-
1
-
-
77949568092
-
Call of the wild: Antibiotic resistance genes in natural environments
-
Allen, H. K., Donato, J., Wang, H. H., Cloud-Hansen, K. A., Davies, J. & Handelsman, J. (2010). Call of the wild: antibiotic resistance genes in natural environments. Nat Rev Microbiol 8, 251-259.
-
(2010)
Nat Rev Microbiol
, vol.8
, pp. 251-259
-
-
Allen, H.K.1
Donato, J.2
Wang, H.H.3
Cloud-Hansen, K.A.4
Davies, J.5
Handelsman, J.6
-
2
-
-
0025183708
-
Basic local alignment search tool
-
Altschul, S. F., Gish, W., Miller, W., Myers, E. W. & Lipman, D. J. (1990). Basic local alignment search tool. J Mol Biol 215, 403-410.
-
(1990)
J Mol Biol
, vol.215
, pp. 403-410
-
-
Altschul, S.F.1
Gish, W.2
Miller, W.3
Myers, E.W.4
Lipman, D.J.5
-
3
-
-
31544450286
-
Construction of Escherichia coli K-12 in-frame, single-gene knockout mutants: The Keio collection
-
Baba, T., Ara, T., Hasegawa, M., Takai, Y., Okumura, Y., Baba, M., Datsenko, K. A., Tomita, M., Wanner, B. L. & Mori, H. (2006). Construction of Escherichia coli K-12 in-frame, single-gene knockout mutants: the Keio collection. Mol Syst Biol 2, 2006.0008.
-
(2006)
Mol Syst Biol
, vol.2
-
-
Baba, T.1
Ara, T.2
Hasegawa, M.3
Takai, Y.4
Okumura, Y.5
Baba, M.6
Datsenko, K.A.7
Tomita, M.8
Wanner, B.L.9
Mori, H.10
-
4
-
-
0019805971
-
Specific-purpose plasmid cloning vectors. II. Broad host range, high copy number, RSF1010-derived vectors, and a host-vector system for gene cloning in Pseudomonas
-
Bagdasarian, M., Lurz, R., Rückert, B., Franklin, F. C., Bagdasarian, M. M., Frey, J. & Timmis, K. N. (1981). Specific-purpose plasmid cloning vectors. II. Broad host range, high copy number, RSF1010-derived vectors, and a host-vector system for gene cloning in Pseudomonas. Gene 16, 237-247.
-
(1981)
Gene
, vol.16
, pp. 237-247
-
-
Bagdasarian, M.1
Lurz, R.2
Rückert, B.3
Franklin, F.C.4
Bagdasarian, M.M.5
Frey, J.6
Timmis, K.N.7
-
5
-
-
34249872978
-
The multiple antibiotic resistance IncP-1 plasmid pKJK5 isolated from a soil environment is phylogenetically divergent from members of the previously established α, β and δ sub-groups
-
Bahl, M. I., Hansen, L. H., Goesmann, A. & Sørensen, S. J. (2007). The multiple antibiotic resistance IncP-1 plasmid pKJK5 isolated from a soil environment is phylogenetically divergent from members of the previously established α, β and δ sub-groups. Plasmid 58, 31-43.
-
(2007)
Plasmid
, vol.58
, pp. 31-43
-
-
Bahl, M.I.1
Hansen, L.H.2
Goesmann, A.3
Sørensen, S.J.4
-
6
-
-
67650710749
-
All IncP-1 plasmid subgroups, including the novel epsilon subgroup, are prevalent in the influent of a Danish wastewater treatment plant
-
Bahl, M. I., Burmølle, M., Meisner, A., Hansen, L. H. & Sørensen, S. J. (2009). All IncP-1 plasmid subgroups, including the novel epsilon subgroup, are prevalent in the influent of a Danish wastewater treatment plant. Plasmid 62, 134-139.
-
(2009)
Plasmid
, vol.62
, pp. 134-139
-
-
Bahl, M.I.1
Burmølle, M.2
Meisner, A.3
Hansen, L.H.4
Sørensen, S.J.5
-
7
-
-
51649088022
-
Piggery manure used for soil fertilization is a reservoir for transferable antibiotic resistance plasmids
-
Binh, C. T., Heuer, H., Kaupenjohann, M. & Smalla, K. (2008). Piggery manure used for soil fertilization is a reservoir for transferable antibiotic resistance plasmids. FEMS Microbiol Ecol 66, 25-37.
-
(2008)
FEMS Microbiol Ecol
, vol.66
, pp. 25-37
-
-
Binh, C.T.1
Heuer, H.2
Kaupenjohann, M.3
Smalla, K.4
-
8
-
-
0017184389
-
A rapid and sensitive method for the quantitation of microgram quantities of protein utilizing the principle of protein-dye binding
-
Bradford, M. M. (1976). A rapid and sensitive method for the quantitation of microgram quantities of protein utilizing the principle of protein-dye binding. Anal Biochem 72, 248-254.
-
(1976)
Anal Biochem
, vol.72
, pp. 248-254
-
-
Bradford, M.M.1
-
9
-
-
84886671563
-
Diverse broad-host-range plasmids from freshwater carry few accessory genes
-
In press
-
Brown, C. J., Sen, D., Yano, H., Bauer, M. L., Rogers, L. M., Van der Auwera, G. A. & Top, E. M. (2013). Diverse broad-host-range plasmids from freshwater carry few accessory genes. Appl Environ Microbiol. In press.
-
(2013)
Appl Environ Microbiol.
-
-
Brown, C.J.1
Sen, D.2
Yano, H.3
Bauer, M.L.4
Rogers, L.M.5
Van der Auwera, G.A.6
Top, E.M.7
-
10
-
-
0034674621
-
Interactions of DnaA proteins from distantly related bacteria with the replication origin of the broad host range plasmid RK2
-
Caspi, R., Helinski, D. R., Pacek, M. & Konieczny, I. (2000). Interactions of DnaA proteins from distantly related bacteria with the replication origin of the broad host range plasmid RK2. J Biol Chem 275, 18454-18461.
-
(2000)
J Biol Chem
, vol.275
, pp. 18454-18461
-
-
Caspi, R.1
Helinski, D.R.2
Pacek, M.3
Konieczny, I.4
-
11
-
-
0021991832
-
P1 plasmid replication: Multiple functions of RepA protein at the origin
-
Chattoraj, D. K., Snyder, K. M. & Abeles, A. L. (1985). P1 plasmid replication: multiple functions of RepA protein at the origin. Proc Natl Acad Sci U S A 82, 2588-2592.
-
(1985)
Proc Natl Acad Sci U S A
, vol.82
, pp. 2588-2592
-
-
Chattoraj, D.K.1
Snyder, K.M.2
Abeles, A.L.3
-
12
-
-
0030732679
-
Conjugative plasmids isolated from bacteria in marine environments show various degrees of homology to each other and are not closely related to well-characterized plasmids
-
Dahlberg, C., Linberg, C., Torsvik, V. L. & Hermansson, M. (1997). Conjugative plasmids isolated from bacteria in marine environments show various degrees of homology to each other and are not closely related to well-characterized plasmids. Appl Environ Microbiol 63, 4692-4697.
-
(1997)
Appl Environ Microbiol
, vol.63
, pp. 4692-4697
-
-
Dahlberg, C.1
Linberg, C.2
Torsvik, V.L.3
Hermansson, M.4
-
13
-
-
25144453536
-
Plasmid donor affects host range of promiscuous IncP-1β plasmid pB10 in an activated-sludge microbial community
-
De Gelder, L., Vandecasteele, F. P., Brown, C. J., Forney, L. J. & Top, E. M. (2005). Plasmid donor affects host range of promiscuous IncP-1β plasmid pB10 in an activated-sludge microbial community. Appl Environ Microbiol 71, 5309-5317.
-
(2005)
Appl Environ Microbiol
, vol.71
, pp. 5309-5317
-
-
De Gelder, L.1
Vandecasteele, F.P.2
Brown, C.J.3
Forney, L.J.4
Top, E.M.5
-
14
-
-
33847231339
-
Stability of a promiscuous plasmid in different hosts: No guarantee for a longterm relationship
-
De Gelder, L., Ponciano, J. M., Joyce, P. & Top, E. M. (2007). Stability of a promiscuous plasmid in different hosts: no guarantee for a longterm relationship. Microbiology 153, 452-463.
-
(2007)
Microbiology
, vol.153
, pp. 452-463
-
-
De Gelder, L.1
Ponciano, J.M.2
Joyce, P.3
Top, E.M.4
-
15
-
-
14644386907
-
A new family of mobilizable suicide plasmids based on broad host range R388 plasmid (IncW) and RP4 plasmid (IncPα) conjugative machineries and their cognate Escherichia coli host strains
-
Demarre, G., Guérout, A. M., Matsumoto-Mashimo, C., Rowe-Magnus, D. A., Marlière, P. & Mazel, D. (2005). A new family of mobilizable suicide plasmids based on broad host range R388 plasmid (IncW) and RP4 plasmid (IncPα) conjugative machineries and their cognate Escherichia coli host strains. Res Microbiol 156, 245-255.
-
(2005)
Res Microbiol
, vol.156
, pp. 245-255
-
-
Demarre, G.1
Guérout, A.M.2
Matsumoto-Mashimo, C.3
Rowe-Magnus, D.A.4
Marlière, P.5
Mazel, D.6
-
16
-
-
3042666256
-
MUSCLE: Multiple sequence alignment with high accuracy and high throughput
-
Edgar, R. C. (2004). MUSCLE: multiple sequence alignment with high accuracy and high throughput. Nucleic Acids Res 32, 1792-1797.
-
(2004)
Nucleic Acids Res
, vol.32
, pp. 1792-1797
-
-
Edgar, R.C.1
-
17
-
-
0000527903
-
Replication of an origincontaining derivative of plasmid RK2 dependent on a plasmid function provided in trans
-
Figurski, D. H. & Helinski, D. R. (1979). Replication of an origincontaining derivative of plasmid RK2 dependent on a plasmid function provided in trans. Proc Natl Acad Sci U S A 76, 1648-1652.
-
(1979)
Proc Natl Acad Sci U S A
, vol.76
, pp. 1648-1652
-
-
Figurski, D.H.1
Helinski, D.R.2
-
18
-
-
0022423080
-
Autorepressor properties of the π-initiation protein encoded by plasmid R6K
-
Filutowicz, M., Davis, G., Greener, A. & Helinski, D. R. (1985). Autorepressor properties of the π-initiation protein encoded by plasmid R6K. Nucleic Acids Res 13, 103-114.
-
(1985)
Nucleic Acids Res
, vol.13
, pp. 103-114
-
-
Filutowicz, M.1
Davis, G.2
Greener, A.3
Helinski, D.R.4
-
19
-
-
67749120335
-
Comparative genomics of the IncA/C multidrug resistance plasmid family
-
Fricke, W. F., Welch, T. J., McDermott, P. F., Mammel, M. K., LeClerc, J. E., White, D. G., Cebula, T. A. & Ravel, J. (2009). Comparative genomics of the IncA/C multidrug resistance plasmid family. J Bacteriol 191, 4750-4757.
-
(2009)
J Bacteriol
, vol.191
, pp. 4750-4757
-
-
Fricke, W.F.1
Welch, T.J.2
McDermott, P.F.3
Mammel, M.K.4
LeClerc, J.E.5
White, D.G.6
Cebula, T.A.7
Ravel, J.8
-
20
-
-
18844391742
-
-
Washington, DC: American Society for Microbiology
-
Funnell, B. E. & Phillips, G. J. (2004). Plasmid Biology. Washington, DC: American Society for Microbiology.
-
(2004)
Plasmid Biology
-
-
Funnell, B.E.1
Phillips, G.J.2
-
21
-
-
0028932707
-
Transcription of repA, the gene of the initiation protein of the Pseudomonas plasmid pPS10, is autoregulated by interactions of the RepA protein at a symmetrical operator
-
García de Viedma, D., Giraldo, R., Ruiz-Echevarría, M. J., Lurz, R. & Díaz-Orejas, R. (1995). Transcription of repA, the gene of the initiation protein of the Pseudomonas plasmid pPS10, is autoregulated by interactions of the RepA protein at a symmetrical operator. J Mol Biol 247, 211-223.
-
(1995)
J Mol Biol
, vol.247
, pp. 211-223
-
-
García de Viedma, D.1
Giraldo, R.2
Ruiz-Echevarría, M.J.3
Lurz, R.4
Díaz-Orejas, R.5
-
22
-
-
64349087867
-
The diversity of conjugative relaxases and its application in plasmid classification
-
Garcillán-Barcia, M. P., Francia, M. V. & de la Cruz, F. (2009). The diversity of conjugative relaxases and its application in plasmid classification. FEMS Microbiol Rev 33, 657-687.
-
(2009)
FEMS Microbiol Rev
, vol.33
, pp. 657-687
-
-
Garcillán-Barcia, M.P.1
Francia, M.V.2
de la Cruz, F.3
-
23
-
-
79960966271
-
Identification of bacterial plasmids based on mobility and plasmid population biology
-
Garcillán-Barcia, M. P., Alvarado, A. & de la Cruz, F. (2011). Identification of bacterial plasmids based on mobility and plasmid population biology. FEMS Microbiol Rev 35, 936-956.
-
(2011)
FEMS Microbiol Rev
, vol.35
, pp. 936-956
-
-
Garcillán-Barcia, M.P.1
Alvarado, A.2
de la Cruz, F.3
-
24
-
-
78649383108
-
Mangrove microniches determine the structural and functional diversity of enriched petroleum hydrocarbon-degrading consortia
-
Gomes, N. C., Flocco, C. G., Costa, R., Junca, H., Vilchez, R., Pieper, D. H., Krögerrecklenfort, E., Paranhos, R., Mendonça-Hagler, L. C. & Smalla, K. (2010). Mangrove microniches determine the structural and functional diversity of enriched petroleum hydrocarbon-degrading consortia. FEMS Microbiol Ecol 74, 276-290.
-
(2010)
FEMS Microbiol Ecol
, vol.74
, pp. 276-290
-
-
Gomes, N.C.1
Flocco, C.G.2
Costa, R.3
Junca, H.4
Vilchez, R.5
Pieper, D.H.6
Krögerrecklenfort, E.7
Paranhos, R.8
Mendonça-Hagler, L.C.9
Smalla, K.10
-
25
-
-
0020484547
-
Host range of conjugation and replication functions of the Escherichia coli sex plasmid Flac: Comparison with the broad host-range plasmid RK2
-
Guiney, D. G. (1982). Host range of conjugation and replication functions of the Escherichia coli sex plasmid Flac: comparison with the broad host-range plasmid RK2. J Mol Biol 162, 699-703.
-
(1982)
J Mol Biol
, vol.162
, pp. 699-703
-
-
Guiney, D.G.1
-
26
-
-
0000041408
-
Plasmid transfer from Escherichia coli to Bacteroides fragilis: Differential expression of antibiotic resistance phenotypes
-
Guiney, D. G., Hasegawa, P. & Davis, C. E. (1984). Plasmid transfer from Escherichia coli to Bacteroides fragilis: differential expression of antibiotic resistance phenotypes. Proc Natl Acad Sci U S A 81, 7203-7206.
-
(1984)
Proc Natl Acad Sci U S A
, vol.81
, pp. 7203-7206
-
-
Guiney, D.G.1
Hasegawa, P.2
Davis, C.E.3
-
27
-
-
33748807462
-
Plasmids from freshwater environments capable of IncQ retrotransfer are diverse and include pQKH54, a new IncP-1 subgroup archetype
-
Haines, A. S., Akhtar, P., Stephens, E. R., Jones, K., Thomas, C. M., Perkins, C. D., Williams, J. R., Day, M. J. & Fry, J. C. (2006). Plasmids from freshwater environments capable of IncQ retrotransfer are diverse and include pQKH54, a new IncP-1 subgroup archetype. Microbiology 152, 2689-2701.
-
(2006)
Microbiology
, vol.152
, pp. 2689-2701
-
-
Haines, A.S.1
Akhtar, P.2
Stephens, E.R.3
Jones, K.4
Thomas, C.M.5
Perkins, C.D.6
Williams, J.R.7
Day, M.J.8
Fry, J.C.9
-
28
-
-
0024323555
-
Bacterial conjugative plasmids mobilize DNA transfer between bacteria and yeast
-
Heinemann, J. A. & Sprague, G. F. J., Jr (1989). Bacterial conjugative plasmids mobilize DNA transfer between bacteria and yeast. Nature 340, 205-209.
-
(1989)
Nature
, vol.340
, pp. 205-209
-
-
Heinemann, J.A.1
Sprague Jr., G.F.J.2
-
29
-
-
84866919992
-
Plasmids foster diversification and adaptation of bacterial populations in soil
-
Heuer, H. & Smalla, K. (2012). Plasmids foster diversification and adaptation of bacterial populations in soil. FEMS Microbiol Rev 36, 1083-1104.
-
(2012)
FEMS Microbiol Rev
, vol.36
, pp. 1083-1104
-
-
Heuer, H.1
Smalla, K.2
-
30
-
-
18744368461
-
Gentamicin resistance genes in environmental bacteria: Prevalence and transfer
-
Heuer, H., Krögerrecklenfort, E., Wellington, E. M., Egan, S., van Elsas, J. D., van Overbeek, L., Collard, J. M., Guillaume, G., Karagouni, A. D. & other authors (2002). Gentamicin resistance genes in environmental bacteria: prevalence and transfer. FEMS Microbiol Ecol 42, 289-302.
-
(2002)
FEMS Microbiol Ecol
, vol.42
, pp. 289-302
-
-
Heuer, H.1
Krögerrecklenfort, E.2
Wellington, E.M.3
Egan, S.4
van Elsas, J.D.5
van Overbeek, L.6
Collard, J.M.7
Guillaume, G.8
Karagouni, A.D.9
-
31
-
-
33847234930
-
Frequent conjugative transfer accelerates adaptation of a broad-host-range plasmid to an unfavorable Pseudomonas putida host
-
Heuer, H., Fox, R. E. & Top, E. M. (2007). Frequent conjugative transfer accelerates adaptation of a broad-host-range plasmid to an unfavorable Pseudomonas putida host. FEMS Microbiol Ecol 59, 738-748.
-
(2007)
FEMS Microbiol Ecol
, vol.59
, pp. 738-748
-
-
Heuer, H.1
Fox, R.E.2
Top, E.M.3
-
32
-
-
77953221161
-
Variation in permissiveness for broad-host-range plasmids among genetically indistinguishable isolates of Dickeya sp. from a small field plot
-
Heuer, H., Ebers, J., Weinert, N. & Smalla, K. (2010). Variation in permissiveness for broad-host-range plasmids among genetically indistinguishable isolates of Dickeya sp. from a small field plot. FEMS Microbiol Ecol 73, 190-196.
-
(2010)
FEMS Microbiol Ecol
, vol.73
, pp. 190-196
-
-
Heuer, H.1
Ebers, J.2
Weinert, N.3
Smalla, K.4
-
33
-
-
84863732318
-
IncP-1ε plasmids are important vectors of antibiotic resistance genes in agricultural systems: Diversification driven by class 1 integron gene cassettes
-
Heuer, H., Binh, C. T., Jechalke, S., Kopmann, C., Zimmerling, U., Krögerrecklenfort, E., Ledger, T., González, B., Top, E. & Smalla, K. (2012). IncP-1ε plasmids are important vectors of antibiotic resistance genes in agricultural systems: diversification driven by class 1 integron gene cassettes. Front Microbiol 3, 2.
-
(2012)
Front Microbiol
, vol.3
, pp. 2
-
-
Heuer, H.1
Binh, C.T.2
Jechalke, S.3
Kopmann, C.4
Zimmerling, U.5
Krögerrecklenfort, E.6
Ledger, T.7
González, B.8
Top, E.9
Smalla, K.10
-
34
-
-
0017181990
-
Recombination between plasmids of incompatibility groups P-1 and P-2
-
Jacoby, G. A., Jacob, A. E. & Hedges, R. W. (1976). Recombination between plasmids of incompatibility groups P-1 and P-2. J Bacteriol 127, 1278-1285.
-
(1976)
J Bacteriol
, vol.127
, pp. 1278-1285
-
-
Jacoby, G.A.1
Jacob, A.E.2
Hedges, R.W.3
-
35
-
-
0027970969
-
KorA protein of promiscuous plasmid RK2 controls a transcriptional switch between divergent operons for plasmid replication and conjugative transfer
-
Jagura-Burdzy, G. & Thomas, C. M. (1994). KorA protein of promiscuous plasmid RK2 controls a transcriptional switch between divergent operons for plasmid replication and conjugative transfer. Proc Natl Acad Sci U S A 91, 10571-10575.
-
(1994)
Proc Natl Acad Sci U S A
, vol.91
, pp. 10571-10575
-
-
Jagura-Burdzy, G.1
Thomas, C.M.2
-
36
-
-
0031556953
-
Dissection of the switch between genes for replication and transfer of promiscuous plasmid RK2: Basis of the dominance of trfAp over trbAp and specificity for KorA in controlling the switch
-
Jagura-Burdzy, G. & Thomas, C. M. (1997). Dissection of the switch between genes for replication and transfer of promiscuous plasmid RK2: basis of the dominance of trfAp over trbAp and specificity for KorA in controlling the switch. J Mol Biol 265, 507-518.
-
(1997)
J Mol Biol
, vol.265
, pp. 507-518
-
-
Jagura-Burdzy, G.1
Thomas, C.M.2
-
37
-
-
0026759785
-
Crosstalk between plasmid vegetative replication and conjugative transfer: Repression of the trfA operon by trbA of broad host range plasmid RK2
-
Jagura-Burdzy, G., Khanim, F., Smith, C. A. & Thomas, C. M. (1992). Crosstalk between plasmid vegetative replication and conjugative transfer: repression of the trfA operon by trbA of broad host range plasmid RK2. Nucleic Acids Res 20, 3939-3944.
-
(1992)
Nucleic Acids Res
, vol.20
, pp. 3939-3944
-
-
Jagura-Burdzy, G.1
Khanim, F.2
Smith, C.A.3
Thomas, C.M.4
-
38
-
-
0016165614
-
Trimethoprim R factors in enterobacteria from clinical specimens
-
Jobanputra, R. S. & Datta, N. (1974). Trimethoprim R factors in enterobacteria from clinical specimens. J Med Microbiol 7, 169-177.
-
(1974)
J Med Microbiol
, vol.7
, pp. 169-177
-
-
Jobanputra, R.S.1
Datta, N.2
-
39
-
-
84861749911
-
Expansion of the IncX plasmid family for improved identification and typing of novel plasmids in drug-resistant Enterobacteriaceae
-
Johnson, T. J., Bielak, E. M., Fortini, D., Hansen, L. H., Hasman, H., Debroy, C., Nolan, L. K. & Carattoli, A. (2012). Expansion of the IncX plasmid family for improved identification and typing of novel plasmids in drug-resistant Enterobacteriaceae. Plasmid 68, 43-50.
-
(2012)
Plasmid
, vol.68
, pp. 43-50
-
-
Johnson, T.J.1
Bielak, E.M.2
Fortini, D.3
Hansen, L.H.4
Hasman, H.5
Debroy, C.6
Nolan, L.K.7
Carattoli, A.8
-
40
-
-
33846011830
-
Plasmid pBP136 from Bordetella pertussis represents an ancestral form of IncP-1β plasmids without accessory mobile elements
-
Kamachi, K., Sota, M., Tamai, Y., Nagata, N., Konda, T., Inoue, T., Top, E. M. & Arakawa, Y. (2006). Plasmid pBP136 from Bordetella pertussis represents an ancestral form of IncP-1β plasmids without accessory mobile elements. Microbiology 152, 3477-3484.
-
(2006)
Microbiology
, vol.152
, pp. 3477-3484
-
-
Kamachi, K.1
Sota, M.2
Tamai, Y.3
Nagata, N.4
Konda, T.5
Inoue, T.6
Top, E.M.7
Arakawa, Y.8
-
41
-
-
36448991500
-
CLUSTAL W and CLUSTAL_X version 2.0
-
Larkin, M. A., Blackshields, G., Brown, N. P., Chenna, R., McGettigan, P. A., McWilliam, H., Valentin, F., Wallace, I. M., Wilm, A. & other authors (2007). CLUSTAL W and CLUSTAL_X version 2.0. Bioinformatics 23, 2947-2948.
-
(2007)
Bioinformatics
, vol.23
, pp. 2947-2948
-
-
Larkin, M.A.1
Blackshields, G.2
Brown, N.P.3
Chenna, R.4
McGettigan, P.A.5
McWilliam, H.6
Valentin, F.7
Wallace, I.M.8
Wilm, A.9
-
42
-
-
78650389175
-
Functional characterization of replication and stability factors of an incompatibility group P-1 plasmid from Xylella fastidiosa
-
Lee, M. W., Rogers, E. E. & Stenger, D. C. (2010). Functional characterization of replication and stability factors of an incompatibility group P-1 plasmid from Xylella fastidiosa. Appl Environ Microbiol 76, 7734-7740.
-
(2010)
Appl Environ Microbiol
, vol.76
, pp. 7734-7740
-
-
Lee, M.W.1
Rogers, E.E.2
Stenger, D.C.3
-
43
-
-
0032883206
-
Transposon Tn21, flagship of the floating genome
-
Liebert, C. A., Hall, R. M. & Summers, A. O. (1999). Transposon Tn21, flagship of the floating genome. Microbiol Mol Biol Rev 63, 507-522.
-
(1999)
Microbiol Mol Biol Rev
, vol.63
, pp. 507-522
-
-
Liebert, C.A.1
Hall, R.M.2
Summers, A.O.3
-
44
-
-
83555165992
-
Diversity, biology and evolution of IncQ-family plasmids
-
Loftie-Eaton, W. & Rawlings, D. E. (2012). Diversity, biology and evolution of IncQ-family plasmids. Plasmid 67, 15-34.
-
(2012)
Plasmid
, vol.67
, pp. 15-34
-
-
Loftie-Eaton, W.1
Rawlings, D.E.2
-
45
-
-
77957826921
-
The complete multipartite genome sequence of Cupriavidus necator JMP134, a versatile pollutant degrader
-
Lykidis, A., Pérez-Pantoja, D., Ledger, T., Mavromatis, K., Anderson, I. J., Ivanova, N. N., Hooper, S. D., Lapidus, A., Lucas, S. & other authors (2010). The complete multipartite genome sequence of Cupriavidus necator JMP134, a versatile pollutant degrader. PLoS ONE 5, e9729.
-
(2010)
PLoS ONE
, vol.5
-
-
Lykidis, A.1
Pérez-Pantoja, D.2
Ledger, T.3
Mavromatis, K.4
Anderson, I.J.5
Ivanova, N.N.6
Hooper, S.D.7
Lapidus, A.8
Lucas, S.9
-
46
-
-
0036032141
-
Modulation of pPS10 host range by DnaA
-
Maestro, B., Sanz, J. M., Faelen, M., Couturier, M., Díaz-Orejas, R. & Fernández-Tresguerres, E. (2002). Modulation of pPS10 host range by DnaA. Mol Microbiol 46, 223-234.
-
(2002)
Mol Microbiol
, vol.46
, pp. 223-234
-
-
Maestro, B.1
Sanz, J.M.2
Faelen, M.3
Couturier, M.4
Díaz-Orejas, R.5
Fernández-Tresguerres, E.6
-
47
-
-
0037312815
-
Modulation of pPS10 host range by plasmid-encoded RepA initiator protein
-
Maestro, B., Sanz, J. M., Díaz-Orejas, R. & Fernández-Tresguerres, E. (2003). Modulation of pPS10 host range by plasmid-encoded RepA initiator protein. J Bacteriol 185, 1367-1375.
-
(2003)
J Bacteriol
, vol.185
, pp. 1367-1375
-
-
Maestro, B.1
Sanz, J.M.2
Díaz-Orejas, R.3
Fernández-Tresguerres, E.4
-
48
-
-
0027216726
-
Host range and transfer efficiency of incompatibility group HI plasmids
-
Maher, D. & Taylor, D. E. (1993). Host range and transfer efficiency of incompatibility group HI plasmids. Can J Microbiol 39, 581-587.
-
(1993)
Can J Microbiol
, vol.39
, pp. 581-587
-
-
Maher, D.1
Taylor, D.E.2
-
49
-
-
82955240671
-
Genomic organization and genomic structural rearrangements of Sphingobium japonicum UT26, an archetypal γ-hexachlorocyclohexane-degrading bacterium
-
Nagata, Y., Natsui, S., Endo, R., Ohtsubo, Y., Ichikawa, N., Ankai, A., Oguchi, A., Fukui, S., Fujita, N. & Tsuda, M. (2011). Genomic organization and genomic structural rearrangements of Sphingobium japonicum UT26, an archetypal γ-hexachlorocyclohexane-degrading bacterium. Enzyme Microb Technol 49, 499-508.
-
(2011)
Enzyme Microb Technol
, vol.49
, pp. 499-508
-
-
Nagata, Y.1
Natsui, S.2
Endo, R.3
Ohtsubo, Y.4
Ichikawa, N.5
Ankai, A.6
Oguchi, A.7
Fukui, S.8
Fujita, N.9
Tsuda, M.10
-
50
-
-
2142659318
-
Divergence of mobile genetic elements involved in the distribution of xenobiotic-catabolic capacity
-
Nojiri, H., Shintani, M. & Omori, T. (2004). Divergence of mobile genetic elements involved in the distribution of xenobiotic-catabolic capacity. Appl Microbiol Biotechnol 64, 154-174.
-
(2004)
Appl Microbiol Biotechnol
, vol.64
, pp. 154-174
-
-
Nojiri, H.1
Shintani, M.2
Omori, T.3
-
51
-
-
79953790350
-
The IncP-1 plasmid backbone adapts to different host bacterial species and evolves through homologous recombination
-
Norberg, P., Bergström, M., Jethava, V., Dubhashi, D. & Hermansson, M. (2011). The IncP-1 plasmid backbone adapts to different host bacterial species and evolves through homologous recombination. Nat Commun 2, 268.
-
(2011)
Nat Commun
, vol.2
, pp. 268
-
-
Norberg, P.1
Bergström, M.2
Jethava, V.3
Dubhashi, D.4
Hermansson, M.5
-
52
-
-
52649124812
-
GenomeMatcher: A graphical user interface for DNA sequence comparison
-
Ohtsubo, Y., Ikeda-Ohtsubo, W., Nagata, Y. & Tsuda, M. (2008). GenomeMatcher: a graphical user interface for DNA sequence comparison. BMC Bioinformatics 9, 376.
-
(2008)
BMC Bioinformatics
, vol.9
, pp. 376
-
-
Ohtsubo, Y.1
Ikeda-Ohtsubo, W.2
Nagata, Y.3
Tsuda, M.4
-
55
-
-
17944402895
-
The 64 508 bp IncP-1β antibiotic multiresistance plasmid pB10 isolated from a waste-water treatment plant provides evidence for recombination between members of different branches of the IncP-1β group
-
Schlüter, A., Heuer, H., Szczepanowski, R., Forney, L. J., Thomas, C. M., Pühler, A. & Top, E. M. (2003). The 64 508 bp IncP-1β antibiotic multiresistance plasmid pB10 isolated from a waste-water treatment plant provides evidence for recombination between members of different branches of the IncP-1β group. Microbiology 149, 3139-3153.
-
(2003)
Microbiology
, vol.149
, pp. 3139-3153
-
-
Schlüter, A.1
Heuer, H.2
Szczepanowski, R.3
Forney, L.J.4
Thomas, C.M.5
Pühler, A.6
Top, E.M.7
-
56
-
-
34250348135
-
Genomics of IncP-1 antibiotic resistance plasmids isolated from wastewater treatment plants provides evidence for a widely accessible drug resistance gene pool
-
Schlüter, A., Szczepanowski, R., Pühler, A. & Top, E. M. (2007). Genomics of IncP-1 antibiotic resistance plasmids isolated from wastewater treatment plants provides evidence for a widely accessible drug resistance gene pool. FEMS Microbiol Rev 31, 449-477.
-
(2007)
FEMS Microbiol Rev
, vol.31
, pp. 449-477
-
-
Schlüter, A.1
Szczepanowski, R.2
Pühler, A.3
Top, E.M.4
-
57
-
-
0022349178
-
Regions of broad-hostrange plasmid RK2 involved in replication and stable maintenance in nine species of gram-negative bacteria
-
Schmidhauser, T. J. & Helinski, D. R. (1985). Regions of broad-hostrange plasmid RK2 involved in replication and stable maintenance in nine species of gram-negative bacteria. J Bacteriol 164, 446-455.
-
(1985)
J Bacteriol
, vol.164
, pp. 446-455
-
-
Schmidhauser, T.J.1
Helinski, D.R.2
-
58
-
-
75549087004
-
Comparative genomics of pAKD4, the prototype IncP-1δ plasmid with a complete backbone
-
Sen, D., Yano, H., Suzuki, H., Król, J. E., Rogers, L., Brown, C. J. & Top, E. M. (2010). Comparative genomics of pAKD4, the prototype IncP-1δ plasmid with a complete backbone. Plasmid 63, 98-107.
-
(2010)
Plasmid
, vol.63
, pp. 98-107
-
-
Sen, D.1
Yano, H.2
Suzuki, H.3
Król, J.E.4
Rogers, L.5
Brown, C.J.6
Top, E.M.7
-
59
-
-
84871838444
-
Inferring the evolutionary history of IncP-1 plasmids despite incongruence among backbone gene trees
-
Sen, D., Brown, C. J., Top, E. M. & Sullivan, J. (2013). Inferring the evolutionary history of IncP-1 plasmids despite incongruence among backbone gene trees. Mol Biol Evol 30, 154-166.
-
(2013)
Mol Biol Evol
, vol.30
, pp. 154-166
-
-
Sen, D.1
Brown, C.J.2
Top, E.M.3
Sullivan, J.4
-
60
-
-
22644436536
-
Ability of IncP-9 plasmid pM3 to replicate in Escherichia coli is dependent on both rep and par functions
-
Sevastsyanovich, Y. R., Titok, M. A., Krasowiak, R., Bingle, L. E. & Thomas, C. M. (2005). Ability of IncP-9 plasmid pM3 to replicate in Escherichia coli is dependent on both rep and par functions. Mol Microbiol 57, 819-833.
-
(2005)
Mol Microbiol
, vol.57
, pp. 819-833
-
-
Sevastsyanovich, Y.R.1
Titok, M.A.2
Krasowiak, R.3
Bingle, L.E.4
Thomas, C.M.5
-
61
-
-
55549141868
-
Diversity of IncP-9 plasmids of Pseudomonas
-
Sevastsyanovich, Y. R., Krasowiak, R., Bingle, L. E., Haines, A. S., Sokolov, S. L., Kosheleva, I. A., Leuchuk, A. A., Titok, M. A., Smalla, K. & Thomas, C. M. (2008). Diversity of IncP-9 plasmids of Pseudomonas. Microbiology 154, 2929-2941.
-
(2008)
Microbiology
, vol.154
, pp. 2929-2941
-
-
Sevastsyanovich, Y.R.1
Krasowiak, R.2
Bingle, L.E.3
Haines, A.S.4
Sokolov, S.L.5
Kosheleva, I.A.6
Leuchuk, A.A.7
Titok, M.A.8
Smalla, K.9
Thomas, C.M.10
-
62
-
-
78650037585
-
The behavior and significance of degradative plasmids belonging to Inc groups in Pseudomonas within natural environments and microcosms
-
Shintani, M., Takahashi, Y., Yamane, H. & Nojiri, H. (2010). The behavior and significance of degradative plasmids belonging to Inc groups in Pseudomonas within natural environments and microcosms. Microbes Environ 25, 253-265.
-
(2010)
Microbes Environ
, vol.25
, pp. 253-265
-
-
Shintani, M.1
Takahashi, Y.2
Yamane, H.3
Nojiri, H.4
-
63
-
-
51649114043
-
Progress towards understanding the fate of plasmids in bacterial communities
-
Slater, F. R., Bailey, M. J., Tett, A. J. & Turner, S. L. (2008). Progress towards understanding the fate of plasmids in bacterial communities. FEMS Microbiol Ecol 66, 3-13.
-
(2008)
FEMS Microbiol Ecol
, vol.66
, pp. 3-13
-
-
Slater, F.R.1
Bailey, M.J.2
Tett, A.J.3
Turner, S.L.4
-
64
-
-
78649446843
-
Shifts in the host range of a promiscuous plasmid through parallel evolution of its replication initiation protein
-
Sota, M., Yano, H., Hughes, J. M., Daughdrill, G. W., Abdo, Z., Forney, L. J. & Top, E. M. (2010). Shifts in the host range of a promiscuous plasmid through parallel evolution of its replication initiation protein. ISME J 4, 1568-1580.
-
(2010)
ISME J
, vol.4
, pp. 1568-1580
-
-
Sota, M.1
Yano, H.2
Hughes, J.M.3
Daughdrill, G.W.4
Abdo, Z.5
Forney, L.J.6
Top, E.M.7
-
65
-
-
79953291044
-
Phylogeny of replication initiator protein TrfA reveals a highly divergent clade of incompatibility group P1 plasmids
-
Stenger, D. C. & Lee, M. W. (2011). Phylogeny of replication initiator protein TrfA reveals a highly divergent clade of incompatibility group P1 plasmids. Appl Environ Microbiol 77, 2522-2526.
-
(2011)
Appl Environ Microbiol
, vol.77
, pp. 2522-2526
-
-
Stenger, D.C.1
Lee, M.W.2
-
66
-
-
0017652638
-
The population biology of bacterial plasmids: A priori conditions for the existence of conjugationally transmitted factors
-
Stewart, F. M. & Levin, B. R. (1977). The population biology of bacterial plasmids: a priori conditions for the existence of conjugationally transmitted factors. Genetics 87, 209-228.
-
(1977)
Genetics
, vol.87
, pp. 209-228
-
-
Stewart, F.M.1
Levin, B.R.2
-
67
-
-
58749086048
-
Using Mahalanobis distance to compare genomic signatures between bacterial plasmids and chromosomes
-
Suzuki, H., Sota, M., Brown, C. J. & Top, E. M. (2008). Using Mahalanobis distance to compare genomic signatures between bacterial plasmids and chromosomes. Nucleic Acids Res 36, e147.
-
(2008)
Nucleic Acids Res
, vol.36
-
-
Suzuki, H.1
Sota, M.2
Brown, C.J.3
Top, E.M.4
-
68
-
-
78049418891
-
Predicting plasmid promiscuity based on genomic signature
-
Suzuki, H., Yano, H., Brown, C. J. & Top, E. M. (2010). Predicting plasmid promiscuity based on genomic signature. J Bacteriol 192, 6045-6055.
-
(2010)
J Bacteriol
, vol.192
, pp. 6045-6055
-
-
Suzuki, H.1
Yano, H.2
Brown, C.J.3
Top, E.M.4
-
69
-
-
0023390802
-
P1 plasmid replication: Measurement of initiator protein concentration in vivo
-
Swack, J. A., Pal, S. K., Mason, R. J., Abeles, A. L. & Chattoraj, D. K. (1987). P1 plasmid replication: measurement of initiator protein concentration in vivo. J Bacteriol 169, 3737-3742.
-
(1987)
J Bacteriol
, vol.169
, pp. 3737-3742
-
-
Swack, J.A.1
Pal, S.K.2
Mason, R.J.3
Abeles, A.L.4
Chattoraj, D.K.5
-
70
-
-
80052965901
-
The genome sequence of the incompatibility group Iγ plasmid R621a: Evolution of IncI plasmids
-
Takahashi, H., Shao, M., Furuya, N. & Komano, T. (2011). The genome sequence of the incompatibility group Iγ plasmid R621a: evolution of IncI plasmids. Plasmid 66, 112-121.
-
(2011)
Plasmid
, vol.66
, pp. 112-121
-
-
Takahashi, H.1
Shao, M.2
Furuya, N.3
Komano, T.4
-
71
-
-
79957613599
-
MEGA5: Molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods
-
Tamura, K., Peterson, D., Peterson, N., Stecher, G., Nei, M. & Kumar, S. (2011). MEGA5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods. Mol Biol Evol 28, 2731-2739.
-
(2011)
Mol Biol Evol
, vol.28
, pp. 2731-2739
-
-
Tamura, K.1
Peterson, D.2
Peterson, N.3
Stecher, G.4
Nei, M.5
Kumar, S.6
-
72
-
-
0023506940
-
Incompatibility group P plasmids: Genetics, evolution, and use in genetic manipulation
-
Thomas, C. M. & Smith, C. A. (1987). Incompatibility group P plasmids: genetics, evolution, and use in genetic manipulation. Annu Rev Microbiol 41, 77-101.
-
(1987)
Annu Rev Microbiol
, vol.41
, pp. 77-101
-
-
Thomas, C.M.1
Smith, C.A.2
-
73
-
-
84872574616
-
The role of the natural environment in the emergence of antibiotic resistance in gram-negative bacteria
-
Wellington, E. M. H., Boxall, A. B. A., Cross, P., Feil, E. J., Gaze, W. H., Hawkey, P. M., Johnson-Rollings, A. S., Jones, D. L., Lee, N. M. & other authors (2013). The role of the natural environment in the emergence of antibiotic resistance in gram-negative bacteria. Lancet Infect Dis 13, 155-165.
-
(2013)
Lancet Infect Dis
, vol.13
, pp. 155-165
-
-
Wellington, E.M.H.1
Boxall, A.B.A.2
Cross, P.3
Feil, E.J.4
Gaze, W.H.5
Hawkey, P.M.6
Johnson-Rollings, A.S.7
Jones, D.L.8
Lee, N.M.9
-
74
-
-
0035861496
-
The genome of the natural genetic engineer Agrobacterium tumefaciens C58
-
Wood, D. W., Setubal, J. C., Kaul, R., Monks, D. E., Kitajima, J. P., Okura, V. K., Zhou, Y., Chen, L., Wood, G. E. & other authors (2001). The genome of the natural genetic engineer Agrobacterium tumefaciens C58. Science 294, 2317-2323.
-
(2001)
Science
, vol.294
, pp. 2317-2323
-
-
Wood, D.W.1
Setubal, J.C.2
Kaul, R.3
Monks, D.E.4
Kitajima, J.P.5
Okura, V.K.6
Zhou, Y.7
Chen, L.8
Wood, G.E.9
-
75
-
-
0742271150
-
Genes and speciation
-
Wu, C. I. & Ting, C. T. (2004). Genes and speciation. Nat Rev Genet 5, 114-122.
-
(2004)
Nat Rev Genet
, vol.5
, pp. 114-122
-
-
Wu, C.I.1
Ting, C.T.2
-
76
-
-
0021090493
-
Homology in the transfer origins of broad host range IncP plasmids: Definition of two subgroups of P plasmids
-
Yakobson, E. & Guiney, G. (1983). Homology in the transfer origins of broad host range IncP plasmids: definition of two subgroups of P plasmids. Mol Gen Genet 192, 436-438.
-
(1983)
Mol Gen Genet
, vol.192
, pp. 436-438
-
-
Yakobson, E.1
Guiney, G.2
-
77
-
-
77956548642
-
Complete nucleotide sequence of TOL plasmid pDK1 provides evidence for evolutionary history of IncP-7 catabolic plasmids
-
Yano, H., Miyakoshi, M., Ohshima, K., Tabata, M., Nagata, Y., Hattori, M. & Tsuda, M. (2010). Complete nucleotide sequence of TOL plasmid pDK1 provides evidence for evolutionary history of IncP-7 catabolic plasmids. J Bacteriol 192, 4337-4347.
-
(2010)
J Bacteriol
, vol.192
, pp. 4337-4347
-
-
Yano, H.1
Miyakoshi, M.2
Ohshima, K.3
Tabata, M.4
Nagata, Y.5
Hattori, M.6
Tsuda, M.7
-
78
-
-
84857934383
-
Roles of long and short replication initiation proteins in the fate of IncP-1 plasmids
-
Yano, H., Deckert, G. E., Rogers, L. M. & Top, E. M. (2012). Roles of long and short replication initiation proteins in the fate of IncP-1 plasmids. J Bacteriol 194, 1533-1543.
-
(2012)
J Bacteriol
, vol.194
, pp. 1533-1543
-
-
Yano, H.1
Deckert, G.E.2
Rogers, L.M.3
Top, E.M.4
|