-
1
-
-
4444370893
-
Reverse methanogenesis: testing the hypothesis with environmental genomics
-
Hallam SJ, Putnam N, Preston CM, Detter JC, Rokhsar D, Richardson PM, DeLong EF. 2004. Reverse methanogenesis: testing the hypothesis with environmental genomics. Science 305:1457-1462.
-
(2004)
Science
, vol.305
, pp. 1457-1462
-
-
Hallam, S.J.1
Putnam, N.2
Preston, C.M.3
Detter, J.C.4
Rokhsar, D.5
Richardson, P.M.6
DeLong, E.F.7
-
2
-
-
34547540925
-
Dissecting biological "dark matter" with single-cell genetic analysis of rare and uncultivated TM7 microbes from the human mouth
-
Marcy Y, Ouverney C, Bik EM, Losekann T, Ivanova N, Martin HG, Szeto E, Platt D, Hugenholtz P, Relman DA, Quake SR. 2007. Dissecting biological "dark matter" with single-cell genetic analysis of rare and uncultivated TM7 microbes from the human mouth. Proc. Natl. Acad. Sci. U. S. A. 104:11889-11894.
-
(2007)
Proc. Natl. Acad. Sci. U. S. A.
, vol.104
, pp. 11889-11894
-
-
Marcy, Y.1
Ouverney, C.2
Bik, E.M.3
Losekann, T.4
Ivanova, N.5
Martin, H.G.6
Szeto, E.7
Platt, D.8
Hugenholtz, P.9
Relman, D.A.10
Quake, S.R.11
-
3
-
-
34547492897
-
Matching phylogeny and metabolism in the uncultured marine bacteria, one cell at a time
-
Stepanauskas R, Sieracki ME. 2007. Matching phylogeny and metabolism in the uncultured marine bacteria, one cell at a time. Proc. Natl. Acad. Sci. U. S. A. 104:9052-9057.
-
(2007)
Proc. Natl. Acad. Sci. U. S. A.
, vol.104
, pp. 9052-9057
-
-
Stepanauskas, R.1
Sieracki, M.E.2
-
5
-
-
77953579228
-
Bacterial calcium carbonate precipitation in cave environments: a function of calcium homeostasis
-
Banks ED, Taylor NM, Gulley J, Lubbers BR, Giarrizzo JG, Bullen HA, Hoehler TM, Barton HA. 2010. Bacterial calcium carbonate precipitation in cave environments: a function of calcium homeostasis. Geomicrobiol. J. 27:444-454.
-
(2010)
Geomicrobiol. J.
, vol.27
, pp. 444-454
-
-
Banks, E.D.1
Taylor, N.M.2
Gulley, J.3
Lubbers, B.R.4
Giarrizzo, J.G.5
Bullen, H.A.6
Hoehler, T.M.7
Barton, H.A.8
-
6
-
-
0035843731
-
14C-dead living biomass: evidence for microbial assimilation of ancient organic carbon during shale weathering
-
Petsch ST, Eglington TI, Edwards KJ. 2001. 14C-dead living biomass: evidence for microbial assimilation of ancient organic carbon during shale weathering. Science 292:1127-1131.
-
(2001)
Science
, vol.292
, pp. 1127-1131
-
-
Petsch, S.T.1
Eglington, T.I.2
Edwards, K.J.3
-
7
-
-
23344440104
-
Complete genome sequence of the plant commensal Pseudomonas fluorescens Pf-5
-
Paulsen IT, Press CM, Ravel J, Kobayashi DY, Myers GS, Mavrodi DV, DeBoy RT, Seshadri R, Ren Q, Madupu R, Dodson RJ, Durkin SS, Brinkac LM, Daugherty SC, Sullivan SA, Rosovitz MJ, Gwinn ML, Zhou L, Schneider DJ, Cartinhour SW, Nelson WC, Weidman J, Watkins K, Tran K, Khouri H, Pierson EA, Pierson LS, Thomashow LS, Loper JE. 2005. Complete genome sequence of the plant commensal Pseudomonas fluorescens Pf-5. Nat. Biotechnol. 23:873-878.
-
(2005)
Nat. Biotechnol.
, vol.23
, pp. 873-878
-
-
Paulsen, I.T.1
Press, C.M.2
Ravel, J.3
Kobayashi, D.Y.4
Myers, G.S.5
Mavrodi, D.V.6
DeBoy, R.T.7
Seshadri, R.8
Ren, Q.9
Madupu, R.10
Dodson, R.J.11
Durkin, S.S.12
Brinkac, L.M.13
Daugherty, S.C.14
Sullivan, S.A.15
Rosovitz, M.J.16
Gwinn, M.L.17
Zhou, L.18
Schneider, D.J.19
Cartinhour, S.W.20
Nelson, W.C.21
Weidman, J.22
Watkins, K.23
Tran, K.24
Khouri, H.25
Pierson, E.A.26
Pierson, L.S.27
Thomashow, L.S.28
Loper, J.E.29
more..
-
8
-
-
79954576924
-
Pseudomonas protegens sp. nov., widespread plant-protecting bacteria producing the biocontrol compounds 2,4-diacetylphloroglucinol and pyoluteorin
-
Ramette A, Frapolli M, Fischer-Le Saux M, Gruffaz C, Meyer JM, Defago G, Sutra L, Moenne Loccoz Y. 2011. Pseudomonas protegens sp. nov., widespread plant-protecting bacteria producing the biocontrol compounds 2,4-diacetylphloroglucinol and pyoluteorin. Syst. Appl. Microbiol. 34:180-188.
-
(2011)
Syst. Appl. Microbiol.
, vol.34
, pp. 180-188
-
-
Ramette, A.1
Frapolli, M.2
Fischer-Le Saux, M.3
Gruffaz, C.4
Meyer, J.M.5
Defago, G.6
Sutra, L.7
Moenne Loccoz, Y.8
-
9
-
-
67649653746
-
Genomic and genetic analyses of diversity and plant interactions of Pseudomonas fluorescens
-
doi:10.1186/gb-2009-10 -5-r51.
-
Silby MW, Cerdeno Tarraga AM, Vernikos GS, Giddens SR, Jackson RW, Preston GM, Zhang XX, Moon CD, Gehrig SM, Godfrey SA, Knight CG, Malone JG, Robinson Z, Spiers AJ, Harris S, Challis GL, Yaxley AM, Harris D, Seeger K, Murphy L, Rutter S, Squares R, Quail MA, Saunders E, Mavromatis K, Brettin TS, Bentley SD, Hothersall J, Stephens E, Thomas CM, Parkhill J, Levy SB, Rainey PB, Thomson NR. 2009. Genomic and genetic analyses of diversity and plant interactions of Pseudomonas fluorescens. Genome Biol. 10:R51. doi:10.1186/gb-2009-10 -5-r51.
-
(2009)
Genome Biol.
, vol.10
-
-
Silby, M.W.1
Cerdeno Tarraga, A.M.2
Vernikos, G.S.3
Giddens, S.R.4
Jackson, R.W.5
Preston, G.M.6
Zhang, X.X.7
Moon, C.D.8
Gehrig, S.M.9
Godfrey, S.A.10
Knight, C.G.11
Malone, J.G.12
Robinson, Z.13
Spiers, A.J.14
Harris, S.15
Challis, G.L.16
Yaxley, A.M.17
Harris, D.18
Seeger, K.19
Murphy, L.20
Rutter, S.21
Squares, R.22
Quail, M.A.23
Saunders, E.24
Mavromatis, K.25
Brettin, T.S.26
Bentley, S.D.27
Hothersall, J.28
Stephens, E.29
Thomas, C.M.30
Parkhill, J.31
Levy, S.B.32
Rainey, P.B.33
Thomson, N.R.34
more..
-
10
-
-
0034739007
-
Complete genome sequence of Pseudomonas aeruginosa PAO1, an opportunistic pathogen
-
Stover CK, Pham XQ, Erwin AL, Mizoguchi SD, Warrener P, Hickey MJ, Brinkman FS, Hufnagle WO, Kowalik DJ, Lagrou M, Garber RL, Goltry L, Tolentino E, Westbrock-Wadman S, Yuan Y, Brody LL, Coulter SN, Folger KR, Kas A, Larbig K, Lim R, Smith K, Spencer D, Wong GK, Wu Z, Paulsen IT, Reizer J, Saier MH, Hancock RE, Lory S, Olson MV. 2000. Complete genome sequence of Pseudomonas aeruginosa PAO1, an opportunistic pathogen. Nature 406:959-964.
-
(2000)
Nature
, vol.406
, pp. 959-964
-
-
Stover, C.K.1
Pham, X.Q.2
Erwin, A.L.3
Mizoguchi, S.D.4
Warrener, P.5
Hickey, M.J.6
Brinkman, F.S.7
Hufnagle, W.O.8
Kowalik, D.J.9
Lagrou, M.10
Garber, R.L.11
Goltry, L.12
Tolentino, E.13
Westbrock-Wadman, S.14
Yuan, Y.15
Brody, L.L.16
Coulter, S.N.17
Folger, K.R.18
Kas, A.19
Larbig, K.20
Lim, R.21
Smith, K.22
Spencer, D.23
Wong, G.K.24
Wu, Z.25
Paulsen, I.T.26
Reizer, J.27
Saier, M.H.28
Hancock, R.E.29
Lory, S.30
Olson, M.V.31
more..
-
11
-
-
0028863461
-
Survival, colonization and dispersal of genetically modified Pseudomonas fluorescens SBW25 in the phytosphere of field grown sugar beet
-
Thompson IP, Lilley AK, Ellis RJ, Bramwell PA, Bailey MJ. 1995. Survival, colonization and dispersal of genetically modified Pseudomonas fluorescens SBW25 in the phytosphere of field grown sugar beet. Nat. Biotechnol. 13:1493-1497.
-
(1995)
Nat. Biotechnol.
, vol.13
, pp. 1493-1497
-
-
Thompson, I.P.1
Lilley, A.K.2
Ellis, R.J.3
Bramwell, P.A.4
Bailey, M.J.5
-
12
-
-
0000625018
-
Control of Rhizoctonia solani on cotton seedlings with Pseudomonas fluorescens and with an antibiotic produced by the bacterium
-
Howell CR, Stpianovic RD. 1979. Control of Rhizoctonia solani on cotton seedlings with Pseudomonas fluorescens and with an antibiotic produced by the bacterium. Phytopathology 69:480-482.
-
(1979)
Phytopathology
, vol.69
, pp. 480-482
-
-
Howell, C.R.1
Stpianovic, R.D.2
-
13
-
-
0023696644
-
Survival of rifampin- resistant mutants of Pseudomonas fluorescens and Pseudomonas putida in soil systems
-
Compeau G, Al-Achi BJ, Platsouka E, Levy SB. 1988. Survival of rifampin- resistant mutants of Pseudomonas fluorescens and Pseudomonas putida in soil systems. Appl. Environ. Microbiol. 54:2432-2438.
-
(1988)
Appl. Environ. Microbiol.
, vol.54
, pp. 2432-2438
-
-
Compeau, G.1
Al-Achi, B.J.2
Platsouka, E.3
Levy, S.B.4
-
14
-
-
0000271704
-
Genetic recombination in Pseudomonas aeruginosa
-
Holloway BW. 1955. Genetic recombination in Pseudomonas aeruginosa. J. Gen. Microbiol. 13:572-581.
-
(1955)
J. Gen. Microbiol.
, vol.13
, pp. 572-581
-
-
Holloway, B.W.1
-
15
-
-
78649714279
-
Complete genome sequence of Beutenbergia cavernae type strain (HKI 0122)
-
Land M, Pukall R, Abt B, Goker M, Rohde M, Del Rio TG, Tice H, Copeland A, Cheng JF, Lucas S, Chen F, Nolan M, Bruce D, Goodwin L, Pitluck S, Ivanova N, Mavromatis K, Ovchinnikova G, Pati A, Chen A, Palaniappan K, Hauser L, Chang YJJ, Jefferies CC, Saunders E, Brettin T, Detter JC, Han C, Chain P, Bristow J, Eisen JA, Markowitz V, Hugenholtz P, Kyrpides NC, Klenk HP, Lapidus A. 2009. Complete genome sequence of Beutenbergia cavernae type strain (HKI 0122). Standards Genomic Sci. 1:21-28.
-
(2009)
Standards Genomic Sci.
, vol.1
, pp. 21-28
-
-
Land, M.1
Pukall, R.2
Abt, B.3
Goker, M.4
Rohde, M.5
Del Rio, T.G.6
Tice, H.7
Copeland, A.8
Cheng, J.F.9
Lucas, S.10
Chen, F.11
Nolan, M.12
Bruce, D.13
Goodwin, L.14
Pitluck, S.15
Ivanova, N.16
Mavromatis, K.17
Ovchinnikova, G.18
Pati, A.19
Chen, A.20
Palaniappan, K.21
Hauser, L.22
Chang, Y.J.J.23
Jefferies, C.C.24
Saunders, E.25
Brettin, T.26
Detter, J.C.27
Han, C.28
Chain, P.29
Bristow, J.30
Eisen, J.A.31
Markowitz, V.32
Hugenholtz, P.33
Kyrpides, N.C.34
Klenk, H.P.35
Lapidus, A.36
more..
-
16
-
-
0003614762
-
-
2nd ed, Prentice Hall, Englewood Cliffs, NJ.
-
Sylvia DM, Fuhrmann JJ, Hartel PG, Zuberer DA. 2004. Principles and applications of soil microbiology, 2nd ed. Prentice Hall, Englewood Cliffs, NJ.
-
(2004)
Principles and applications of soil microbiology
-
-
Sylvia, D.M.1
Fuhrmann, J.J.2
Hartel, P.G.3
Zuberer, D.A.4
-
18
-
-
77952886150
-
Assembly algorithms for nextgeneration sequencing data
-
Miller JR, Koren S, Sutton G. 2010. Assembly algorithms for nextgeneration sequencing data. Genomics 95:315-327.
-
(2010)
Genomics
, vol.95
, pp. 315-327
-
-
Miller, J.R.1
Koren, S.2
Sutton, G.3
-
19
-
-
69949116874
-
IMG ER: a system for microbial genome annotation expert review and curation
-
Markowitz VM, Mavromatis K, Ivanova NN, Chen IMM, Chu K, Kyrpides NC. 2009. IMG ER: a system for microbial genome annotation expert review and curation. Bioinformatics 25:2271-2278.
-
(2009)
Bioinformatics
, vol.25
, pp. 2271-2278
-
-
Markowitz, V.M.1
Mavromatis, K.2
Ivanova, N.N.3
Chen, I.M.M.4
Chu, K.5
Kyrpides, N.C.6
-
20
-
-
2942538300
-
Versatile and open software for comparing large genomes
-
doi:10.1186/gb-2004-5-2-r12.
-
Kurtz S, Phillippy A, Delcher AL, Smoot M, Shumway M, Antonescu C, Salzberg SL. 2004. Versatile and open software for comparing large genomes. Genome Biol. 5:R12. doi:10.1186/gb-2004-5-2-r12.
-
(2004)
Genome Biol.
, vol.5
-
-
Kurtz, S.1
Phillippy, A.2
Delcher, A.L.3
Smoot, M.4
Shumway, M.5
Antonescu, C.6
Salzberg, S.L.7
-
21
-
-
84861430321
-
Scaffolder-software for manual genome scaffolding
-
Barton MD, Barton HA. 2012. Scaffolder-software for manual genome scaffolding. Source Code Biol. Med. 7:4.
-
(2012)
Source Code Biol. Med.
, vol.7
, pp. 4
-
-
Barton, M.D.1
Barton, H.A.2
-
22
-
-
84879470396
-
Genomer-a Swiss army knife for genome scaffolding
-
doi:10.1371/journal.pone.0066922.
-
Barton MD, Barton HA. 2013. Genomer-a Swiss army knife for genome scaffolding. PLoS One 8:e66922. doi:10.1371/journal.pone.0066922.
-
(2013)
PLoS One
, vol.8
-
-
Barton, M.D.1
Barton, H.A.2
-
24
-
-
68049142320
-
Multiple alignment of DNA sequences with MAFFT
-
Katoh K, Asimenos G, Toh H. 2009. Multiple alignment of DNA sequences with MAFFT. Methods Mol. Biol. 537:39-64.
-
(2009)
Methods Mol. Biol.
, vol.537
, pp. 39-64
-
-
Katoh, K.1
Asimenos, G.2
Toh, H.3
-
25
-
-
77955019084
-
Parallelization of the MAFFT multiple sequence alignment program
-
Katoh K, Toh H. 2010. Parallelization of the MAFFT multiple sequence alignment program. Bioinformatics 26:1899-1900.
-
(2010)
Bioinformatics
, vol.26
, pp. 1899-1900
-
-
Katoh, K.1
Toh, H.2
-
26
-
-
34547489084
-
Improvement of phylogenies after removing divergent and ambiguously aligned blocks from protein sequence alignments
-
Talavera G, Castresana J. 2007. Improvement of phylogenies after removing divergent and ambiguously aligned blocks from protein sequence alignments. Syst. Biol. 56:564-577.
-
(2007)
Syst. Biol.
, vol.56
, pp. 564-577
-
-
Talavera, G.1
Castresana, J.2
-
27
-
-
69949126557
-
PhyloBayes 3: a Bayesian software package for phylogenetic reconstruction and molecular dating
-
Lartillot N, Lepage T, Blanquart S. 2009. PhyloBayes 3: a Bayesian software package for phylogenetic reconstruction and molecular dating. Bioinformatics 25:2286-2288.
-
(2009)
Bioinformatics
, vol.25
, pp. 2286-2288
-
-
Lartillot, N.1
Lepage, T.2
Blanquart, S.3
-
28
-
-
0025267792
-
The general stochastic model of nucleotide substitution
-
Rodriguez, F, Oliver JL, Marin A, Medina JR. 1990. The general stochastic model of nucleotide substitution. J. Theor. Biol. 142:485-501.
-
(1990)
J. Theor. Biol.
, vol.142
, pp. 485-501
-
-
Rodriguez, F.1
Oliver, J.L.2
Marin, A.3
Medina, J.R.4
-
29
-
-
22344445521
-
Plasmid profiling and curing of Lactobacillus strains isolated from the gastrointestinal tract of chicken
-
Chin SC, Abdullah N, Siang TW, Wan HY. 2005. Plasmid profiling and curing of Lactobacillus strains isolated from the gastrointestinal tract of chicken. J. Microbiol. 43:251-256.
-
(2005)
J. Microbiol.
, vol.43
, pp. 251-256
-
-
Chin, S.C.1
Abdullah, N.2
Siang, T.W.3
Wan, H.Y.4
-
30
-
-
13244279471
-
Global features of sequences of bacterial chromosomes, plasmids and phages revealed by analysis of oligonucleotide usage patterns
-
Reva ON, Tummler, B. 2004. Global features of sequences of bacterial chromosomes, plasmids and phages revealed by analysis of oligonucleotide usage patterns. BMC Bioinformatics 5:90.
-
(2004)
BMC Bioinformatics
, vol.5
, pp. 90
-
-
Reva, O.N.1
Tummler, B.2
-
31
-
-
27644545371
-
Differentiation of regions with atypical oligonucleotide composition in bacterial genomes
-
Reva ON, Tummler, B. 2005. Differentiation of regions with atypical oligonucleotide composition in bacterial genomes. BMC Bioinformatics 6:251.
-
(2005)
BMC Bioinformatics
, vol.6
, pp. 251
-
-
Reva, O.N.1
Tummler, B.2
-
32
-
-
28444445926
-
-
R Development Core Team. R Foundation for Statistical Computing, Vienna, Austria
-
R Development Core Team. 2005. R: a language and environment for statistical computing. R Foundation for Statistical Computing, Vienna, Austria.
-
(2005)
R: a language and environment for statistical computing
-
-
-
33
-
-
0034911878
-
Phenotype microarrays for high-throughput phenotypic testing and assay of gene function
-
Bochner BR, Gadzinski P, Panomitros E. 2001. Phenotype microarrays for high-throughput phenotypic testing and assay of gene function. Genome Res. 11:1246-1255.
-
(2001)
Genome Res.
, vol.11
, pp. 1246-1255
-
-
Bochner, B.R.1
Gadzinski, P.2
Panomitros, E.3
-
34
-
-
27944496776
-
Common beta-lactamases inhibit bacterial biofilm formation
-
Gallant CV, Daniels C, Leung JM, Ghosh AS, Young KD, Kotra LP, Burrows LL. 2005. Common beta-lactamases inhibit bacterial biofilm formation. Mol. Microbiol. 58:1012-1024.
-
(2005)
Mol. Microbiol.
, vol.58
, pp. 1012-1024
-
-
Gallant, C.V.1
Daniels, C.2
Leung, J.M.3
Ghosh, A.S.4
Young, K.D.5
Kotra, L.P.6
Burrows, L.L.7
-
35
-
-
55749114256
-
PilF is an outer membrane lipoprotein required for multimerization and localization of the Pseudomonas aeruginosa type IV pilus secretin
-
Koo J, Tammam S, Ku SY, Sampaleanu LM, Burrows LL, Howell PL. 2008. PilF is an outer membrane lipoprotein required for multimerization and localization of the Pseudomonas aeruginosa type IV pilus secretin. J. Bacteriol. 190:6961-6969.
-
(2008)
J. Bacteriol.
, vol.190
, pp. 6961-6969
-
-
Koo, J.1
Tammam, S.2
Ku, S.Y.3
Sampaleanu, L.M.4
Burrows, L.L.5
Howell, P.L.6
-
36
-
-
43349086724
-
Two simple media for the demonstration of pyocyanin and fluorescin
-
King EO, Ward MK, Raney DE. 1954. Two simple media for the demonstration of pyocyanin and fluorescin. J. Lab. Clin. Med. 44:301-307.
-
(1954)
J. Lab. Clin. Med.
, vol.44
, pp. 301-307
-
-
King, E.O.1
Ward, M.K.2
Raney, D.E.3
-
37
-
-
43449108562
-
The minimum information about a genome sequence (MIGS) specification
-
Field D, Garrity G, Gray T, Morrison N, Selengut J, Sterk P, Tatusova T, Thomson N, Allen MJ, Angiuoli SV, Ashburner M, Axelrod N, Baldauf S, Ballard S, Boore J, Cochrane G, Cole J, Dawyndt P, De Vos P, DePamphilis C, Edwards R, Faruque N, Feldman R, Gilbert J, Gilna P, Oliver F, Goldstein P, Guralnick R, Haft D, Hancock D, Hermjakob H, Hertz-Fowler C, Hugenholtz P, Joint I, Kagan L, Kane M, Kennedy J, Kowalchuk G, Kottmann R, Kolker E, Kravitz S, Kyrpides N, Leebens-Mack J, Lewis SE, Li K, Lister AL, Lord P, Maltsev N, Markowitz V, Martiny J, Methe B, et al. 2008. The minimum information about a genome sequence (MIGS) specification. Nat. Biotechnol. 26:541-547.
-
(2008)
Nat. Biotechnol.
, vol.26
, pp. 541-547
-
-
Field, D.1
Garrity, G.2
Gray, T.3
Morrison, N.4
Selengut, J.5
Sterk, P.6
Tatusova, T.7
Thomson, N.8
Allen, M.J.9
Angiuoli, S.V.10
Ashburner, M.11
Axelrod, N.12
Baldauf, S.13
Ballard, S.14
Boore, J.15
Cochrane, G.16
Cole, J.17
Dawyndt, P.18
De Vos, P.19
DePamphilis, C.20
Edwards, R.21
Faruque, N.22
Feldman, R.23
Gilbert, J.24
Gilna, P.25
Oliver, F.26
Goldstein, P.27
Guralnick, R.28
Haft, D.29
Hancock, D.30
Hermjakob, H.31
Hertz-Fowler, C.32
Hugenholtz, P.33
Joint, I.34
Kagan, L.35
Kane, M.36
Kennedy, J.37
Kowalchuk, G.38
Kottmann, R.39
Kolker, E.40
Kravitz, S.41
Kyrpides, N.42
Leebens-Mack, J.43
Lewis, S.E.44
Li, K.45
Lister, A.L.46
Lord, P.47
Maltsev, N.48
Markowitz, V.49
Martiny, J.50
Methe, B.51
more..
-
38
-
-
24944453122
-
Whole-genome sequence analysis of Pseudomonas syringae pv. phaseolicola 1448A reveals divergence among pathovars in genes involved in virulence and transposition
-
Joardar V, Lindeberg M, Jackson RW, Selengut J, Dodson R, Brinkac LM, Daugherty SC, Deboy R, Durkin SS, Gwinn M, Madupu R, Nelson WC, Rosovitz MJ, Sullivan S, Crabtree J, Creasy T, Davidsen T, Haft DH, Zafar N, Zhou L, Halpin R, Holley T, Khouri H, Feldblyum T, White O, Fraser CM, Chatterjee AK, Cartinhour S, Schneider DJ, Mansfield J, Collmer A, Buell RR. 2005. Whole-genome sequence analysis of Pseudomonas syringae pv. phaseolicola 1448A reveals divergence among pathovars in genes involved in virulence and transposition. J. Bacteriol. 187:6488-6498.
-
(2005)
J. Bacteriol.
, vol.187
, pp. 6488-6498
-
-
Joardar, V.1
Lindeberg, M.2
Jackson, R.W.3
Selengut, J.4
Dodson, R.5
Brinkac, L.M.6
Daugherty, S.C.7
Deboy, R.8
Durkin, S.S.9
Gwinn, M.10
Madupu, R.11
Nelson, W.C.12
Rosovitz, M.J.13
Sullivan, S.14
Crabtree, J.15
Creasy, T.16
Davidsen, T.17
Haft, D.H.18
Zafar, N.19
Zhou, L.20
Halpin, R.21
Holley, T.22
Khouri, H.23
Feldblyum, T.24
White, O.25
Fraser, C.M.26
Chatterjee, A.K.27
Cartinhour, S.28
Schneider, D.J.29
Mansfield, J.30
Collmer, A.31
Buell, R.R.32
more..
-
39
-
-
3242798911
-
Nucleotide sequence and evolution of the five-plasmid complement of the phytopathogen Pseudomonas syringae pv. maculicola ES4326
-
Stavrinides J, Guttman DS. 2004. Nucleotide sequence and evolution of the five-plasmid complement of the phytopathogen Pseudomonas syringae pv. maculicola ES4326. J. Bacteriol. 186:5101-5115.
-
(2004)
J. Bacteriol.
, vol.186
, pp. 5101-5115
-
-
Stavrinides, J.1
Guttman, D.S.2
-
40
-
-
84861469892
-
Variable carbon catabolism among Salmonella enterica serovar Typhi isolates
-
doi:10.1371/journal.pone.0036201.
-
Chai LC, Hong BH, Elemfareji OI, Thong KL. 2012. Variable carbon catabolism among Salmonella enterica serovar Typhi isolates. PLoS One 7:e36201. doi:10.1371/journal.pone.0036201.
-
(2012)
PLoS One
, vol.7
-
-
Chai, L.C.1
Hong, B.H.2
Elemfareji, O.I.3
Thong, K.L.4
-
41
-
-
38949166058
-
Genomic, genetic and structural analysis of pyoverdinemediated iron acquisition in the plant growth-promoting bacterium Pseudomonas fluorescens SBW25
-
Moon CD, Zhang XX, Matthijs S, Schafer M, Budzikiewicz H, Rainey PB. 2008. Genomic, genetic and structural analysis of pyoverdinemediated iron acquisition in the plant growth-promoting bacterium Pseudomonas fluorescens SBW25. BMC Microbiol. 8:7.
-
(2008)
BMC Microbiol.
, vol.8
, pp. 7
-
-
Moon, C.D.1
Zhang, X.X.2
Matthijs, S.3
Schafer, M.4
Budzikiewicz, H.5
Rainey, P.B.6
-
42
-
-
0038689220
-
Genomics of pyoverdine-mediated iron uptake in pseudomonads
-
Ravel J, Cornelis P. 2003. Genomics of pyoverdine-mediated iron uptake in pseudomonads. Trends Microbiol. 11:195-200.
-
(2003)
Trends Microbiol.
, vol.11
, pp. 195-200
-
-
Ravel, J.1
Cornelis, P.2
-
43
-
-
79959517361
-
TonB-dependent outer-membrane proteins and siderophore utilization in Pseudomonas fluorescens Pf-5
-
Hartney SL, Mazurier S, Kidarsa TA, Carolina M, Lemanceau P, Loper JE. 2011. TonB-dependent outer-membrane proteins and siderophore utilization in Pseudomonas fluorescens Pf-5. Biometals 24:193-213.
-
(2011)
Biometals
, vol.24
, pp. 193-213
-
-
Hartney, S.L.1
Mazurier, S.2
Kidarsa, T.A.3
Carolina, M.4
Lemanceau, P.5
Loper, J.E.6
-
44
-
-
0347567163
-
Heavy metal tolerance and metal homeostasis in Pseudomonas putida as revealed by complete genome analysis
-
Canovas D, Cases I, de Lorenzo V. 2003. Heavy metal tolerance and metal homeostasis in Pseudomonas putida as revealed by complete genome analysis. Environ. Microbiol. 5:1242-1256.
-
(2003)
Environ. Microbiol.
, vol.5
, pp. 1242-1256
-
-
Canovas, D.1
Cases, I.2
de Lorenzo, V.3
-
45
-
-
0035903128
-
The independent cue and cus systems confer copper tolerance during aerobic and anaerobic growth in Escherichia coli
-
Outten FW, Huffman DL, Hale JA, O'Halloran TV. 2001. The independent cue and cus systems confer copper tolerance during aerobic and anaerobic growth in Escherichia coli. J. Biol. Chem. 276:30670-30677.
-
(2001)
J. Biol. Chem.
, vol.276
, pp. 30670-30677
-
-
Outten, F.W.1
Huffman, D.L.2
Hale, J.A.3
O'Halloran, T.V.4
-
46
-
-
0037565100
-
Copper homeostasis in Enterococcus hirae
-
Solioz, M., Stoyanov, J. V. 2003. Copper homeostasis in Enterococcus hirae. FEMS Microbiol. Rev. 27:183-195.
-
(2003)
FEMS Microbiol. Rev.
, vol.27
, pp. 183-195
-
-
Solioz, M.1
Stoyanov, J.V.2
-
47
-
-
55849141968
-
Regulation of copper homeostasis in Pseudomonas fluorescens SBW25
-
Zhang XX, Rainey PB. 2008. Regulation of copper homeostasis in Pseudomonas fluorescens SBW25. Environ. Microbiol. 10:3284-3294.
-
(2008)
Environ. Microbiol.
, vol.10
, pp. 3284-3294
-
-
Zhang, X.X.1
Rainey, P.B.2
-
48
-
-
77957735228
-
Bacteria use type IV pili to walk upright and detach from surfaces
-
Gibiansky ML, Conrad JC, Jin F, Gordon VD, Motto DA, Mathewson MA, Stopka WG, Zelasko DC, Shrout JD, Wong GCL. 2010. Bacteria use type IV pili to walk upright and detach from surfaces. Science 330:197.
-
(2010)
Science
, vol.330
, pp. 197
-
-
Gibiansky, M.L.1
Conrad, J.C.2
Jin, F.3
Gordon, V.D.4
Motto, D.A.5
Mathewson, M.A.6
Stopka, W.G.7
Zelasko, D.C.8
Shrout, J.D.9
Wong, G.C.L.10
-
49
-
-
44949242637
-
Nitrogen fixation island and rhizosphere competence traits in the genome of root-associated Pseudomonas stutzeri A1501
-
Yan Y, Yang J, Dou Y, Chen M, Ping S, Peng J, Lu W, Zhang W, Yao Z, Li H, Liu W, He S, Geng L, Zhang X, Yang F, Yu H, Zhan Y, Li D, Lin Z, Wang Y, Elmerich C, Lin M, Jin Q. 2008. Nitrogen fixation island and rhizosphere competence traits in the genome of root-associated Pseudomonas stutzeri A1501. Proc. Natl. Acad. Sci. U. S. A. 105:7564-7569.
-
(2008)
Proc. Natl. Acad. Sci. U. S. A.
, vol.105
, pp. 7564-7569
-
-
Yan, Y.1
Yang, J.2
Dou, Y.3
Chen, M.4
Ping, S.5
Peng, J.6
Lu, W.7
Zhang, W.8
Yao, Z.9
Li, H.10
Liu, W.11
He, S.12
Geng, L.13
Zhang, X.14
Yang, F.15
Yu, H.16
Zhan, Y.17
Li, D.18
Lin, Z.19
Wang, Y.20
Elmerich, C.21
Lin, M.22
Jin, Q.23
more..
-
50
-
-
0031690144
-
Physiological and molecular biological characterization of ammonia oxidation of the heterotrophic nitrifier Pseudomonas putida
-
Daum M, Zimmer W, Papen H, Kloos K, Nawrath K, Bothe H. 1998. Physiological and molecular biological characterization of ammonia oxidation of the heterotrophic nitrifier Pseudomonas putida. Curr. Microbiol. 37:281-288.
-
(1998)
Curr. Microbiol.
, vol.37
, pp. 281-288
-
-
Daum, M.1
Zimmer, W.2
Papen, H.3
Kloos, K.4
Nawrath, K.5
Bothe, H.6
-
51
-
-
77957116092
-
Microreview: Type IV secretion systems: versatility and diversity in function
-
Wallden K, Rivera-Calzada A, Waksman G. 2010. Microreview: Type IV secretion systems: versatility and diversity in function. Cell. Microbiol. 12:1203-1212.
-
(2010)
Cell. Microbiol.
, vol.12
, pp. 1203-1212
-
-
Wallden, K.1
Rivera-Calzada, A.2
Waksman, G.3
-
52
-
-
77749320916
-
Complete genome sequence of the multiresistant taxonomic outlier Pseudomonas aeruginosa PA7
-
doi:10.1371/journal.pone .0008842.
-
Roy PH, Tetu SG, Larouche A, Elbourne L, Tremblay S, Ren Q, Dodson R, Harkins D, Shay R, Watkins K, Mahamoud Y, Paulsen IT. 2010. Complete genome sequence of the multiresistant taxonomic outlier Pseudomonas aeruginosa PA7. PLoS One 5:e8842. doi:10.1371/journal.pone .0008842.
-
(2010)
PLoS One
, vol.5
-
-
Roy, P.H.1
Tetu, S.G.2
Larouche, A.3
Elbourne, L.4
Tremblay, S.5
Ren, Q.6
Dodson, R.7
Harkins, D.8
Shay, R.9
Watkins, K.10
Mahamoud, Y.11
Paulsen, I.T.12
-
53
-
-
0036405357
-
Type IV pili and twitching motility
-
Mattick JS. 2002. Type IV pili and twitching motility. Annu. Rev. Microbiol. 56:289-314.
-
(2002)
Annu. Rev. Microbiol.
, vol.56
, pp. 289-314
-
-
Mattick, J.S.1
-
54
-
-
0030998924
-
The plasmid R64 thin pilus identified as a type IV pilus
-
Kim SR, Komano T. 1997. The plasmid R64 thin pilus identified as a type IV pilus. J. Bacteriol. 179:3594-3603.
-
(1997)
J. Bacteriol.
, vol.179
, pp. 3594-3603
-
-
Kim, S.R.1
Komano, T.2
-
55
-
-
77954142279
-
Complete genome sequence of the incompatibility group I1 plasmid R64
-
Sampei GI, Furuya N, Tachibana K, Saitou Y, Suzuki T, Mizobuchi K, Komano T. 2010. Complete genome sequence of the incompatibility group I1 plasmid R64. Plasmid 64:92-103.
-
(2010)
Plasmid
, vol.64
, pp. 92-103
-
-
Sampei, G.I.1
Furuya, N.2
Tachibana, K.3
Saitou, Y.4
Suzuki, T.5
Mizobuchi, K.6
Komano, T.7
-
56
-
-
61949310364
-
Mobile genetic elements in the genome of the beneficial rhizobacterium Pseudomonas fluorescens Pf-5
-
Mavrodi DV, Loper JE, Paulsen IT, Thomashow LS. 2009. Mobile genetic elements in the genome of the beneficial rhizobacterium Pseudomonas fluorescens Pf-5. BMC Microbiol. 9:8.
-
(2009)
BMC Microbiol.
, vol.9
, pp. 8
-
-
Mavrodi, D.V.1
Loper, J.E.2
Paulsen, I.T.3
Thomashow, L.S.4
-
57
-
-
77954374364
-
The Pseudomonas aeruginosa pathogenicity island PAPI-1 is transferred via a novel type IV pilus
-
Carter MQ, Chen J, Lory S. 2010. The Pseudomonas aeruginosa pathogenicity island PAPI-1 is transferred via a novel type IV pilus. J. Bacteriol. 192:3249-3258.
-
(2010)
J. Bacteriol.
, vol.192
, pp. 3249-3258
-
-
Carter, M.Q.1
Chen, J.2
Lory, S.3
-
58
-
-
70350141013
-
PilM/N/O/P proteins form an inner membrane complex that affects the stability of the Pseudomonas aeruginosa type IV pilus secretin
-
Ayers M. 2009. PilM/N/O/P proteins form an inner membrane complex that affects the stability of the Pseudomonas aeruginosa type IV pilus secretin. J. Mol. Biol. 394:128-142.
-
(2009)
J. Mol. Biol.
, vol.394
, pp. 128-142
-
-
Ayers, M.1
-
59
-
-
84857858645
-
Genome sequence of the biocontrol strain Pseudomonas fluorescens F113
-
Redondo-Nieto M, Barret M, Morrisey JP, Germaine K, Martinez- Granero F, Barahona E, Navazo A, Sanchez-Contreras M, Moynihan JA, Giddens SR, Coppoolse ER, Muriel C, Stiekema WJ, Rainey PB, Dowling D, O'Gara F, Martin M, Rivilla R. 2012. Genome sequence of the biocontrol strain Pseudomonas fluorescens F113. J. Bacteriol. 194: 1273-1274.
-
(2012)
J. Bacteriol.
, vol.194
, pp. 1273-1274
-
-
Redondo-Nieto, M.1
Barret, M.2
Morrisey, J.P.3
Germaine, K.4
Martinez-Granero, F.5
Barahona, E.6
Navazo, A.7
Sanchez-Contreras, M.8
Moynihan, J.A.9
Giddens, S.R.10
Coppoolse, E.R.11
Muriel, C.12
Stiekema, W.J.13
Rainey, P.B.14
Dowling, D.15
O'Gara, F.16
Martin, M.17
Rivilla, R.18
-
60
-
-
84864591224
-
Comparative genomics of plantassociated Pseudomonas spp.: insights into diversity and inheritance of traits involved in multitrophic interactions
-
doi: 10.1371/journal.pgen.1002784.
-
Loper JE, Hassan KA, Mavrodi DV, Davis EW, Kent C, Shaffer BT, Elbourne LD, Stockwell VO, Hartney SL, Breakwell K, Henkels MD, Tetu SG, Rangel LI, Kidarsa TA, Wilson NL, van de Mortel JE, Song C, Blumhagen R, Radune D, Hostetler JB, Brinkac LM, Durkin SS, Kluepfel DA, Wechter PP, Anderson AJ, Cheol Y, Pierson LS, Pierson EA, Lindow SE, Kobayashi DY, Raaijmakers JM, Weller DM, Thomashow LS, Allen AE, Paulsen IT. 2012. Comparative genomics of plantassociated Pseudomonas spp.: insights into diversity and inheritance of traits involved in multitrophic interactions. PLoS Genet. 8:e1002784. doi: 10.1371/journal.pgen.1002784.
-
(2012)
PLoS Genet.
, vol.8
-
-
Loper, J.E.1
Hassan, K.A.2
Mavrodi, D.V.3
Davis, E.W.4
Kent, C.5
Shaffer, B.T.6
Elbourne, L.D.7
Stockwell, V.O.8
Hartney, S.L.9
Breakwell, K.10
Henkels, M.D.11
Tetu, S.G.12
Rangel, L.I.13
Kidarsa, T.A.14
Wilson, N.L.15
van de Mortel, J.E.16
Song, C.17
Blumhagen, R.18
Radune, D.19
Hostetler, J.B.20
Brinkac, L.M.21
Durkin, S.S.22
Kluepfel, D.A.23
Wechter, P.P.24
Anderson, A.J.25
Cheol, Y.26
Pierson, L.S.27
Pierson, E.A.28
Lindow, S.E.29
Kobayashi, D.Y.30
Raaijmakers, J.M.31
Weller, D.M.32
Thomashow, L.S.33
Allen, A.E.34
Paulsen, I.T.35
more..
-
61
-
-
80055065227
-
New roles for bacterial siderophores in metal transport and tolerance
-
Schalk IJ, Hannauer M, Braud A. 2011. New roles for bacterial siderophores in metal transport and tolerance. Environ. Microbiol. 13:2844-2854.
-
(2011)
Environ. Microbiol.
, vol.13
, pp. 2844-2854
-
-
Schalk, I.J.1
Hannauer, M.2
Braud, A.3
-
62
-
-
73449134067
-
Linking phylogenetic and functional diversity to nutrient spiraling in microbial mats from Lower Kane Cave (U. S. A.)
-
Engel ASS, Meisinger DB, Porter ML, Payn RA, Schmid M, Stern LA, Schleifer KH, Lee NM. 2010. Linking phylogenetic and functional diversity to nutrient spiraling in microbial mats from Lower Kane Cave (U. S. A.). ISME J. 4:98-110.
-
(2010)
ISME J.
, vol.4
, pp. 98-110
-
-
Engel, A.S.S.1
Meisinger, D.B.2
Porter, M.L.3
Payn, R.A.4
Schmid, M.5
Stern, L.A.6
Schleifer, K.H.7
Lee, N.M.8
-
63
-
-
78651281319
-
Genomic fluidity: an integrative view of gene diversity within microbial populations
-
Kislyuk A, Haegeman B, Bergman N, Weitz J. 2011. Genomic fluidity: an integrative view of gene diversity within microbial populations. BMC Genomics 12:32.
-
(2011)
BMC Genomics
, vol.12
, pp. 32
-
-
Kislyuk, A.1
Haegeman, B.2
Bergman, N.3
Weitz, J.4
-
64
-
-
42649085698
-
Type IV pili: e pluribus unum? Mol
-
Pelicic V. 2008. Type IV pili: e pluribus unum? Mol. Microbiol. 68:827-837.
-
(2008)
Microbiol.
, vol.68
, pp. 827-837
-
-
Pelicic, V.1
-
65
-
-
66849089254
-
Characterization of a novel air-liquid interface biofilm of Pseudomonas fluorescens SBW25
-
Koza A, Hallett PD, Moon CD, Spiers AJ. 2009. Characterization of a novel air-liquid interface biofilm of Pseudomonas fluorescens SBW25. Microbiology 155:1397-1406.
-
(2009)
Microbiology
, vol.155
, pp. 1397-1406
-
-
Koza, A.1
Hallett, P.D.2
Moon, C.D.3
Spiers, A.J.4
|