-
2
-
-
11144354360
-
Environmental Genome Shotgun Sequencing of the Sargasso Sea
-
DOI 10.1126/science.1093857
-
Venter J. C., Remington K., Heidelberg J. F., Halpern A. L., Rusch D., Eisen J. A., Wu D., Paulsen I., Nelson K. E., Nelson W., Fouts D. E., Levy S., Knap A. H., Lomas M. W., Nealson K., White O., Peterson J., Hoffman J., Parsons R., Baden-Tillson H., Pfannkoch C., Rogers Y. H., Smith H. O., Environmental genome shotgun sequencing of the Sargasso Sea Science 2004 304 5667 66 74 (Pubitemid 38451457)
-
(2004)
Science
, vol.304
, Issue.5667
, pp. 66-74
-
-
Venter, J.C.1
Remington, K.2
Heidelberg, J.F.3
Halpern, A.L.4
Rusch, D.5
Eisen, J.A.6
Wu, D.7
Paulsen, I.8
Nelson, K.E.9
Nelson, W.10
Fouts, D.E.11
Levy, S.12
Knap, A.H.13
Lomas, M.W.14
Nealson, K.15
White, O.16
Peterson, J.17
Hoffman, J.18
Parsons, R.19
Baden-Tillson, H.20
Pfannkoch, C.21
Rogers, Y.-H.22
Smith, H.O.23
more..
-
3
-
-
33847702910
-
MEGAN analysis of metagenomic data
-
DOI 10.1101/gr.5969107
-
Huson D. H., Auch A. F., Qi J., Schuster S. C., MEGAN analysis of metagenomic data Genome Research 2007 17 3 377 386 (Pubitemid 46376747)
-
(2007)
Genome Research
, vol.17
, Issue.3
, pp. 377-386
-
-
Huson, D.H.1
Auch, A.F.2
Qi, J.3
Schuster, S.C.4
-
4
-
-
40149098974
-
Microbial ecology of four coral atolls in the Northern Line Islands
-
Dinsdale E. A., Pantos O., Smriga S., Edwards R. A., Angly F., Wegley L., Hatay M., Hall D., Brown E., Haynes M., Krause L., Sala E., Sandin S. A., Thurber R. V., Willis B. L., Azam F., Knowlton N., Rohwer F., Microbial ecology of four coral atolls in the Northern Line Islands PLoS One 2008 3 2
-
(2008)
PLoS One
, vol.3
, Issue.2
-
-
Dinsdale, E.A.1
Pantos, O.2
Smriga, S.3
Edwards, R.A.4
Angly, F.5
Wegley, L.6
Hatay, M.7
Hall, D.8
Brown, E.9
Haynes, M.10
Krause, L.11
Sala, E.12
Sandin, S.A.13
Thurber, R.V.14
Willis, B.L.15
Azam, F.16
Knowlton, N.17
Rohwer, F.18
-
5
-
-
69549129476
-
The rare biosphere: A reality check
-
Reeder J., Knight R., The rare biosphere: a reality check Nature Methods 2009 6 9 636 637
-
(2009)
Nature Methods
, vol.6
, Issue.9
, pp. 636-637
-
-
Reeder, J.1
Knight, R.2
-
7
-
-
69549112742
-
Accurate determination of microbial diversity from 454 pyrosequencing data
-
Quince C., Lanzn A., Curtis T. P., Davenport R. J., Hall N., Head I. M., Read L. F., Sloan W. T., Accurate determination of microbial diversity from 454 pyrosequencing data Nature Methods 2009 6 9 639 641
-
(2009)
Nature Methods
, vol.6
, Issue.9
, pp. 639-641
-
-
Quince, C.1
Lanzn, A.2
Curtis, T.P.3
Davenport, R.J.4
Hall, N.5
Head, I.M.6
Read, L.F.7
Sloan, W.T.8
-
8
-
-
69549135124
-
Phymm and PhymmBL: Metagenomic phylogenetic classification with interpolated Markov models
-
Brady A., Salzberg S. L., Phymm and PhymmBL: metagenomic phylogenetic classification with interpolated Markov models Nature Methods 2009 6 9 673 676
-
(2009)
Nature Methods
, vol.6
, Issue.9
, pp. 673-676
-
-
Brady, A.1
Salzberg, S.L.2
-
9
-
-
78650549608
-
NBC: The Nave Bayes classification tool webserver for taxonomic classification of metagenomic reads
-
Rosen G. L., Reichenberger E. R., Rosenfeld A. M., NBC: the Nave Bayes classification tool webserver for taxonomic classification of metagenomic reads Bioinformatics 2011 27 1 127 129
-
(2011)
Bioinformatics
, vol.27
, Issue.1
, pp. 127-129
-
-
Rosen, G.L.1
Reichenberger, E.R.2
Rosenfeld, A.M.3
-
10
-
-
38549164691
-
GenBank
-
Benson D. A., Karsch-Mizrachi I., Lipman D. J., Ostell J., Wheeler D. L., GenBank Nucleic Acids Research 2008 36 1 D25 D30
-
(2008)
Nucleic Acids Research
, vol.36
, Issue.1
-
-
Benson, D.A.1
Karsch-Mizrachi, I.2
Lipman, D.J.3
Ostell, J.4
Wheeler, D.L.5
-
11
-
-
67649887316
-
SOrt-ITEMS: Sequence orthology based approach for improved taxonomic estimation of metagenomic sequences
-
Haque M. M., Ghosh T. S., Komanduri D., Mande S. S., SOrt-ITEMS: sequence orthology based approach for improved taxonomic estimation of metagenomic sequences Bioinformatics 2009 25 14 1722 1730
-
(2009)
Bioinformatics
, vol.25
, Issue.14
, pp. 1722-1730
-
-
Haque, M.M.1
Ghosh, T.S.2
Komanduri, D.3
Mande, S.S.4
-
12
-
-
74049132798
-
WebCARMA: A web application for the functional and taxonomic classification of unassembled metagenomic reads
-
Gerlach W., Jnemann S., Tille F., Goesmann A., Stoye J., WebCARMA: a web application for the functional and taxonomic classification of unassembled metagenomic reads BMC Bioinformatics 2009 10, article 430
-
(2009)
BMC Bioinformatics
, vol.1043
-
-
Gerlach, W.1
Jnemann, S.2
Tille, F.3
Goesmann, A.4
Stoye, J.5
-
13
-
-
70450194330
-
Metagenome fragment classification using n-mer frequency profiles
-
Rosen G., Garbarine E., Caseiro D., Polikar R., Sokhansanj B., Metagenome fragment classification using n-mer frequency profiles Advances in Bioinformatics 2008 2008 12
-
(2008)
Advances in Bioinformatics
, vol.2008
, pp. 12
-
-
Rosen, G.1
Garbarine, E.2
Caseiro, D.3
Polikar, R.4
Sokhansanj, B.5
-
15
-
-
77955902981
-
Ab initio gene identification in metagenomic sequences
-
Zhu W., Lomsadze A., Borodovsky M., Ab initio gene identification in metagenomic sequences Nucleic Acids Research 2010 38 12 e132
-
(2010)
Nucleic Acids Research
, vol.38
, Issue.12
, pp. 132
-
-
Zhu, W.1
Lomsadze, A.2
Borodovsky, M.3
-
16
-
-
78651266519
-
Combining gene prediction methods to improve metagenomic gene annotation
-
Yok N. G., Rosen G. L., Combining gene prediction methods to improve metagenomic gene annotation BMC Bioinformatics 2011 12 1
-
(2011)
BMC Bioinformatics
, vol.12
, Issue.1
-
-
Yok, N.G.1
Rosen, G.L.2
-
17
-
-
33745595097
-
Using pyrosequencing to shed light on deep mine microbial ecology
-
Edwards R. A., Rodriguez-Brito B., Wegley L., Haynes M., Breitbart M., Peterson D. M., Saar M. O., Alexander S., Alexander E. C., Rohwer F., Using pyrosequencing to shed light on deep mine microbial ecology BMC Genomics 2006 7, article 57
-
(2006)
BMC Genomics
, vol.757
-
-
Edwards, R.A.1
Rodriguez-Brito, B.2
Wegley, L.3
Haynes, M.4
Breitbart, M.5
Peterson, D.M.6
Saar, M.O.7
Alexander, S.8
Alexander, E.C.9
Rohwer, F.10
-
19
-
-
1542377296
-
Community structure and metabolism through reconstruction of microbial genomes from the environment
-
DOI 10.1038/nature02340
-
Tyson G. W., Chapman J., Hugenholtz P., Allen E. E., Ram R. J., Richardson P. M., Solovyev V. V., Rubin E. M., Rokhsar D. S., Banfield J. F., Community structure and metabolism through reconstruction of microbial genomes from the environment Nature 2004 428 6978 37 43 (Pubitemid 38332350)
-
(2004)
Nature
, vol.428
, Issue.6978
, pp. 37-43
-
-
Tyson, G.W.1
Chapman, J.2
Hugenholtz, P.3
Allen, E.E.4
Ram, R.J.5
Richardson, P.M.6
Solovyev, V.V.7
Rubin, E.M.8
Rokhsar, D.S.9
Banfield, J.F.10
-
20
-
-
0036199540
-
N-Alkane degradation by Marinobacter hydrocarbonoclasticus strain SP 17: Long chain β-hydroxy acids as indicators of bacterial activity
-
DOI 10.1016/S0146-6380(01)00126-7, PII S0146638001001267
-
Lattuati A., Metzger P., Acquaviva M., Bertrand J. C., Largeau C., n-Alkane degradation by Marinobacter hydrocarbonoclasticus strain SP 17: long chain -hydroxy acids as indicators of bacterial activity Organic Geochemistry 2002 33 1 37 45 (Pubitemid 34212776)
-
(2002)
Organic Geochemistry
, vol.33
, Issue.1
, pp. 37-45
-
-
Lattuati, A.1
Metzger, P.2
Acquaviva, M.3
Bertrand, J.-C.4
Largeau, C.5
-
21
-
-
0141837820
-
Silicibacter pomeroyi sp. nov. and Roseovarius nubinhibens sp. nov., dimethylsulfoniopropionate-demethylating bacteria from marine environments
-
DOI 10.1099/ijs.0.02491-0
-
Gonzlez J. M., Covert J. S., Whitman W. B., Henriksen J. R., Mayer F., Scharf B., Schmitt R., Buchan A., Fuhrman J. A., Kiene R. P., Moran M. A., Silicibacter pomeroyi sp. nov. and Roseovarius nubinhibens sp. nov., dimethylsulfoniopropionate-demethylating bacteria from marine environments International Journal of Systematic and Evolutionary Microbiology 2003 53 5 1261 1269 (Pubitemid 37184952)
-
(2003)
International Journal of Systematic and Evolutionary Microbiology
, vol.53
, Issue.5
, pp. 1261-1269
-
-
Gonzalez, J.M.1
Covert, J.S.2
Whitman, W.B.3
Henriksen, J.R.4
Mayer, F.5
Scharf, B.6
Schmitt, R.7
Buchan, A.8
Fuhrman, J.A.9
Kiene, R.P.10
Moran, M.A.11
-
22
-
-
0033765728
-
Fate of selenate and selenite metabolized by Rhodobacter sphaeroides
-
van Fleet-Stalder V., Chasteen T. G., Pickering I. J., George G. N., Prince R. C., Fate of selenate and selenite metabolized by Rhodobacter sphaeroides Applied and Environmental Microbiology 2000 66 11 4849 4853
-
(2000)
Applied and Environmental Microbiology
, vol.66
, Issue.11
, pp. 4849-4853
-
-
Van Fleet-Stalder, V.1
Chasteen, T.G.2
Pickering, I.J.3
George, G.N.4
Prince, R.C.5
-
23
-
-
19544393943
-
Dinoroseobacter shibae gen. nov., sp. nov., a new aerobic phototrophic bacterium isolated from dinoflagellates
-
DOI 10.1099/ijs.0.63511-0, 63511
-
Biebl H., Allgaier M., Tindall B. J., Koblizek M., Lnsdorf H., Pukall R., Wagner-Dbler I., Dinoroseobacter shibae gen. nov., sp. nov., a new aerobic phototrophic bacterium isolated from dinoflagellates International Journal of Systematic and Evolutionary Microbiology 2005 55 3 1089 1096 (Pubitemid 40731651)
-
(2005)
International Journal of Systematic and Evolutionary Microbiology
, vol.55
, Issue.3
, pp. 1089-1096
-
-
Biebl, H.1
Allgaier, M.2
Tindall, B.J.3
Koblizek, M.4
Lunsdorf, H.5
Pukall, R.6
Wagner-Dobler, I.7
-
24
-
-
33750907710
-
Whole genome analysis of the marine Bacteroidetes 'Gramella forsetii' reveals adaptations to degradation of polymeric organic matter
-
DOI 10.1111/j.1462-2920.2006.01152.x
-
Bauer M., Kube M., Teeling H., Richter M., Lombardot T., Allers E., Wrdemann C. A., Quast C., Kuhl H., Knaust F., Woebken D., Bischof K., Mussmann M., Choudhuri J. V., Meyer F., Reinhardt R., Amann R. I., Glckner F. O., Whole genome analysis of the marine Bacteroidetes Gramella forsetii reveals adaptations to degradation of polymeric organic matter Environmental Microbiology 2006 8 12 2201 2213 (Pubitemid 44730250)
-
(2006)
Environmental Microbiology
, vol.8
, Issue.12
, pp. 2201-2213
-
-
Bauer, M.1
Kube, M.2
Teeling, H.3
Richter, M.4
Lombardot, T.5
Allers, E.6
Wurdemann, C.A.7
Quast, C.8
Kuhl, H.9
Knaust, F.10
Woebken, D.11
Bischof, K.12
Mussmann, M.13
Choudhuri, J.V.14
Meyer, F.15
Reinhardt, R.16
Amann, R.I.17
Glockner, F.O.18
-
25
-
-
33846840967
-
Phenotypic and molecular characterisation of fish-borne Flavobacterium johnsoniae-like isolates from aquaculture systems in South Africa
-
DOI 10.1016/j.resmic.2006.09.001, PII S0923250806002099
-
Flemming L., Rawlings D., Chenia H., Phenotypic and molecular characterisation of fish-borne Flavobacterium johnsoniae-like isolates from aquaculture systems in South Africa Research in Microbiology 2007 158 1 18 30 (Pubitemid 46216772)
-
(2007)
Research in Microbiology
, vol.158
, Issue.1
, pp. 18-30
-
-
Flemming, L.1
Rawlings, D.2
Chenia, H.3
-
26
-
-
52949129891
-
The genome of Aeromonas salmonicida subsp. salmonicida A449: Insights into the evolution of a fish pathogen
-
Reith M. E., Singh R. K., Curtis B., Boyd J. M., Bouevitch A., Kimball J., Munholland J., Murphy C., Sarty D., Williams J., Nash J. H. E., Johnson S. C., Brown L. L., The genome of Aeromonas salmonicida subsp. salmonicida A449: insights into the evolution of a fish pathogen BMC Genomics 2008 9, article 427
-
(2008)
BMC Genomics
, vol.9427
-
-
Reith, M.E.1
Singh, R.K.2
Curtis, B.3
Boyd, J.M.4
Bouevitch, A.5
Kimball, J.6
Munholland, J.7
Murphy, C.8
Sarty, D.9
Williams, J.10
Nash, J.H.E.11
Johnson, S.C.12
Brown, L.L.13
-
27
-
-
0842345383
-
Polaromonas naphthalenivorans sp. nov., a naphthalene-degrading bacterium from naphthalene-contaminated sediment
-
DOI 10.1099/ijs.0.02636-0
-
Jeon C. O., Park W., Ghiorse W. C., Madsen E. L., Polaromonas naphthalenivorans sp. nov., a naphthalene-degrading bacterium from naphthalene-contaminated sediment International Journal of Systematic and Evolutionary Microbiology 2004 54 1 93 97 (Pubitemid 38181276)
-
(2004)
International Journal of Systematic and Evolutionary Microbiology
, vol.54
, Issue.1
, pp. 93-97
-
-
Jeon, C.O.1
Park, W.2
Ghiorse, W.C.3
Madsen, E.L.4
-
28
-
-
33947186216
-
Alkalilimnicola ehrlichii sp. nov., a novel, arsenite-oxidizing haloalkaliphilic gammaproteobacterium capable of chemoautotrophic or heterotrophic growth with nitrate or oxygen as the electron acceptor
-
DOI 10.1099/ijs.0.64576-0
-
Hoeft S. E., Blum J. S., Stolz J. F., Tabita F. R., Witte B., King G. M., Santini J. M., Oremland R. S., Alkalilimnicola ehrlichii sp. nov., a novel, arsenite-oxidizing haloalkaliphilic gammaproteobacterium capable of chemoautotrophic or heterotrophic growth with nitrate or oxygen as the electron acceptor International Journal of Systematic and Evolutionary Microbiology 2007 57 3 504 512 (Pubitemid 46437862)
-
(2007)
International Journal of Systematic and Evolutionary Microbiology
, vol.57
, Issue.3
, pp. 504-512
-
-
Hoeft, S.E.1
Blum, J.S.2
Stolz, J.F.3
Tabita, F.R.4
Witte, B.5
King, G.M.6
Santini, J.M.7
Oremland, R.S.8
|