Farinelli L., Osterås M., Schrenzel J., François P. Metagenomic study of the oral microbiota by Illumina high-throughput sequencing. J. Microbiol. Meth. 2009, 79:266-271.
-
(2009)
J. Microbiol. Meth.
, vol.79
, pp. 266-271
-
-
Lazarevic, V.1
Whiteson, K.2
Huse, S.3
Hernandez, D.4
Farinelli, L.5
Osterås, M.6
Schrenzel, J.7
François, P.8
-
66
-
-
84883110880
-
MetaHIT Consortium Richness of human gut microbiome correlates with metabolic markers
-
Chatelier E., Nielsen T., Qin J., Prifti E., Hildebrand F., Falony G., Almeida M., Arumugam M., Batto J.M., Kennedy S., Leonard P., Li J., Burgdorf K., Grarup N., Jørgensen T., Brandslund I., Nielsen H.B., Juncker A.S., Bertalan M., Levenez F., Pons N., Rasmussen S., Sunagawa S., Tap J., Tims S., Zoetendal E.G., Brunak S., Clément K., Doré J., Kleerebezem M., Kristiansen K., Renault P., Sicheritz-Ponten T., de Vos W.M., Zucker J.D., Raes J., Hansen T., MetaHIT consortium, Bork P., Wang J., Ehrlich S.D., Pedersen O., Guedon E., Delorme C., Layec S., Khaci G., van de Guchte M., Vandemeulebrouck G., Jamet A., Dervyn R., Sanchez N., Maguin E., Haimet F., Winogradski Y., Cultrone A., Leclerc M., Juste C., Blottière H., Pelletier E., LePaslier D., Artiguenave F., Bruls T., Weissenbach J., Turner K., Parkhill J., Antolin M., Manichanh C., Casellas F., Boruel N., Varela E., Torrejon A., Guarner F., Denariaz G., Derrien M., van Hylckama Vlieg J.E., Veiga P., Oozeer R., Knol J., Rescigno M., Brechot C., M'Rini C., Mérieux A., Yamada T. Richness of human gut microbiome correlates with metabolic markers. Nature 2013, 500:541-546.
-
(2013)
Nature
, vol.500
, pp. 541-546
-
-
Chatelier, E.1
Nielsen, T.2
Qin, J.3
Prifti, E.4
Hildebrand, F.5
Falony, G.6
Almeida, M.7
Arumugam, M.8
Batto, J.M.9
Kennedy, S.10
Leonard, P.11
Li, J.12
Burgdorf, K.13
Grarup, N.14
Jørgensen, T.15
Brandslund, I.16
Nielsen, H.B.17
Juncker, A.S.18
Bertalan, M.19
Levenez, F.20
Pons, N.21
Rasmussen, S.22
Sunagawa, S.23
Tap, J.24
Tims, S.25
Zoetendal, E.G.26
Brunak, S.27
Clément, K.28
Doré, J.29
Kleerebezem, M.30
Kristiansen, K.31
Renault, P.32
Sicheritz-Ponten, T.33
Vos, W.M.34
Zucker, J.D.35
Raes, J.36
Hansen, T.37
Bork, P.38
Wang, J.39
Ehrlich, S.D.40
Pedersen, O.41
Guedon, E.42
Delorme, C.43
Layec, S.44
Khaci, G.45
van de Guchte, M.46
Vandemeulebrouck, G.47
Jamet, A.48
Dervyn, R.49
Sanchez, N.50
Maguin, E.51
Haimet, F.52
Winogradski, Y.53
Cultrone, A.54
Leclerc, M.55
Juste, C.56
Blottière, H.57
Pelletier, E.58
LePaslier, D.59
Artiguenave, F.60
Bruls, T.61
Weissenbach, J.62
Turner, K.63
Parkhill, J.64
Antolin, M.65
Manichanh, C.66
Casellas, F.67
Boruel, N.68
Varela, E.69
Torrejon, A.70
Guarner, F.71
Denariaz, G.72
Derrien, M.73
van Hylckama Vlieg, J.E.74
Veiga, P.75
Oozeer, R.76
Knol, J.77
Rescigno, M.78
Brechot, C.79
Rini, C.80
Mérieux, A.81
Yamada, T.82
more..
-
67
-
-
33845901507
-
Microbial ecology: human gut microbes associated with obesity
-
Ley R.E., Turnbaugh P.J., Klein S., Gordon J.I. Microbial ecology: human gut microbes associated with obesity. Nature 2006, 444:1022-1023.
-
(2006)
Nature
, vol.444
, pp. 1022-1023
-
-
Ley, R.E.1
Turnbaugh, P.J.2
Klein, S.3
Gordon, J.I.4
-
69
-
-
84864920004
-
Comparison of next-generation sequencing systems
-
Liu L., Li Y., Li S., Hu N., He Y., Pong R., Lin D., Lu L., Law M. Comparison of next-generation sequencing systems. J. Biomed. Biotechnol. 2012, 2012:251364.
-
(2012)
J. Biomed. Biotechnol.
, vol.2012
, pp. 251364
-
-
Liu, L.1
Li, Y.2
Li, S.3
Hu, N.4
He, Y.5
Pong, R.6
Lin, D.7
Lu, L.8
Law, M.9
-
70
-
-
34247601641
-
Defining genomic islands and uropathogen-specific genes in uropathogenic Escherichia coli
-
Lloyd A.L., Rasko D.A., Mobley H.L.T. Defining genomic islands and uropathogen-specific genes in uropathogenic Escherichia coli. J. Bacteriol. 2007, 189:3532-3546.
-
(2007)
J. Bacteriol.
, vol.189
, pp. 3532-3546
-
-
Lloyd, A.L.1
Rasko, D.A.2
Mobley, H.L.T.3
-
71
-
-
84874041126
-
Dehalococcoides mccartyi gen. nov., sp. nov., obligately organohalide-respiring anaerobic bacteria relevant to halogen cycling and bioremediation, belong to a novel bacterial class, Dehalococcoidia classis nov., order Dehalococcoidales ord. nov. and family Dehalococcoidaceae fam. nov., within the phylum Chloroflexi
-
Löffler F.E., Yan J., Ritalahti K.M., Adrian L., Edwards E.A., Konstantinidis K.T., Müller J.A., Fullerton H., Zinder S.H., Spormann A.M. Dehalococcoides mccartyi gen. nov., sp. nov., obligately organohalide-respiring anaerobic bacteria relevant to halogen cycling and bioremediation, belong to a novel bacterial class, Dehalococcoidia classis nov., order Dehalococcoidales ord. nov. and family Dehalococcoidaceae fam. nov., within the phylum Chloroflexi. Int. J. Syst. Evol. Microbiol. 2013, 63:625-635.
-
(2013)
Int. J. Syst. Evol. Microbiol.
, vol.63
, pp. 625-635
-
-
Löffler, F.E.1
Yan, J.2
Ritalahti, K.M.3
Adrian, L.4
Edwards, E.A.5
Konstantinidis, K.T.6
Müller, J.A.7
Fullerton, H.8
Zinder, S.H.9
Spormann, A.M.10
-
72
-
-
84865285541
-
Environmental microbiology through the lens of high-throughput DNA sequencing: synopsis of current platforms and bioinformatics approaches
-
Logares R., Haverkamp T.H.A., Kumar S., Lanzén A., Nederbragt A.J., Quince C., Kauserud H. Environmental microbiology through the lens of high-throughput DNA sequencing: synopsis of current platforms and bioinformatics approaches. J. Microbiol. Meth. 2012, 91:106-113.
-
(2012)
J. Microbiol. Meth.
, vol.91
, pp. 106-113
-
-
Logares, R.1
Haverkamp, T.H.A.2
Kumar, S.3
Lanzén, A.4
Nederbragt, A.J.5
Quince, C.6
Kauserud, H.7
-
73
-
-
84860756398
-
Performance comparison of benchtop high-throughput sequencing platforms
-
Loman N.J., Misra R.V., Dallman T.J., Constantinidou C., Gharbia S.E., Wain J., Pallen M.J. Performance comparison of benchtop high-throughput sequencing platforms. Nat. Biotechnol. 2012, 30:434-439.
-
(2012)
Nat. Biotechnol.
, vol.30
, pp. 434-439
-
-
Loman, N.J.1
Misra, R.V.2
Dallman, T.J.3
Constantinidou, C.4
Gharbia, S.E.5
Wain, J.6
Pallen, M.J.7
-
74
-
-
84875921666
-
A culture-independent sequence-based metagenomics approach to the investigation of an outbreak of Shiga-toxigenic Escherichia coli O104:H4
-
Loman N.J., Constantinidou C., Christner M., Rohde H., Chan J.Z.-M., Quick J., Weir J.C., Quince C., Smith G.P., Betley J.R., Aepfelbacher M., Pallen M.J. A culture-independent sequence-based metagenomics approach to the investigation of an outbreak of Shiga-toxigenic Escherichia coli O104:H4. JAMA 2013, 309:1502-1510.
-
(2013)
JAMA
, vol.309
, pp. 1502-1510
-
-
Loman, N.J.1
Constantinidou, C.2
Christner, M.3
Rohde, H.4
Chan, J.Z.-M.5
Quick, J.6
Weir, J.C.7
Quince, C.8
Smith, G.P.9
Betley, J.R.10
Aepfelbacher, M.11
Pallen, M.J.12
-
75
-
-
84857089823
-
Characterization of the viral microbiome in patients with severe lower respiratory tract infections, using metagenomic sequencing
-
Lysholm F., Wetterbom A., Lindau C., Darban H., Bjerkner A., Fahlander K., Lindberg A.M., Persson B., Allander T., Andersson B. Characterization of the viral microbiome in patients with severe lower respiratory tract infections, using metagenomic sequencing. PLoS One 2012, 7:e30875.
-
(2012)
PLoS One
, vol.7
-
-
Lysholm, F.1
Wetterbom, A.2
Lindau, C.3
Darban, H.4
Bjerkner, A.5
Fahlander, K.6
Lindberg, A.M.7
Persson, B.8
Allander, T.9
Andersson, B.10
-
76
-
-
13144252236
-
Multilocus sequence typing: a portable approach to the identification of clones within populations of pathogenic microorganisms
-
Maiden M.C., Bygraves J.A., Feil E., Morelli G., Russell J.E., Urwin R., Zhang Q., Zhou J., Zurth K., Caugant D.A., Feavers I.M., Achtman M., Spratt B.G. Multilocus sequence typing: a portable approach to the identification of clones within populations of pathogenic microorganisms. Proc. Natl. Acad. Sci. U. S. A. 1998, 95:3140-3145.
-
(1998)
Proc. Natl. Acad. Sci. U. S. A.
, vol.95
, pp. 3140-3145
-
-
Maiden, M.C.1
Bygraves, J.A.2
Feil, E.3
Morelli, G.4
Russell, J.E.5
Urwin, R.6
Zhang, Q.7
Zhou, J.8
Zurth, K.9
Caugant, D.A.10
Feavers, I.M.11
Achtman, M.12
Spratt, B.G.13
-
77
-
-
21644481459
-
Identification of a universal Group B Streptococcus vaccine by multiple genome screen
-
Maione D., Margarit I., Rinaudo C.D., Masignani V., Mora M., Scarselli M., Tettelin H., Brettoni C., Iacobini E.T., Rosini R., D'Agostino N., Miorin L., Buccato S., Mariani M., Galli G., Nogarotto R., Nardi-Dei V., Nardi Dei V., Vegni F., Fraser C., Mancuso G., Teti G., Madoff L.C., Paoletti L.C., Rappuoli R., Kasper D.L., Telford J.L., Grandi G. Identification of a universal Group B Streptococcus vaccine by multiple genome screen. Science 2005, 309:148-150.
-
(2005)
Science
, vol.309
, pp. 148-150
-
-
Maione, D.1
Margarit, I.2
Rinaudo, C.D.3
Masignani, V.4
Mora, M.5
Scarselli, M.6
Tettelin, H.7
Brettoni, C.8
Iacobini, E.T.9
Rosini, R.10
D'Agostino, N.11
Miorin, L.12
Buccato, S.13
Mariani, M.14
Galli, G.15
Nogarotto, R.16
Nardi-Dei, V.17
Nardi Dei, V.18
Vegni, F.19
Fraser, C.20
Mancuso, G.21
Teti, G.22
Madoff, L.C.23
Paoletti, L.C.24
Rappuoli, R.25
Kasper, D.L.26
Telford, J.L.27
Grandi, G.28
more..
-
79
-
-
84870020971
-
Classification of metagenomic sequences: methods and challenges
-
Mande S.S., Mohammed M.H., Ghosh T.S. Classification of metagenomic sequences: methods and challenges. Brief. Bioinform. 2012, 13:669-681.
-
(2012)
Brief. Bioinform.
, vol.13
, pp. 669-681
-
-
Mande, S.S.1
Mohammed, M.H.2
Ghosh, T.S.3
-
80
-
-
30944466824
-
Reduced diversity of faecal microbiota in Crohn's disease revealed by a metagenomic approach
-
Manichanh C., Rigottier-Gois L., Bonnaud E., Gloux K., Pelletier E., Frangeul L., Nalin R., Jarrin C., Chardon P., Marteau P., Roca J., Dore J. Reduced diversity of faecal microbiota in Crohn's disease revealed by a metagenomic approach. Gut 2006, 55:205-211.
-
(2006)
Gut
, vol.55
, pp. 205-211
-
-
Manichanh, C.1
Rigottier-Gois, L.2
Bonnaud, E.3
Gloux, K.4
Pelletier, E.5
Frangeul, L.6
Nalin, R.7
Jarrin, C.8
Chardon, P.9
Marteau, P.10
Roca, J.11
Dore, J.12
-
81
-
-
84997206942
-
Whole-genome sequence of the microcin E492-producing strain Klebsiella pneumoniae RYC492
-
Marcoleta A., Gutiérrez-Cortez S., Maturana D., Monasterio O., Lagos R. Whole-genome sequence of the microcin E492-producing strain Klebsiella pneumoniae RYC492. Genome Announc. 2013, 1(3). 10.1128/genomeA.00178-13.
-
(2013)
Genome Announc.
, vol.1
, Issue.3
-
-
Marcoleta, A.1
Gutiérrez-Cortez, S.2
Maturana, D.3
Monasterio, O.4
Lagos, R.5
-
82
-
-
34249943969
-
Microbial genome data resources
-
Markowitz V.M. Microbial genome data resources. Curr. Opin. Biotechnol. 2007, 18:267-272.
-
(2007)
Curr. Opin. Biotechnol.
, vol.18
, pp. 267-272
-
-
Markowitz, V.M.1
-
83
-
-
84877126520
-
Genome of the pathogen Porphyromonas gingivalis recovered from a biofilm in a hospital sink using a high-throughput single-cell genomics platform
-
McLean J.S., Lombardo M.-J., Ziegler M.G., Novotny M., Yee-Greenbaum J., Badger J.H., Tesler G., Nurk S., Lesin V., Brami D., Hall A.P., Edlund A., Allen L.Z., Durkin S., Reed S., Torriani F., Nealson K.H., Pevzner P.A., Friedman R., Venter J.C., Lasken R.S. Genome of the pathogen Porphyromonas gingivalis recovered from a biofilm in a hospital sink using a high-throughput single-cell genomics platform. Genome Res. 2013, 23:867-877.
-
(2013)
Genome Res.
, vol.23
, pp. 867-877
-
-
McLean, J.S.1
Lombardo, M.-J.2
Ziegler, M.G.3
Novotny, M.4
Yee-Greenbaum, J.5
Badger, J.H.6
Tesler, G.7
Nurk, S.8
Lesin, V.9
Brami, D.10
Hall, A.P.11
Edlund, A.12
Allen, L.Z.13
Durkin, S.14
Reed, S.15
Torriani, F.16
Nealson, K.H.17
Pevzner, P.A.18
Friedman, R.19
Venter, J.C.20
Lasken, R.S.21
more..
-
84
-
-
43849099955
-
Microbiology in the post-genomic era
-
Medini D., Serruto D., Parkhill J., Relman D.A., Donati C., Moxon R., Falkow S., Rappuoli R. Microbiology in the post-genomic era. Nat. Rev. Microbiol. 2008, 6:419-430.
-
(2008)
Nat. Rev. Microbiol.
, vol.6
, pp. 419-430
-
-
Medini, D.1
Serruto, D.2
Parkhill, J.3
Relman, D.A.4
Donati, C.5
Moxon, R.6
Falkow, S.7
Rappuoli, R.8
-
85
-
-
34848896415
-
Francisella philomiragia subsp. noatunensis subsp. nov., isolated from farmed Atlantic cod (Gadus morhua L.)
-
Mikalsen J., Olsen A.B., Tengs T., Colquhoun D.J. Francisella philomiragia subsp. noatunensis subsp. nov., isolated from farmed Atlantic cod (Gadus morhua L.). Int. J. Syst. Evol. Microbiol. 2007, 57:1960-1965.
-
(2007)
Int. J. Syst. Evol. Microbiol.
, vol.57
, pp. 1960-1965
-
-
Mikalsen, J.1
Olsen, A.B.2
Tengs, T.3
Colquhoun, D.J.4
-
86
-
-
80053528043
-
The human gut virome: inter-individual variation and dynamic response to diet
-
Minot S., Sinha R., Chen J., Li H., Keilbaugh S.A., Wu G.D., Lewis J.D., Bushman F.D. The human gut virome: inter-individual variation and dynamic response to diet. Genome Res. 2011, 21:1616-1625.
-
(2011)
Genome Res.
, vol.21
, pp. 1616-1625
-
-
Minot, S.1
Sinha, R.2
Chen, J.3
Li, H.4
Keilbaugh, S.A.5
Wu, G.D.6
Lewis, J.D.7
Bushman, F.D.8
-
87
-
-
79251574138
-
The bacterial pan-genome:a new paradigm in microbiology
-
Mira A., Martín-Cuadrado A.B., D'Auria G., Rodríguez-Valera F. The bacterial pan-genome:a new paradigm in microbiology. Int. Microbiol. 2010, 13:45-57.
-
(2010)
Int. Microbiol.
, vol.13
, pp. 45-57
-
-
Mira, A.1
Martín-Cuadrado, A.B.2
D'Auria, G.3
Rodríguez-Valera, F.4
-
88
-
-
78650538995
-
SPHINX - an algorithm for taxonomic binning of metagenomic sequences
-
Mohammed M.H., Ghosh T.S., Singh N.K., Mande S.S. SPHINX - an algorithm for taxonomic binning of metagenomic sequences. Bioinformatics 2011, 27:22-30.
-
(2011)
Bioinformatics
, vol.27
, pp. 22-30
-
-
Mohammed, M.H.1
Ghosh, T.S.2
Singh, N.K.3
Mande, S.S.4
-
89
-
-
0038542877
-
Reverse vaccinology
-
Mora M., Veggi D., Santini L., Pizza M., Rappuoli R. Reverse vaccinology. Drug Discov. Today 2003, 8:459-464.
-
(2003)
Drug Discov. Today
, vol.8
, pp. 459-464
-
-
Mora, M.1
Veggi, D.2
Santini, L.3
Pizza, M.4
Rappuoli, R.5
-
90
-
-
77952692819
-
Identification of protective and broadly conserved vaccine antigens from the genome of extraintestinal pathogenic Escherichia coli
-
Moriel D.G., Bertoldi I., Spagnuolo A., Marchi S., Rosini R., Nesta B., Pastorello I., Corea V.a M., Torricelli G., Cartocci E., Savino S., Scarselli M., Dobrindt U., Hacker J., Tettelin H., Tallon L.J., Sullivan S., Wieler L.H., Ewers C., Pickard D., Dougan G., Fontana M.R., Rappuoli R., Pizza M., Serino L. Identification of protective and broadly conserved vaccine antigens from the genome of extraintestinal pathogenic Escherichia coli. Proc. Natl. Acad. Sci. U. S. A. 2010, 107:9072-9077.
-
(2010)
Proc. Natl. Acad. Sci. U. S. A.
, vol.107
, pp. 9072-9077
-
-
Moriel, D.G.1
Bertoldi, I.2
Spagnuolo, A.3
Marchi, S.4
Rosini, R.5
Nesta, B.6
Pastorello, I.7
Corea, V.A.M.8
Torricelli, G.9
Cartocci, E.10
Savino, S.11
Scarselli, M.12
Dobrindt, U.13
Hacker, J.14
Tettelin, H.15
Tallon, L.J.16
Sullivan, S.17
Wieler, L.H.18
Ewers, C.19
Pickard, D.20
Dougan, G.21
Fontana, M.R.22
Rappuoli, R.23
Pizza, M.24
Serino, L.25
more..
-
91
-
-
0023461268
-
Specific synthesis of DNA in vitro via a polymerase-catalyzed chain reaction
-
Mullis K.B., Faloona F.A. Specific synthesis of DNA in vitro via a polymerase-catalyzed chain reaction. Methods Enzymol. 1987, 155:335-350.
-
(1987)
Methods Enzymol.
, vol.155
, pp. 335-350
-
-
Mullis, K.B.1
Faloona, F.A.2
-
92
-
-
84874194145
-
Sequence assembly demystified
-
Nagarajan N., Pop M. Sequence assembly demystified. Nat. Rev. Genet. 2013, 14:157-167.
-
(2013)
Nat. Rev. Genet.
, vol.14
, pp. 157-167
-
-
Nagarajan, N.1
Pop, M.2
-
93
-
-
84863752379
-
Axenic growth of Coxiella burnetii
-
Omsland A. Axenic growth of Coxiella burnetii. Adv. Exp. Med. Biol. 2012, 984:215-229.
-
(2012)
Adv. Exp. Med. Biol.
, vol.984
, pp. 215-229
-
-
Omsland, A.1
-
94
-
-
78751570979
-
RNA sequencing: advances, challenges and opportunities
-
Ozsolak F., Milos P.M. RNA sequencing: advances, challenges and opportunities. Nat. Rev. Genet. 2011, 12:87-98.
-
(2011)
Nat. Rev. Genet.
, vol.12
, pp. 87-98
-
-
Ozsolak, F.1
Milos, P.M.2
-
95
-
-
84884740604
-
Emergence of a multidrug-resistant (ASSuTTm) strain of Salmonella enterica Serovar Typhimurium DT120 in England in 2011 and the use of multiple-locus variable-number tandem-repeat analysis in supporting outbreak investigations
-
Paranthaman K., Haroon S., Latif S., Vinnyey N., de Souza V., Welfare W., Tahir M., Cooke E., Stone K., Lane C., Peters T., Puleston R. Emergence of a multidrug-resistant (ASSuTTm) strain of Salmonella enterica Serovar Typhimurium DT120 in England in 2011 and the use of multiple-locus variable-number tandem-repeat analysis in supporting outbreak investigations. Foodborne Pathog. Dis. 2013, 10:850-855.
-
(2013)
Foodborne Pathog. Dis.
, vol.10
, pp. 850-855
-
-
Paranthaman, K.1
Haroon, S.2
Latif, S.3
Vinnyey, N.4
de Souza, V.5
Welfare, W.6
Tahir, M.7
Cooke, E.8
Stone, K.9
Lane, C.10
Peters, T.11
Puleston, R.12
-
97
-
-
0035945586
-
Genome sequence of enterohaemorrhagic Escherichia coli O157:H7
-
Perna N.T., Plunkett G., Burland V., Mau B., Glasner J.D., Rose D.J., Mayhew G.F., Evans P.S., Gregor J., Kirkpatrick H.a, Pósfai G., Hackett J., Klink S., Boutin A., Shao Y., Miller L., Grotbeck E.J., Davis N.W., Lim A., Dimalanta E.T., Potamousis K.D., Apodaca J., Anantharaman T.S., Lin J., Yen G., Schwartz D.C., Welch R.a, Blattner F.R. Genome sequence of enterohaemorrhagic Escherichia coli O157:H7. Nature 2001, 409:529-533.
-
(2001)
Nature
, vol.409
, pp. 529-533
-
-
Perna, N.T.1
Plunkett, G.2
Burland, V.3
Mau, B.4
Glasner, J.D.5
Rose, D.J.6
Mayhew, G.F.7
Evans, P.S.8
Gregor, J.9
Kirkpatrick, H.A.10
Pósfai, G.11
Hackett, J.12
Klink, S.13
Boutin, A.14
Shao, Y.15
Miller, L.16
Grotbeck, E.J.17
Davis, N.W.18
Lim, A.19
Dimalanta, E.T.20
Potamousis, K.D.21
Apodaca, J.22
Anantharaman, T.S.23
Lin, J.24
Yen, G.25
Schwartz, D.C.26
Welch, R.A.27
Blattner, F.R.28
more..
-
98
-
-
70449432929
-
Efficient oligonucleotide probe selection for pan-genomic tiling arrays
-
Phillippy A.M., Deng X., Zhang W., Salzberg S.L. Efficient oligonucleotide probe selection for pan-genomic tiling arrays. BMC Bioinformatics 2009, 10:293.
-
(2009)
BMC Bioinformatics
, vol.10
, pp. 293
-
-
Phillippy, A.M.1
Deng, X.2
Zhang, W.3
Salzberg, S.L.4
-
99
-
-
77949422096
-
Geobacter daltonii sp. nov., an Fe(III)- and uranium(VI)-reducing bacterium isolated from a shallow subsurface exposed to mixed heavy metal and hydrocarbon contamination
-
Prakash O., Gihring T.M., Dalton D.D., Chin K.J., Green S.J., Akob D.M., Wanger G., Kostka J.E. Geobacter daltonii sp. nov., an Fe(III)- and uranium(VI)-reducing bacterium isolated from a shallow subsurface exposed to mixed heavy metal and hydrocarbon contamination. Int. J. Syst. Evol. Microbiol. 2010, 60:546-553.
-
(2010)
Int. J. Syst. Evol. Microbiol.
, vol.60
, pp. 546-553
-
-
Prakash, O.1
Gihring, T.M.2
Dalton, D.D.3
Chin, K.J.4
Green, S.J.5
Akob, D.M.6
Wanger, G.7
Kostka, J.E.8
-
100
-
-
84897964236
-
Colonic mucosa-associated diffusely adherent afaC+Escherichia coli expressing lpfA and pks are increased in inflammatory bowel disease and colon cancer
-
Prorok-Hamon M., Friswell M.K., Alswied A., Roberts C.L., Song F., Flanagan P.K., Campbell B.J. Colonic mucosa-associated diffusely adherent afaC+Escherichia coli expressing lpfA and pks are increased in inflammatory bowel disease and colon cancer. Gut 2013, 10.1136/gutjnl-2013-304739.
-
(2013)
Gut
-
-
Prorok-Hamon, M.1
Friswell, M.K.2
Alswied, A.3
Roberts, C.L.4
Song, F.5
Flanagan, P.K.6
Campbell, B.J.7
-
101
-
-
77950251400
-
A human gut microbial gene catalogue established by metagenomic sequencing
-
Qin J., Li R., Raes J., Arumugam M., Burgdorf K.S., et al. A human gut microbial gene catalogue established by metagenomic sequencing. Nature 2010, 464:59-65.
-
(2010)
Nature
, vol.464
, pp. 59-65
-
-
Qin, J.1
Li, R.2
Raes, J.3
Arumugam, M.4
Burgdorf, K.S.5
-
102
-
-
0043026766
-
Tropheryma whipplei twist: a human pathogenic actinobacteria with a reduced genome
-
Raoult D., Ogata H., Audic S., Robert C., Suhre K., Drancourt M., Claverie J.-M. Tropheryma whipplei twist: a human pathogenic actinobacteria with a reduced genome. Genome Res. 2003, 13:1800-1809.
-
(2003)
Genome Res.
, vol.13
, pp. 1800-1809
-
-
Raoult, D.1
Ogata, H.2
Audic, S.3
Robert, C.4
Suhre, K.5
Drancourt, M.6
Claverie, J.-M.7
-
103
-
-
79951504280
-
Novel multiplex real-time PCR diagnostic assay for identification and differentiation of Mycobacterium tuberculosis, Mycobacterium canettii, and Mycobacterium tuberculosis complex strains
-
Reddington K., O'Grady J., Dorai-Raj S., Maher M., van Soolingen D., Barry T. Novel multiplex real-time PCR diagnostic assay for identification and differentiation of Mycobacterium tuberculosis, Mycobacterium canettii, and Mycobacterium tuberculosis complex strains. J. Clin. Microbiol. 2011, 49:651-657.
-
(2011)
J. Clin. Microbiol.
, vol.49
, pp. 651-657
-
-
Reddington, K.1
O'Grady, J.2
Dorai-Raj, S.3
Maher, M.4
van Soolingen, D.5
Barry, T.6
-
104
-
-
84875965874
-
Metagenomics, infectious disease diagnostics, and outbreak investigations: sequence first, ask questions later?
-
Relman D.A. Metagenomics, infectious disease diagnostics, and outbreak investigations: sequence first, ask questions later?. JAMA 2013, 309:1531-1532.
-
(2013)
JAMA
, vol.309
, pp. 1531-1532
-
-
Relman, D.A.1
-
105
-
-
0043237947
-
Genome-based design of a cell-free culture medium for Tropheryma whipplei
-
Renesto P., Crapoulet N., Ogata H., La Scola B., Vestris G., Claverie J.-M., Raoult D. Genome-based design of a cell-free culture medium for Tropheryma whipplei. Lancet 2003, 362:447-449.
-
(2003)
Lancet
, vol.362
, pp. 447-449
-
-
Renesto, P.1
Crapoulet, N.2
Ogata, H.3
La Scola, B.4
Vestris, G.5
Claverie, J.-M.6
Raoult, D.7
-
106
-
-
84882363354
-
Cefazolin high-inoculum effect in methicillin-susceptible Staphylococcus aureus from South American hospitals
-
Rincón S., Reyes J., Carvajal L.P., Rojas N., Cortés F., Panesso D., Guzmán M., Zurita J., Adachi J.A., Murray B.E., Nannini E.C., Arias C.A. Cefazolin high-inoculum effect in methicillin-susceptible Staphylococcus aureus from South American hospitals. J. Antimicrob. Chemother. 2013, 68:2773-2778.
-
(2013)
J. Antimicrob. Chemother.
, vol.68
, pp. 2773-2778
-
-
Rincón, S.1
Reyes, J.2
Carvajal, L.P.3
Rojas, N.4
Cortés, F.5
Panesso, D.6
Guzmán, M.7
Zurita, J.8
Adachi, J.A.9
Murray, B.E.10
Nannini, E.C.11
Arias, C.A.12
-
107
-
-
84855727011
-
Sphaerochaeta globosa gen. nov., sp. nov. and Sphaerochaeta pleomorpha sp. nov., free-living, spherical spirochaetes
-
Ritalahti K.M., Justicia-Leon S.D., Cusick K.D., Ramos-Hernandez N., Rubin M., Dornbush J., Löffler F.E. Sphaerochaeta globosa gen. nov., sp. nov. and Sphaerochaeta pleomorpha sp. nov., free-living, spherical spirochaetes. Int. J. Syst. Evol. Microbiol. 2012, 62:210-216.
-
(2012)
Int. J. Syst. Evol. Microbiol.
, vol.62
, pp. 210-216
-
-
Ritalahti, K.M.1
Justicia-Leon, S.D.2
Cusick, K.D.3
Ramos-Hernandez, N.4
Rubin, M.5
Dornbush, J.6
Löffler, F.E.7
-
108
-
-
84874469388
-
Whole genome sequencing versus traditional genotyping for investigation of a Mycobacterium tuberculosis outbreak: a longitudinal molecular epidemiological study
-
Roetzer A., Diel R., Kohl T.A., Rückert C., Nübel U., Blom J., Wirth T., Jaenicke S., Schuback S., Rüsch-Gerdes S., Supply P., Kalinowski J., Niemann S. Whole genome sequencing versus traditional genotyping for investigation of a Mycobacterium tuberculosis outbreak: a longitudinal molecular epidemiological study. PLoS Med. 2013, 10:e1001387.
-
(2013)
PLoS Med.
, vol.10
-
-
Roetzer, A.1
Diel, R.2
Kohl, T.A.3
Rückert, C.4
Nübel, U.5
Blom, J.6
Wirth, T.7
Jaenicke, S.8
Schuback, S.9
Rüsch-Gerdes, S.10
Supply, P.11
Kalinowski, J.12
Niemann, S.13
-
109
-
-
84879963088
-
Clinical measures of disease in adult non-CF bronchiectasis correlate with airway microbiota composition
-
Rogers G.B., van der Gast C.J., Cuthbertson L., Thomson S.K., Bruce K.D., Martin M.L., Serisier D.J. Clinical measures of disease in adult non-CF bronchiectasis correlate with airway microbiota composition. Thorax 2013, 68:731-737.
-
(2013)
Thorax
, vol.68
, pp. 731-737
-
-
Rogers, G.B.1
van der Gast, C.J.2
Cuthbertson, L.3
Thomson, S.K.4
Bruce, K.D.5
Martin, M.L.6
Serisier, D.J.7
-
110
-
-
84873874372
-
Overview of molecular typing methods for outbreak detection and epidemiological surveillance
-
Sabat a J., Budimir A., Nashev D., Sá-Leão R., van Dijl J.M., Laurent F., Grundmann H., Friedrich a W. Overview of molecular typing methods for outbreak detection and epidemiological surveillance. Euro Surveill. 2013, 18:20380.
-
(2013)
Euro Surveill.
, vol.18
, pp. 20380
-
-
Sabat, A.J.1
Budimir, A.2
Nashev, D.3
Sá-Leão, R.4
van Dijl, J.M.5
Laurent, F.6
Grundmann, H.7
Friedrich, A.W.8
-
111
-
-
84872876043
-
Evolution of a pathogen: a comparative genomics analysis identifies a genetic pathway to pathogenesis in Acinetobacter
-
Sahl J.W., Gillece J.D., Schupp J.M., Waddell V.G., Driebe E.M., Engelthaler D.M., Keim P. Evolution of a pathogen: a comparative genomics analysis identifies a genetic pathway to pathogenesis in Acinetobacter. PLoS One 2013, 8:e54287.
-
(2013)
PLoS One
, vol.8
-
-
Sahl, J.W.1
Gillece, J.D.2
Schupp, J.M.3
Waddell, V.G.4
Driebe, E.M.5
Engelthaler, D.M.6
Keim, P.7
-
112
-
-
84894541081
-
Dysbiosis of salivary microbiota in inflammatory bowel disease and its association with oral immunological biomarkers
-
Said H.S., Suda W., Nakagome S., Chinen H., Oshima K., Kim S., Kimura R., Iraha A., Ishida H., Fujita J., Mano S., Morita H., Dohi T., Oota H., Hattori M. Dysbiosis of salivary microbiota in inflammatory bowel disease and its association with oral immunological biomarkers. DNA Res 2013, 10.1093/dnares/dst037.
-
(2013)
DNA Res
-
-
Said, H.S.1
Suda, W.2
Nakagome, S.3
Chinen, H.4
Oshima, K.5
Kim, S.6
Kimura, R.7
Iraha, A.8
Ishida, H.9
Fujita, J.10
Mano, S.11
Morita, H.12
Dohi, T.13
Oota, H.14
Hattori, M.15
-
113
-
-
84878433385
-
Rapid 16S rRNA next-generation sequencing of polymicrobial clinical samples for diagnosis of complex bacterial infections
-
Salipante S.J., Sengupta D.J., Rosenthal C., Costa G., Spangler J., Sims E.H., Jacobs M.A., Miller S.I., Hoogestraat D.R., Cookson B.T., McCoy C., Matsen F.A., Shendure J., Lee C.C., Harkins T.T., Hoffman N.G. Rapid 16S rRNA next-generation sequencing of polymicrobial clinical samples for diagnosis of complex bacterial infections. PLoS One 2013, 8:e65226.
-
(2013)
PLoS One
, vol.8
-
-
Salipante, S.J.1
Sengupta, D.J.2
Rosenthal, C.3
Costa, G.4
Spangler, J.5
Sims, E.H.6
Jacobs, M.A.7
Miller, S.I.8
Hoogestraat, D.R.9
Cookson, B.T.10
McCoy, C.11
Matsen, F.A.12
Shendure, J.13
Lee, C.C.14
Harkins, T.T.15
Hoffman, N.G.16
-
114
-
-
84866322311
-
Draft genome sequence of Corynebacterium diphtheriae biovar intermedius NCTC 5011
-
Sangal V., Tucker N.P., Burkovski A., Hoskisson P.A. Draft genome sequence of Corynebacterium diphtheriae biovar intermedius NCTC 5011. J. Bacteriol. 2012, 194(17):4738.
-
(2012)
J. Bacteriol.
, vol.194
, Issue.17
, pp. 4738
-
-
Sangal, V.1
Tucker, N.P.2
Burkovski, A.3
Hoskisson, P.A.4
-
115
-
-
38549107462
-
Culture-independent analysis of the gut microbiota in colorectal cancer and polyposis
-
Scanlan P.D., Shanahan F., Clune Y., Collins J.K., O'Sullivan G.C., O'Riordan M., Holmes E., Wang Y., Marchesi J.R. Culture-independent analysis of the gut microbiota in colorectal cancer and polyposis. Environ. Microbiol. 2008, 10:789-798.
-
(2008)
Environ. Microbiol.
, vol.10
, pp. 789-798
-
-
Scanlan, P.D.1
Shanahan, F.2
Clune, Y.3
Collins, J.K.4
O'Sullivan, G.C.5
O'Riordan, M.6
Holmes, E.7
Wang, Y.8
Marchesi, J.R.9
-
116
-
-
67649834440
-
ChIP-seq: using high-throughput sequencing to discover protein-DNA interactions
-
Schmidt D., Wilson M.D., Spyrou C., Brown G.D., Hadfield J., Odom D.T. ChIP-seq: using high-throughput sequencing to discover protein-DNA interactions. Methods San Diego Calif. 2009, 48:240-248.
-
(2009)
Methods San Diego Calif.
, vol.48
, pp. 240-248
-
-
Schmidt, D.1
Wilson, M.D.2
Spyrou, C.3
Brown, G.D.4
Hadfield, J.5
Odom, D.T.6
-
117
-
-
73949137604
-
Microbiota and SCFA in lean and overweight healthy subjects
-
Schwiertz A., Taras D., Schäfer K., Beijer S., Bos N.A., Donus C., Hardt P.D. Microbiota and SCFA in lean and overweight healthy subjects. Obesity 2010, 18:190-195.
-
(2010)
Obesity
, vol.18
, pp. 190-195
-
-
Schwiertz, A.1
Taras, D.2
Schäfer, K.3
Beijer, S.4
Bos, N.A.5
Donus, C.6
Hardt, P.D.7
-
118
-
-
84997284050
-
Genome Sequence of Pseudomonas aeruginosa PA45, a highly virulent strain isolated from a patient with bloodstream infection
-
e00289-13
-
Segata N., Ballarini A., Jousson O. Genome Sequence of Pseudomonas aeruginosa PA45, a highly virulent strain isolated from a patient with bloodstream infection. Genome Announc. 2013, 1. e00289-13.
-
(2013)
Genome Announc.
, vol.1
-
-
Segata, N.1
Ballarini, A.2
Jousson, O.3
-
119
-
-
84883116930
-
PhyloPhlAn is a new method for improved phylogenetic and taxonomic placement of microbes
-
Segata N., Börnigen D., Morgan X.C., Hutenhower C. PhyloPhlAn is a new method for improved phylogenetic and taxonomic placement of microbes. Nat. Commun. 2013, 4:2304.
-
(2013)
Nat. Commun.
, vol.4
, pp. 2304
-
-
Segata, N.1
Börnigen, D.2
Morgan, X.C.3
Hutenhower, C.4
-
120
-
-
84867397072
-
Developing vaccines in the era of genomics: a decade of reverse vaccinology
-
Seib K.L., Zhao X., Rappuoli R. Developing vaccines in the era of genomics: a decade of reverse vaccinology. Clin. Microbiol. Infect. 2012, 18(Suppl. 5):109-116.
-
(2012)
Clin. Microbiol. Infect.
, vol.18
, Issue.SUPPL. 5
, pp. 109-116
-
-
Seib, K.L.1
Zhao, X.2
Rappuoli, R.3
-
121
-
-
77955647582
-
Gut microbiota in health and disease
-
Sekirov I., Russell S.L., Antunes L.C., Finlay B.B. Gut microbiota in health and disease. Physiol Rev. 2010, 90:859-904.
-
(2010)
Physiol Rev.
, vol.90
, pp. 859-904
-
-
Sekirov, I.1
Russell, S.L.2
Antunes, L.C.3
Finlay, B.B.4
-
122
-
-
84882623924
-
Advantages and limitations of genomics in prokaryotic taxonomy
-
Sentausa E., Fournier P.-E. Advantages and limitations of genomics in prokaryotic taxonomy. Clin. Microbiol. Infect. 2013, 19:790-795.
-
(2013)
Clin. Microbiol. Infect.
, vol.19
, pp. 790-795
-
-
Sentausa, E.1
Fournier, P.-E.2
-
123
-
-
84877118112
-
Whole-genome sequences of Chlamydia trachomatis directly from clinical samples without culture
-
Seth-Smith H.M.B., Harris S.R., Skilton R.J., Radebe F.M., Golparian D., Shipitsyna E., Duy P.T., Scott P., Cutcliffe L.T., O'Neill C., Parmar S., Pitt R., Baker S., Ison C.A., Marsh P., Jalal H., Lewis D.A., Unemo M., Clarke I.N., Parkhill J., Thomson N.R. Whole-genome sequences of Chlamydia trachomatis directly from clinical samples without culture. Genome Res. 2013, 23:855-866.
-
(2013)
Genome Res.
, vol.23
, pp. 855-866
-
-
Seth-Smith, H.M.B.1
Harris, S.R.2
Skilton, R.J.3
Radebe, F.M.4
Golparian, D.5
Shipitsyna, E.6
Duy, P.T.7
Scott, P.8
Cutcliffe, L.T.9
O'Neill, C.10
Parmar, S.11
Pitt, R.12
Baker, S.13
Ison, C.A.14
Marsh, P.15
Jalal, H.16
Lewis, D.A.17
Unemo, M.18
Clarke, I.N.19
Parkhill, J.20
Thomson, N.R.21
more..
-
124
-
-
84869132419
-
Pyrosequencing reveals the complex polymicrobial nature of invasive pyogenic infections: microbial constituents of empyema, liver abscess, and intracerebral abscess
-
Sibley C.D., Church D.L., Surette M.G., Dowd S.E., Parkins M.D. Pyrosequencing reveals the complex polymicrobial nature of invasive pyogenic infections: microbial constituents of empyema, liver abscess, and intracerebral abscess. Eur. J. Clin. Microbiol. Infect. Dis. 2012, 31:2679-2691.
-
(2012)
Eur. J. Clin. Microbiol. Infect. Dis.
, vol.31
, pp. 2679-2691
-
-
Sibley, C.D.1
Church, D.L.2
Surette, M.G.3
Dowd, S.E.4
Parkins, M.D.5
-
125
-
-
49449090949
-
Early administration of probiotics alters bacterial colonization and limits diet-induced gut dysfunction and severity of necrotizing enterocolitis in preterm pigs
-
Siggers R.H., Siggers J., Boye M., Thymann T., Mølbak L., Leser T., Jensen B.B., Sangild P.T. Early administration of probiotics alters bacterial colonization and limits diet-induced gut dysfunction and severity of necrotizing enterocolitis in preterm pigs. J. Nutr. 2008, 138:1437-1444.
-
(2008)
J. Nutr.
, vol.138
, pp. 1437-1444
-
-
Siggers, R.H.1
Siggers, J.2
Boye, M.3
Thymann, T.4
Mølbak, L.5
Leser, T.6
Jensen, B.B.7
Sangild, P.T.8
-
126
-
-
84862501725
-
Bacterial communities in women with bacterial vaginosis: high resolution phylogenetic analyses reveal relationships of microbiota to clinical criteria
-
Srinivasan S., Hoffman N.G., Morgan M.T., Matsen F.A., Fiedler T.L., Hall R.W., Ross F.J., McCoy C.O., Bumgarner R., Marrazzo J.M., Fredricks D.N. Bacterial communities in women with bacterial vaginosis: high resolution phylogenetic analyses reveal relationships of microbiota to clinical criteria. PLoS One 2012, 7:e37818.
-
(2012)
PLoS One
, vol.7
-
-
Srinivasan, S.1
Hoffman, N.G.2
Morgan, M.T.3
Matsen, F.A.4
Fiedler, T.L.5
Hall, R.W.6
Ross, F.J.7
McCoy, C.O.8
Bumgarner, R.9
Marrazzo, J.M.10
Fredricks, D.N.11
-
127
-
-
84861842482
-
Toward the single-hour high-quality genome
-
Ståhl P.L., Lundeberg J. Toward the single-hour high-quality genome. Ann. Rev. Biochem. 2012, 81:359-378.
-
(2012)
Ann. Rev. Biochem.
, vol.81
, pp. 359-378
-
-
Ståhl, P.L.1
Lundeberg, J.2
-
128
-
-
84866041323
-
Stepping stones in DNA sequencing
-
Stranneheim H., Lundeberg J. Stepping stones in DNA sequencing. Biotechnol. J. 2012, 7:1063-1073.
-
(2012)
Biotechnol. J.
, vol.7
, pp. 1063-1073
-
-
Stranneheim, H.1
Lundeberg, J.2
-
129
-
-
84887524784
-
Comparative genomic analysis of rapid evolution of an extreme-drug-resistant Acinetobacter baumannii clone
-
Tan S.Y., Chua S.L., Liu Y., Hoiby N., Andersen L.P., Givskov M., Song Z., Yang L. Comparative genomic analysis of rapid evolution of an extreme-drug-resistant Acinetobacter baumannii clone. Genome Biol. Evol. 2013, 5:807-818.
-
(2013)
Genome Biol. Evol.
, vol.5
, pp. 807-818
-
-
Tan, S.Y.1
Chua, S.L.2
Liu, Y.3
Hoiby, N.4
Andersen, L.P.5
Givskov, M.6
Song, Z.7
Yang, L.8
-
130
-
-
25444524604
-
Genome analysis of multiple pathogenic isolates of Streptococcus agalactiae: implications for the microbial "pan-genome"
-
Tettelin H., Masignani V., Cieslewicz M.J., Donati C., Medini D., Ward N.L., Angiuoli S.V., Crabtree J., Jones A.L., Durkin a S., Deboy R.T., Davidsen T.M., Mora M., Scarselli M., Margarit Ros I., Peterson J.D., Hauser C.R., Sundaram J.P., Nelson W.C., Madupu R., Brinkac L.M., Dodson R.J., Rosovitz M.J., Sullivan S.a, Daugherty S.C., Haft D.H., Selengut J., Gwinn M.L., Zhou L., Zafar N., Khouri H., Radune D., Dimitrov G., Watkins K., O'Connor K.J.B., Smith S., Utterback T.R., White O., Rubens C.E., Grandi G., Madoff L.C., Kasper D.L., Telford J.L., Wessels M.R., Rappuoli R., Fraser C.M. Genome analysis of multiple pathogenic isolates of Streptococcus agalactiae: implications for the microbial "pan-genome". Proc. Natl. Acad. Sci. U. S. A. 2005, 102:13950-13955.
-
(2005)
Proc. Natl. Acad. Sci. U. S. A.
, vol.102
, pp. 13950-13955
-
-
Tettelin, H.1
Masignani, V.2
Cieslewicz, M.J.3
Donati, C.4
Medini, D.5
Ward, N.L.6
Angiuoli, S.V.7
Crabtree, J.8
Jones, A.L.9
Durkin, A.S.10
Deboy, R.T.11
Davidsen, T.M.12
Mora, M.13
Scarselli, M.14
Margarit Ros, I.15
Peterson, J.D.16
Hauser, C.R.17
Sundaram, J.P.18
Nelson, W.C.19
Madupu, R.20
Brinkac, L.M.21
Dodson, R.J.22
Rosovitz, M.J.23
Sullivan, S.A.24
Daugherty, S.C.25
Haft, D.H.26
Selengut, J.27
Gwinn, M.L.28
Zhou, L.29
Zafar, N.30
Khouri, H.31
Radune, D.32
Dimitrov, G.33
Watkins, K.34
O'Connor, K.J.B.35
Smith, S.36
Utterback, T.R.37
White, O.38
Rubens, C.E.39
Grandi, G.40
Madoff, L.C.41
Kasper, D.L.42
Telford, J.L.43
Wessels, M.R.44
Rappuoli, R.45
Fraser, C.M.46
more..
-
131
-
-
77957708999
-
Single molecule sequencing with a HeliScope genetic analysis system
-
(Chapter 7, Unit7.10)
-
Thompson J.F., Steinmann K.E. Single molecule sequencing with a HeliScope genetic analysis system. Curr. Protoc. Mol. Biol. 2010, 1-16. (Chapter 7, Unit7.10).
-
(2010)
Curr. Protoc. Mol. Biol.
, pp. 1-16
-
-
Thompson, J.F.1
Steinmann, K.E.2
-
132
-
-
84866598795
-
Rapid whole-genome sequencing of bacterial pathogens in the clinical microbiology laboratory - pipe dream or reality?
-
Török M.E., Peacock S.J. Rapid whole-genome sequencing of bacterial pathogens in the clinical microbiology laboratory - pipe dream or reality?. J. Antimicrob. Chemother. 2012, 67:2307-2308.
-
(2012)
J. Antimicrob. Chemother.
, vol.67
, pp. 2307-2308
-
-
Török, M.E.1
Peacock, S.J.2
-
133
-
-
77952158672
-
Organismal, genetic, and transcriptional variation in the deeply sequenced gut microbiomes of identical twins
-
Turnbaugh P.J., Quince C., Faith J.J., McHardy A.C., Yatsunenko T., Niazi F., Affourtit J., Egholm M., Henrissat B., Knight R., Gordon J.I. Organismal, genetic, and transcriptional variation in the deeply sequenced gut microbiomes of identical twins. Proc. Natl. Acad. Sci. U. S. A. 2010, 107:7503-7508.
-
(2010)
Proc. Natl. Acad. Sci. U. S. A.
, vol.107
, pp. 7503-7508
-
-
Turnbaugh, P.J.1
Quince, C.2
Faith, J.J.3
McHardy, A.C.4
Yatsunenko, T.5
Niazi, F.6
Affourtit, J.7
Egholm, M.8
Henrissat, B.9
Knight, R.10
Gordon, J.I.11
-
134
-
-
70949102952
-
Next generation sequencing of microbial transcriptomes: challenges and opportunities
-
Van Vliet A.H.M. Next generation sequencing of microbial transcriptomes: challenges and opportunities. FEMS Microbiol. Lett. 2010, 302:1-7.
-
(2010)
FEMS Microbiol. Lett.
, vol.302
, pp. 1-7
-
-
Van Vliet, A.H.M.1
-
135
-
-
60349114025
-
Taxon K, a complex within the Burkholderia cepacia complex, comprises at least two novel species, Burkholderia contaminans sp. nov. and Burkholderia lata sp. nov
-
Vanlaere E., Baldwin A., Gevers D., Henry D., De Brandt E., LiPuma J.J., Mahenthiralingam E., Speert D.P., Dowson C., Vandamme P. Taxon K, a complex within the Burkholderia cepacia complex, comprises at least two novel species, Burkholderia contaminans sp. nov. and Burkholderia lata sp. nov. Int. J. Syst. Evol. Microbiol. 2009, 59:102-111.
-
(2009)
Int. J. Syst. Evol. Microbiol.
, vol.59
, pp. 102-111
-
-
Vanlaere, E.1
Baldwin, A.2
Gevers, D.3
Henry, D.4
De Brandt, E.5
LiPuma, J.J.6
Mahenthiralingam, E.7
Speert, D.P.8
Dowson, C.9
Vandamme, P.10
-
136
-
-
80052848478
-
Impaired carbohydrate digestion and transport and mucosal dysbiosis in the intestines of children with autism and gastrointestinal disturbances
-
Williams B.L., Hornig M., Buie T., Bauman M.L., Cho Paik M., Wick I., Bennett A., Jabado O., Hirschberg D.L., Lipkin W.I. Impaired carbohydrate digestion and transport and mucosal dysbiosis in the intestines of children with autism and gastrointestinal disturbances. PLoS One 2011, 6:e24585.
-
(2011)
PLoS One
, vol.6
-
-
Williams, B.L.1
Hornig, M.2
Buie, T.3
Bauman, M.L.4
Cho Paik, M.5
Wick, I.6
Bennett, A.7
Jabado, O.8
Hirschberg, D.L.9
Lipkin, W.I.10
-
138
-
-
78049415520
-
Community and gene composition of a human dental plaque microbiota obtained by metagenomic sequencing
-
Xie G., Chain P.S., Lo C.C., Liu K.L., Gans J., Merritt J., Qi F. Community and gene composition of a human dental plaque microbiota obtained by metagenomic sequencing. Mol. Oral Microbiol. 2010, 25:391-405.
-
(2010)
Mol. Oral Microbiol.
, vol.25
, pp. 391-405
-
-
Xie, G.1
Chain, P.S.2
Lo, C.C.3
Liu, K.L.4
Gans, J.5
Merritt, J.6
Qi, F.7
-
139
-
-
84874098253
-
Pan-PCR, a computational method for designing bacterium-typing assays based on whole-genome sequence data
-
Yang J.Y., Brooks S., Meyer J.a, Blakesley R.R., Zelazny A.M., Segre J.a, Snitkin E.S. Pan-PCR, a computational method for designing bacterium-typing assays based on whole-genome sequence data. J. Clin. Microbiol. 2013, 51:752-758.
-
(2013)
J. Clin. Microbiol.
, vol.51
, pp. 752-758
-
-
Yang, J.Y.1
Brooks, S.2
Meyer, J.A.3
Blakesley, R.R.4
Zelazny, A.M.5
Segre, J.A.6
Snitkin, E.S.7
-
140
-
-
84875265483
-
Genotyping using whole-genome sequencing is a realistic alternative to surveillance based on phenotypic antimicrobial susceptibility testing
-
Zankari E., Hasman H., Kaas R.S., Seyfarth A.M., Agersø Y., Lund O., Larsen M.V., Aarestrup F.M. Genotyping using whole-genome sequencing is a realistic alternative to surveillance based on phenotypic antimicrobial susceptibility testing. J. Antimicrob. Chemother. 2013, 68(4):771-777.
-
(2013)
J. Antimicrob. Chemother.
, vol.68
, Issue.4
, pp. 771-777
-
-
Zankari, E.1
Hasman, H.2
Kaas, R.S.3
Seyfarth, A.M.4
Agersø, Y.5
Lund, O.6
Larsen, M.V.7
Aarestrup, F.M.8
-
141
-
-
84879262116
-
Serological and molecular capsular typing, antibiotic susceptibility and multilocus sequence typing of Streptococcus pneumoniae isolates from invasive and non-invasive infections
-
Zhang Y.-J., Chen Y.-S., Wang Z.-W., Li Y.-Q., Wang D.-X., Shang Y., Fu R.-R., Hu Y.-H., Geng R., Wei L.-P., Yang J.-P., Li J.-S., Yu Q., DU J., Gao Z.-C. Serological and molecular capsular typing, antibiotic susceptibility and multilocus sequence typing of Streptococcus pneumoniae isolates from invasive and non-invasive infections. Chin. Med. J. 2013, 126:2296-2303.
-
(2013)
Chin. Med. J.
, vol.126
, pp. 2296-2303
-
-
Zhang, Y.-J.1
Chen, Y.-S.2
Wang, Z.-W.3
Li, Y.-Q.4
Wang, D.-X.5
Shang, Y.6
Fu, R.-R.7
Hu, Y.-H.8
Geng, R.9
Wei, L.-P.10
Yang, J.-P.11
Li, J.-S.12
Yu, Q.13
Du, J.14
Gao, Z.-C.15
-
142
-
-
24744448436
-
Multispacer typing of Rickettsia prowazekii enabling epidemiological studies of epidemic typhus
-
Zhu Y., Fournier P.-E., Ogata H., Raoult D. Multispacer typing of Rickettsia prowazekii enabling epidemiological studies of epidemic typhus. J. Clin. Microbiol. 2005, 43:4708-4712.
-
(2005)
J. Clin. Microbiol.
, vol.43
, pp. 4708-4712
-
-
Zhu, Y.1
Fournier, P.-E.2
Ogata, H.3
Raoult, D.4
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