-
1
-
-
1542377296
-
Community structure and metabolism through reconstruction of microbial genomes from the environment
-
Tyson, G., Chapman,J., Hugenholtz,P., Allen,E., Ram,R., Richardson,P., Solovyev,V., Rubin,E., Rokhsar,D., Banfield,J. (2004) Community structure and metabolism through reconstruction of microbial genomes from the environment. Nature, 428, 37-43.
-
(2004)
Nature
, vol.428
, pp. 37-43
-
-
Tyson, G.1
Chapman, J.2
Hugenholtz, P.3
Allen, E.4
Ram, R.5
Richardson, P.6
Solovyev, V.7
Rubin, E.8
Rokhsar, D.9
Banfield, J.10
-
2
-
-
11144354360
-
Environmental genome shotgun sequencing of the Sargasso Sea
-
Venter,J.C., Remington,K., Heidelberg,J., Halpern,A., Rusch,D., Eisen,J., Wu,D., Paulsen,I., Nelson,K., Nelson,W., et al. (2004) Environmental genome shotgun sequencing of the Sargasso Sea. Science, 304, 66-74.
-
(2004)
Science
, vol.304
, pp. 66-74
-
-
Venter, J.C.1
Remington, K.2
Heidelberg, J.3
Halpern, A.4
Rusch, D.5
Eisen, J.6
Wu, D.7
Paulsen, I.8
Nelson, K.9
Nelson, W.10
-
3
-
-
34249794257
-
Use of simulated data sets to evaluate the fidelity of metagenomic processing methods
-
Mavromatis,K., Ivanova,N., Barry,K., Shapiro,H., Goltsman,E., McHardy,A.C., Rigoutsos,I., Salamov,A., Korzeniewski,F., Land,M., et al. (2007) Use of simulated data sets to evaluate the fidelity of metagenomic processing methods. Nature Methods, 4, 495-500.
-
(2007)
Nature Methods
, vol.4
, pp. 495-500
-
-
Mavromatis, K.1
Ivanova, N.2
Barry, K.3
Shapiro, H.4
Goltsman, E.5
McHardy, A.C.6
Rigoutsos, I.7
Salamov, A.8
Korzeniewski, F.9
Land, M.10
-
4
-
-
33846904978
-
GISMO-gene identification using a support vector machine for ORF classification
-
Krause, L., McHardy, A., Nattkemper, T., Puhler, A., Stoye, J., Meyer, F. (2007) GISMO-gene identification using a support vector machine for ORF classification. Nucleic Acids Res., 35, 2, 540-549.
-
(2007)
Nucleic Acids Res
, vol.35
, Issue.2
, pp. 540-549
-
-
Krause, L.1
McHardy, A.2
Nattkemper, T.3
Puhler, A.4
Stoye, J.5
Meyer, F.6
-
5
-
-
33750976398
-
MetaGene: prokaryotic gene finding from environmental genome shotgun sequences
-
Noguchi, H., Park, J., Takagi, T. (2006) MetaGene: prokaryotic gene finding from environmental genome shotgun sequences. Nucleic Acids Res., 34, 19, 5623-5630.
-
(2006)
Nucleic Acids Res
, vol.34
, Issue.19
, pp. 5623-5630
-
-
Noguchi, H.1
Park, J.2
Takagi, T.3
-
6
-
-
0030854739
-
tRNAscan-SE: a program for improved detection of transfer RNA genes in genomic sequence
-
Lowe,T.M. and Eddy,S.R. (1997) tRNAscan-SE: a program for improved detection of transfer RNA genes in genomic sequence. Nucleic Acids Res., 25, 955-964.
-
(1997)
Nucleic Acids Res.
, vol.25
, pp. 955-964
-
-
Lowe, T.M.1
Eddy, S.R.2
-
7
-
-
0030801002
-
Gapped BLAST and PSI-BLAST: a new generation of protein database search programs
-
Altschul,S.F., Madden,T.L., Schaffer,A.A., Zhang,J., Zhang,Z., Miller,W., Lipman,D.J. (1997) Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res., 25, 3389-3402.
-
(1997)
Nucleic Acids Res.
, vol.25
, pp. 3389-3402
-
-
Altschul, S.F.1
Madden, T.L.2
Schaffer, A.A.3
Zhang, J.4
Zhang, Z.5
Miller, W.6
Lipman, D.J.7
-
8
-
-
34147183821
-
Complete genome sequence of the erythromycin-producing bacterium Saccharopolyspora erythraea NRRL23338
-
Oliynyk,M., Samborskyy,M., Lester,J., Mironenko,T., Scott,N., Dickens,S., Haydock,S., Leadlay,P. (2007) Complete genome sequence of the erythromycin-producing bacterium Saccharopolyspora erythraea NRRL23338. Nature Biotechnology, 25, 447-453.
-
(2007)
Nature Biotechnology
, vol.25
, pp. 447-453
-
-
Oliynyk, M.1
Samborskyy, M.2
Lester, J.3
Mironenko, T.4
Scott, N.5
Dickens, S.6
Haydock, S.7
Leadlay, P.8
-
9
-
-
33749858537
-
Metagenomic analysis of two enhanced biological phosphorus removal (EBPR) sludge communities
-
Martin,H., Ivanova,N., Kunin,V., Warnecke,F., Barry,K., McHardy,A., Yeates,C., He,S., Salamov,A., Szeto,S., et al. (2006) Metagenomic analysis of two enhanced biological phosphorus removal (EBPR) sludge communities. Nature Biotechnology, 24, 1263-1269.
-
(2006)
Nature Biotechnology
, vol.24
, pp. 1263-1269
-
-
Martin, H.1
Ivanova, N.2
Kunin, V.3
Warnecke, F.4
Barry, K.5
McHardy, A.6
Yeates, C.7
He, S.8
Salamov, A.9
Szeto, S.10
-
10
-
-
32844465575
-
Proteorhodopsin lateral gene transfer between marine planktonic Bacteria and Archaea
-
Frigaard,N., Martinez,A., Mincer,T., DeLong,E. (2006) Proteorhodopsin lateral gene transfer between marine planktonic Bacteria and Archaea. Nature, 439, 847-850.
-
(2006)
Nature
, vol.439
, pp. 847-850
-
-
Frigaard, N.1
Martinez, A.2
Mincer, T.3
DeLong, E.4
-
11
-
-
33750009568
-
A Small Microbial Genome: The End of a Long Symbiotic Relationship?
-
Perez-Brocal,V., Gil,R., Ramos,S., Lamelas,A., Postigo,M., Michelena,J., Silva,F., Moya,A., Latorre,A. (2006) A Small Microbial Genome: The End of a Long Symbiotic Relationship? Science, 314, 312-313.
-
(2006)
Science
, vol.314
, pp. 312-313
-
-
Perez-Brocal, V.1
Gil, R.2
Ramos, S.3
Lamelas, A.4
Postigo, M.5
Michelena, J.6
Silva, F.7
Moya, A.8
Latorre, A.9
-
12
-
-
0032900737
-
CRITICA: coding region identification tool invoking comparative analysis
-
Badger,J.H., Olsen,G.J. (1999) CRITICA: coding region identification tool invoking comparative analysis. Mol. Biol. Evol., 16, 512-524.
-
(1999)
Mol. Biol. Evol.
, vol.16
, pp. 512-524
-
-
Badger, J.H.1
Olsen, G.J.2
-
13
-
-
0033485517
-
Improved microbial gene identification with GLIMMER
-
Delcher,A., Harmon,D., Kasif,S., White,O., Salzberg,S. (1999) Improved microbial gene identification with GLIMMER. Nucleic Acids Res., 27, 4636-4641.
-
(1999)
Nucleic Acids Res.
, vol.27
, pp. 4636-4641
-
-
Delcher, A.1
Harmon, D.2
Kasif, S.3
White, O.4
Salzberg, S.5
-
14
-
-
0032415865
-
How to interpret an anonymous bacterial genome: machine learning approach to gene identification
-
Hayes,W., Borodovsky,M. (1998) How to interpret an anonymous bacterial genome: machine learning approach to gene identification. Genome Res., 8, 1154-1171.
-
(1998)
Genome Res.
, vol.8
, pp. 1154-1171
-
-
Hayes, W.1
Borodovsky, M.2
-
15
-
-
0032518163
-
Microbial gene identification using interpolated Markov models
-
Salzberg,S., Delcher,A., Kasif,S., White,O. (1998) Microbial gene identification using interpolated Markov models. Nucleic Acids Res., 26, 544-548.
-
(1998)
Nucleic Acids Res.
, vol.26
, pp. 544-548
-
-
Salzberg, S.1
Delcher, A.2
Kasif, S.3
White, O.4
-
16
-
-
0642307369
-
EasyGene-a prokaryotic gene finder that ranks ORFs by statistical significance
-
Larsen, T., Krogh, A. (2003) EasyGene-a prokaryotic gene finder that ranks ORFs by statistical significance. BMC Bioinformatics, 4, 21, 1-15.
-
(2003)
BMC Bioinformatics
, vol.4
, Issue.21
, pp. 1-15
-
-
Larsen, T.1
Krogh, A.2
-
17
-
-
0022773218
-
Statistical patterns in primary structures of functional regions in E. coli genome: III. Computer recognition of coding regions
-
Borodovsky,M.Y., Sprizhitskii,Y.A., Golovanov,E.I., Aleksandrov,A.A. (1986) Statistical patterns in primary structures of functional regions in E. coli genome: III. Computer recognition of coding regions. Mol. Biol., 20, 1390-1398.
-
(1986)
Mol. Biol.
, vol.20
, pp. 1390-1398
-
-
Borodovsky, M.Y.1
Sprizhitskii, Y.A.2
Golovanov, E.I.3
Aleksandrov, A.A.4
-
18
-
-
0027944605
-
A hidden Markov model that finds genes in E. coli DNA
-
Krogh,A., Mian,I., Haussler,D. (1994) A hidden Markov model that finds genes in E. coli DNA. Nucleic Acids Res., 22, 4768-4778.
-
(1994)
Nucleic Acids Res.
, vol.22
, pp. 4768-4778
-
-
Krogh, A.1
Mian, I.2
Haussler, D.3
-
19
-
-
0032526322
-
Combining diverse evidence for gene recognition in completely sequenced bacterial genomes
-
Frishman,D., Mironov,A., Mewes,H.W., Gelfand,M. (1998) Combining diverse evidence for gene recognition in completely sequenced bacterial genomes. Nucleic Acids Res., 26, 2941-2947.
-
(1998)
Nucleic Acids Res.
, vol.26
, pp. 2941-2947
-
-
Frishman, D.1
Mironov, A.2
Mewes, H.W.3
Gelfand, M.4
-
20
-
-
0142241306
-
Sequence alignment kernel for recognition of promoter regions
-
Gordon,L., Chervonenkis,A., Gammerman,A., Shahmuradov,I., Solovyev,V. (2003) Sequence alignment kernel for recognition of promoter regions. Bioinformatics, 19, 1964-1971.
-
(2003)
Bioinformatics
, vol.19
, pp. 1964-1971
-
-
Gordon, L.1
Chervonenkis, A.2
Gammerman, A.3
Shahmuradov, I.4
Solovyev, V.5
-
21
-
-
0032573426
-
A comprehensive library of DNA-binding site matrices for 55 proteins applied to the complete Escherichia coli K-12 genome
-
Robison,K., McGuire,A.M., Church,G.M. (1998) A comprehensive library of DNA-binding site matrices for 55 proteins applied to the complete Escherichia coli K-12 genome. J. Mol. Biol., 284, 241-54.
-
(1998)
J. Mol. Biol.
, vol.284
, pp. 241-254
-
-
Robison, K.1
McGuire, A.M.2
Church, G.M.3
-
22
-
-
0029038960
-
Predicting Pol II promoter sequences using transcription factor binding sites
-
Prestridge,D.S. (1995) Predicting Pol II promoter sequences using transcription factor binding sites. J. Mol. Biol., 249, 923-32.
-
(1995)
J. Mol. Biol.
, vol.249
, pp. 923-932
-
-
Prestridge, D.S.1
-
23
-
-
0030627562
-
The Gene-Finder computer tools for analysis of human and model organisms genome sequences
-
AAAI Press, In Rawling,C., Clark,D., Altman,R., Hunter,L., Lengauer,T., Wodak,S. (ed), June 21-25; Halkidiki, Greece. Menlo Park, CA
-
Solovyev,V.V., Salamov,A.A. (1997) The Gene-Finder computer tools for analysis of human and model organisms genome sequences. AAAI Press, 294-302. In Rawling,C., Clark,D., Altman,R., Hunter,L., Lengauer,T., Wodak,S. (ed), Proceedings of the Fifth International Conference on Intelligent Systems for Molecular Biology. June 21-25; Halkidiki, Greece. Menlo Park, CA.
-
(1997)
Proceedings of the Fifth International Conference on Intelligent Systems for Molecular Biology
, pp. 294-302
-
-
Solovyev, V.V.1
Salamov, A.A.2
-
24
-
-
0025663103
-
Prediction of rho-independent Escherichia coli transcription terminators. A statistical analysis of their RNA stem-loop structures
-
d'Aubenton-Carafa,Y., Brody,E., Thermes,C. (1990) Prediction of rho-independent Escherichia coli transcription terminators. A statistical analysis of their RNA stem-loop structures. J. Mol. Biol., 216, 835-58.
-
(1990)
J. Mol. Biol.
, vol.216
, pp. 835-858
-
-
d'Aubenton-Carafa, Y.1
Brody, E.2
Thermes, C.3
-
25
-
-
0034604382
-
Prediction of transcription terminators in bacterial genomes
-
Ermolaeva,M., Khalak,H., White,O., Smith,H., Salzberg,S. (2000) Prediction of transcription terminators in bacterial genomes. J. Mol. Biol., 301, 27-33.
-
(2000)
J. Mol. Biol.
, vol.301
, pp. 27-33
-
-
Ermolaeva, M.1
Khalak, H.2
White, O.3
Smith, H.4
Salzberg, S.5
-
26
-
-
0035444240
-
Prediction of rho-independent transcriptional terminators in Escherichia coli
-
Lesnik,E.A., Sampath,R., Levene,H.B., Henderson,T.J., McNeil,J.A., Ecker,D.J. (2001) Prediction of rho-independent transcriptional terminators in Escherichia coli. Nucleic Acids Res., 29, 3583-3594.
-
(2001)
Nucleic Acids Res.
, vol.29
, pp. 3583-3594
-
-
Lesnik, E.A.1
Sampath, R.2
Levene, H.B.3
Henderson, T.J.4
McNeil, J.A.5
Ecker, D.J.6
-
27
-
-
34447499141
-
Rapid, accurate, computational discovery of Rho-independent transcription terminators illuminates their relationship to DNA uptake
-
Kingsford,C., Ayanbule,K., Salzberg,S. (2007) Rapid, accurate, computational discovery of Rho-independent transcription terminators illuminates their relationship to DNA uptake. Genome Biol., 8, R22.
-
(2007)
Genome Biol
, vol.8
-
-
Kingsford, C.1
Ayanbule, K.2
Salzberg, S.3
-
28
-
-
0034612277
-
Operons in Escherichia coli: genomic analyses and predictions
-
Salgado,H., Moreno-Hagelsieb,G., Smith,T., Collado-Vides,J. (2000) Operons in Escherichia coli: genomic analyses and predictions. PNAS, 97, 6652-6657.
-
(2000)
PNAS
, vol.97
, pp. 6652-6657
-
-
Salgado, H.1
Moreno-Hagelsieb, G.2
Smith, T.3
Collado-Vides, J.4
-
29
-
-
0035282698
-
Prediction of operons in microbial genomes
-
Ermolaeva,M.D., White,O., Salzberg,S.L. (2001) Prediction of operons in microbial genomes. Nucleic Acids Res., 29, 1216-1221.
-
(2001)
Nucleic Acids Res.
, vol.29
, pp. 1216-1221
-
-
Ermolaeva, M.D.1
White, O.2
Salzberg, S.L.3
-
30
-
-
0036640105
-
Co-expression pattern from DNA microarray experiments as a tool for operon prediction
-
Sabatti,Ch., Rohlin,L., Oh,M., Liao,J. (2002) Co-expression pattern from DNA microarray experiments as a tool for operon prediction. Nucleic Acids Res., 30, 2886-2893.
-
(2002)
Nucleic Acids Res
, vol.30
, pp. 2886-2893
-
-
Sabatti, C.1
Rohlin, L.2
Oh, M.3
Liao, J.4
-
31
-
-
2342512807
-
Operon prediction by comparative genomics: an application to the Synechococcus sp. WH8102 genome
-
Chen,X., Su,Z., Dam,P., Palenik,B., Xu,Y., Jiang,T. (2004) Operon prediction by comparative genomics: an application to the Synechococcus sp. WH8102 genome. Nucleic Acids Res., 32, 2147-2157.
-
(2004)
Nucleic Acids Res.
, vol.32
, pp. 2147-2157
-
-
Chen, X.1
Su, Z.2
Dam, P.3
Palenik, B.4
Xu, Y.5
Jiang, T.6
-
32
-
-
33846668510
-
Operon prediction using both genome-specific and general genomic information
-
Dam,P., Olman,V., Harris,K., Su,Z., Xu,Y. (2007) Operon prediction using both genome-specific and general genomic information. Nucleic Acids Res., 35, 288-98.
-
(2007)
Nucleic Acids Res.
, vol.35
, pp. 288-298
-
-
Dam, P.1
Olman, V.2
Harris, K.3
Su, Z.4
Xu, Y.5
-
33
-
-
0033964238
-
The EcoCyc and MetaCyc databases
-
Karp,P., Riley,M., Saier,M., Paulsen,I., Paley,S., Pellegrini-Toole,A. (2000) The EcoCyc and MetaCyc databases. Nucleic Acids Res., 28, 56-59.
-
(2000)
Nucleic Acids Res.
, vol.28
, pp. 56-59
-
-
Karp, P.1
Riley, M.2
Saier, M.3
Paulsen, I.4
Paley, S.5
Pellegrini-Toole, A.6
-
34
-
-
0035162592
-
The COG database: new developments in phylogenetic classification of proteins from complete genomes
-
Tatusov,R.L., Natale,D.A., Garkavtsev,I.V., Tatusova,T.A., Shankavaram,U.T., Rao,B.S., Kiryutin,B., Galperin,M.Y., Fedorova,N.D., Koonin,E.V. (2001) The COG database: new developments in phylogenetic classification of proteins from complete genomes. Nucleic Acids Res., 29, 22-28.
-
(2001)
Nucleic Acids Res.
, vol.29
, pp. 22-28
-
-
Tatusov, R.L.1
Natale, D.A.2
Garkavtsev, I.V.3
Tatusova, T.A.4
Shankavaram, U.T.5
Rao, B.S.6
Kiryutin, B.7
Galperin, M.Y.8
Fedorova, N.D.9
Koonin, E.V.10
-
35
-
-
0033982936
-
KEGG: kyoto encyclopedia of genes and genomes
-
Kanehisa,M., Goto,S. (2000) KEGG: kyoto encyclopedia of genes and genomes. Nucleic Acids Res., 28, 27-30.
-
(2000)
Nucleic Acids Res.
, vol.28
, pp. 27-30
-
-
Kanehisa, M.1
Goto, S.2
-
36
-
-
38549177928
-
eggNOG: automated construction and annotation of orthologous groups of genes
-
Jensen,L.J., Julien,P., Kuhn,M., von Mering,C., Muller,J., Doerks,T., Bork,P. (2007) eggNOG: automated construction and annotation of orthologous groups of genes. Nucleic Acids Res., 36, D250-D254.
-
(2007)
Nucleic Acids Res
, vol.36
-
-
Jensen, L.J.1
Julien, P.2
Kuhn, M.3
von Mering, C.4
Muller, J.5
Doerks, T.6
Bork, P.7
-
37
-
-
0035162272
-
Database resources of the National Center for Biotechnology Information
-
Wheeler,D.L., Church,D.M., Lash,A.E., Leipe,D.D., Madden,T.L., Pontius,J.U., Schuler,G.D., Schriml,L.M., Tatusova,T.A., Wagner,L., et al, (2001) Database resources of the National Center for Biotechnology Information. Nucleic Acids Res., 29, 11-16.
-
(2001)
Nucleic Acids Res.
, vol.29
, pp. 11-16
-
-
Wheeler, D.L.1
Church, D.M.2
Lash, A.E.3
Leipe, D.D.4
Madden, T.L.5
Pontius, J.U.6
Schuler, G.D.7
Schriml, L.M.8
Tatusova, T.A.9
Wagner, L.10
-
38
-
-
0035875343
-
GeneMarkS: a self-training method for prediction of gene starts in microbial genomes. Implications for finding sequence motifs in regulatory regions
-
Besemer,J., Lomsadze,A., Borodovsky,M. (2001) GeneMarkS: a self-training method for prediction of gene starts in microbial genomes. Implications for finding sequence motifs in regulatory regions. Nucleic Acids Res., 29, 2607-2618.
-
(2001)
Nucleic Acids Res.
, vol.29
, pp. 2607-2618
-
-
Besemer, J.1
Lomsadze, A.2
Borodovsky, M.3
-
39
-
-
34249943969
-
Microbial genome data sources
-
Markowitz, V.M. Microbial genome data sources. Curr. Opin. Biotechnol. 18, 267-272 (2007).
-
(2007)
Curr. Opin. Biotechnol
, vol.18
, pp. 267-272
-
-
Markowitz, V.M.1
-
40
-
-
34147132825
-
Identifying bacterial genes and endosymbiont DNA with Glimmer
-
Delcher, A, Bratke, K., Powers, E., Salzberg, S. (2007) Identifying bacterial genes and endosymbiont DNA with Glimmer. Bioinformatics 23, 6, 673-679.
-
(2007)
Bioinformatics
, vol.23
, Issue.6
, pp. 673-679
-
-
Delcher, A.1
Bratke, K.2
Powers, E.3
Salzberg, S.4
-
41
-
-
67650447476
-
Fifteen years of microbial genomics: meeting the challenges and fulfilling the dream
-
Kyrpides, N. (2009) Fifteen years of microbial genomics: meeting the challenges and fulfilling the dream. Nature biotechnology, 27, 7, 627-632.
-
(2009)
Nature biotechnology
, vol.27
, Issue.7
, pp. 627-632
-
-
Kyrpides, N.1
-
42
-
-
0036084127
-
The EcoCyc Database
-
Karp,P.D., Riley,M., Saier,M., Paulsen,I.T., Collado-Vides,J., Paley,S.M., Pellegrini-Toole,A., Bonavides,C., Gama-Castro,S. (2002) The EcoCyc Database. Nucleic Acids Res., 30, 56-58.
-
(2002)
Nucleic Acids Res.
, vol.30
, pp. 56-58
-
-
Karp, P.D.1
Riley, M.2
Saier, M.3
Paulsen, I.T.4
Collado-Vides, J.5
Paley, S.M.6
Pellegrini-Toole, A.7
Bonavides, C.8
Gama-Castro, S.9
-
43
-
-
84895318177
-
Comparative Analysis of Operon Structures in Completely Sequenced Prokaryotic Genomes
-
MSc. Thesis, Technical University of Munich, Munich
-
Dungs,J. (2005) Comparative Analysis of Operon Structures in Completely Sequenced Prokaryotic Genomes. MSc. Thesis, Technical University of Munich, Munich.
-
(2005)
-
-
Dungs, J.1
-
44
-
-
3142674779
-
Genome-wide operon prediction in Staphylococcus aureus
-
Wang,L., Trawick,J.D., Yamamoto,R., Zamudio,C. (2004) Genome-wide operon prediction in Staphylococcus aureus. Nucleic Acids Res., 32, 3689-3702.
-
(2004)
Nucleic Acids Res
, vol.32
, pp. 3689-3702
-
-
Wang, L.1
Trawick, J.D.2
Yamamoto, R.3
Zamudio, C.4
-
45
-
-
0033635022
-
Artemis: sequence visualization and annotation
-
Rutherford,K., Parkhill,J., Crook,J., Horsnell,T., Rice,P., Rajandream,M., Barrell,B. (2000) Artemis: sequence visualization and annotation. Bioinformatics, 10, 944-945.
-
(2000)
Bioinformatics
, vol.10
, pp. 944-945
-
-
Rutherford, K.1
Parkhill, J.2
Crook, J.3
Horsnell, T.4
Rice, P.5
Rajandream, M.6
Barrell, B.7
-
46
-
-
14644438364
-
Circular genome visualization and exploration using CGView
-
Stothard,P., Wishart,D.S. (2005) Circular genome visualization and exploration using CGView. Bioinformatics, 21, 537-539.
-
(2005)
Bioinformatics
, vol.21
, pp. 537-539
-
-
Stothard, P.1
Wishart, D.S.2
-
47
-
-
26844447711
-
Genome-directed isolation of the key nitrogen fixer Leptospirillum ferrodiazotrophum sp. nov. from an acidophilic microbial community
-
Tyson,G., Lo,I., Baker,B., Allen,E., Hugenholtz,P., Banfield,J. (2005) Genome-directed isolation of the key nitrogen fixer Leptospirillum ferrodiazotrophum sp. nov. from an acidophilic microbial community. Appl. Envir. Microbiol., 71, 6319-6324.
-
(2005)
Appl. Envir. Microbiol.
, vol.71
, pp. 6319-6324
-
-
Tyson, G.1
Lo, I.2
Baker, B.3
Allen, E.4
Hugenholtz, P.5
Banfield, J.6
-
48
-
-
34248151050
-
Proteorhodopsin photosystem gene expression enables photophosphorylation in a heterologous host
-
Martinez,A., Bradley,A.S., Waldbauer,J.R., Summons,R.E., and DeLong,E.F. (2007) Proteorhodopsin photosystem gene expression enables photophosphorylation in a heterologous host. PNAS, 104, 5590-5595.
-
(2007)
PNAS
, vol.104
, pp. 5590-5595
-
-
Martinez, A.1
Bradley, A.S.2
Waldbauer, J.R.3
Summons, R.E.4
DeLong, E.F.5
-
49
-
-
59449109546
-
Genome sequence analysis of Helicobacter pylori strains associated with gastric ulceration and gastric cancer
-
McClain,M., Shaffer,C., Israel,D., Peek,R., Cover,T. (2009) Genome sequence analysis of Helicobacter pylori strains associated with gastric ulceration and gastric cancer. BMC Genomics, 10, 3.
-
(2009)
BMC Genomics
, vol.10
, pp. 3
-
-
McClain, M.1
Shaffer, C.2
Israel, D.3
Peek, R.4
Cover, T.5
-
50
-
-
3242725955
-
Computational prediction of conserved operons and phylogenetic footprinting of transcription regulatory elements in the metal-reducing bacterial family Geobacteraceae
-
Yan,B., Methé,B.A., Lovley,D.R., Krushkal,J. (2004) Computational prediction of conserved operons and phylogenetic footprinting of transcription regulatory elements in the metal-reducing bacterial family Geobacteraceae. J. Theor. Biol., 230, 133-144.
-
(2004)
J. Theor. Biol.
, vol.230
, pp. 133-144
-
-
Yan, B.1
Methé, B.A.2
Lovley, D.R.3
Krushkal, J.4
-
51
-
-
33750957661
-
Computational prediction of RpoS and RpoD regulatory sites in Geobacter sulfurreducens using sequence and gene expression information
-
Yan,B., Núñez,C., Ueki,T., Esteve-Núñez,A., Puljic.M., Adkins,R.M., Methé,B.A., Lovley,D.R., Krushkal,J. (2006) Computational prediction of RpoS and RpoD regulatory sites in Geobacter sulfurreducens using sequence and gene expression information. Gene, 384, 73-95.
-
(2006)
Gene
, vol.384
, pp. 73-95
-
-
Yan, B.1
Núñez, C.2
Ueki, T.3
Esteve-Núñez, A.4
Puljic, M.5
Adkins, R.M.6
Methé, B.A.7
Lovley, D.R.8
Krushkal, J.9
-
52
-
-
35448998404
-
Promoter-trap identification of wheat seed extract-induced genes in the plant-growth-promoting rhizobacterium Azospirillum brasilense Sp245
-
Pothier,J.F., Wisniewski-Dye,F., Weiss-Gayet,M., Loccoz,Y., Prigent-Combaret,C. (2007) Promoter-trap identification of wheat seed extract-induced genes in the plant-growth-promoting rhizobacterium Azospirillum brasilense Sp245. Microbiology, 153, 3608-3622
-
(2007)
Microbiology
, vol.153
, pp. 3608-3622
-
-
Pothier, J.F.1
Wisniewski-Dye, F.2
Weiss-Gayet, M.3
Loccoz, Y.4
Prigent-Combaret, C.5
-
53
-
-
33748068465
-
Deletion of TolC orthologs in Francisella tularensis identifies roles in multidrug resistance and virulence
-
Gil,H., Platz,G.J., Forestal,C.A., Monfett,M., Bakshi,C., Sellati,T.J., Furie.M.B., Benach,J.L., Thanassi,D.G. (2006) Deletion of TolC orthologs in Francisella tularensis identifies roles in multidrug resistance and virulence. PNAS, 103, 12897-12902.
-
(2006)
PNAS
, vol.103
, pp. 12897-12902
-
-
Gil, H.1
Platz, G.J.2
Forestal, C.A.3
Monfett, M.4
Bakshi, C.5
Sellati, T.J.6
Furie, M.B.7
Benach, J.L.8
Thanassi, D.G.9
-
54
-
-
34248402363
-
XphA/XqhA, a Novel GspCD Subunit for Type II Secretion in Pseudomonas aeruginosa
-
Michel,G.P., Durand,E., Filloux,A. (2007) XphA/XqhA, a Novel GspCD Subunit for Type II Secretion in Pseudomonas aeruginosa. J. Bacteriol., 189, 3776-3783.
-
(2007)
J. Bacteriol.
, vol.189
, pp. 3776-3783
-
-
Michel, G.P.1
Durand, E.2
Filloux, A.3
-
55
-
-
33846200333
-
Characterization of a higBA Toxin-Antitoxin Locus in Vibrio cholerae
-
Budde,P., Davis,B., Yuan,J., Waldor,M. (2007) Characterization of a higBA Toxin-Antitoxin Locus in Vibrio cholerae. J. Bacteriol., 189, 491-500.
-
(2007)
J. Bacteriol.
, vol.189
, pp. 491-500
-
-
Budde, P.1
Davis, B.2
Yuan, J.3
Waldor, M.4
-
56
-
-
36749101927
-
Characterization of bacterial operons consisting of two tubulins and a kinesin-like gene by the novel Two-Step Gene Walking method
-
Pilhofer,M., Bauer,A., Schrallhammer,M., Richter,L., Ludwig,W., Schleifer,K., Petroni,G. (2007) Characterization of bacterial operons consisting of two tubulins and a kinesin-like gene by the novel Two-Step Gene Walking method. Nucleic Acids Res., 35, e135.
-
(2007)
Nucleic Acids Res
, vol.35
-
-
Pilhofer, M.1
Bauer, A.2
Schrallhammer, M.3
Richter, L.4
Ludwig, W.5
Schleifer, K.6
Petroni, G.7
-
57
-
-
33644915865
-
Reconstruction and Regulation of the Central Catabolic Pathway in the Thermophilic Propionate-Oxidizing Syntroph Pelotomaculum thermopropionicum
-
Kosaka,T., Uchiyama,T., Ishii,S., Enoki,M., Imachi,H., Kamagata,Y., Ohashi,A., Harada,H., Ikenaga,H., and Watanabe,K. (2006) Reconstruction and Regulation of the Central Catabolic Pathway in the Thermophilic Propionate-Oxidizing Syntroph Pelotomaculum thermopropionicum. J. Bacteriol., 188, 202-210.
-
(2006)
J. Bacteriol.
, vol.188
, pp. 202-210
-
-
Kosaka, T.1
Uchiyama, T.2
Ishii, S.3
Enoki, M.4
Imachi, H.5
Kamagata, Y.6
Ohashi, A.7
Harada, H.8
Ikenaga, H.9
Watanabe, K.10
-
58
-
-
33645064277
-
A small RNA inhibits translation of the histone-like protein Hc1 in Chlamydia trachomatis
-
Grieshaber,N.A., Grieshaber,S.S., Fischer,E.R., Hackstadt,T. (2006) A small RNA inhibits translation of the histone-like protein Hc1 in Chlamydia trachomatis. Mol. Microbiol., 59, 541-550.
-
(2006)
Mol. Microbiol.
, vol.59
, pp. 541-550
-
-
Grieshaber, N.A.1
Grieshaber, S.S.2
Fischer, E.R.3
Hackstadt, T.4
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