-
1
-
-
7044246773
-
Evolution and population genetics of bacterial plasmids
-
Funnell BE, Phillips GJ (ed). ASM Press, Washington, DC.
-
Thomas CM. 2004. Evolution and population genetics of bacterial plasmids p 509-528. In Funnell BE, Phillips GJ (ed), Plasmid biology. ASM Press, Washington, DC.
-
(2004)
Plasmid biology
, pp. 509-528
-
-
Thomas, C.M.1
-
2
-
-
0033384422
-
Retrotransfer or gene capture: a feature of conjugative plasmids, with ecological and evolutionary significance
-
Szpirer C, Top E, Couturier M, Mergeay M. 1999. Retrotransfer or gene capture: a feature of conjugative plasmids, with ecological and evolutionary significance. Microbiology 145:3321-3329.
-
(1999)
Microbiology
, vol.145
, pp. 3321-3329
-
-
Szpirer, C.1
Top, E.2
Couturier, M.3
Mergeay, M.4
-
4
-
-
0023506940
-
Incompatibility group P plasmids: genet-ics, evolution, and use in genetic manipulation
-
Thomas CM, Smith CA. 1987. Incompatibility group P plasmids: genet-ics, 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
-
5
-
-
33750042532
-
Dynamics of the IncW genetic backbone imply general trends in conjugative plasmid evolution
-
Fernandez-Lopez R, Garcillan-Barcia M, Revilla C, Lazaro M, Vielva L, de la Cruz F. 2006. Dynamics of the IncW genetic backbone imply general trends in conjugative plasmid evolution. FEMS Microbiol. Rev. 30:942-966.
-
(2006)
FEMS Microbiol. Rev.
, vol.30
, pp. 942-966
-
-
Fernandez-Lopez, R.1
Garcillan-Barcia, M.2
Revilla, C.3
Lazaro, M.4
Vielva, L.5
de la Cruz, F.6
-
6
-
-
10444275724
-
Complete nucleotide sequence of the conjugative tetracycline resistance plasmid pFBAOT6, a member of a group of IncU plasmids with global ubiquity
-
Rhodes G, Parkhill J, Bird C, Ambrose K, Jones M, Huys G, Swings J, Pickup R. 2004. Complete nucleotide sequence of the conjugative tetracycline resistance plasmid pFBAOT6, a member of a group of IncU plasmids with global ubiquity. Appl. Environ. Microbiol. 70:7497-7510.
-
(2004)
Appl. Environ. Microbiol.
, vol.70
, pp. 7497-7510
-
-
Rhodes, G.1
Parkhill, J.2
Bird, C.3
Ambrose, K.4
Jones, M.5
Huys, G.6
Swings, J.7
Pickup, R.8
-
7
-
-
0035204202
-
Comparative biology of IncQ and IncQ-like plasmids
-
Rawlings D, Tietze E. 2001. Comparative biology of IncQ and IncQ-like plasmids. Microbiol. Mol. Biol. Rev. 65:481-496.
-
(2001)
Microbiol. Mol. Biol. Rev.
, vol.65
, pp. 481-496
-
-
Rawlings, D.1
Tietze, E.2
-
8
-
-
68449103668
-
Plasmids captured in C. metallidurans CH34: defining the PromA family of broad-host-range plasmids
-
Van der Auwera GA, Krol JE, Suzuki H, Foster B, Van Houdt R, Brown CJ, Mergeay M, Top EM. 2009. Plasmids captured in C. metallidurans CH34: defining the PromA family of broad-host-range plasmids. Antonie Van Leeuwenhoek 96:193-204.
-
(2009)
Antonie Van Leeuwenhoek
, vol.96
, pp. 193-204
-
-
Van der Auwera, G.A.1
Krol, J.E.2
Suzuki, H.3
Foster, B.4
Van Houdt, R.5
Brown, C.J.6
Mergeay, M.7
Top, E.M.8
-
9
-
-
0002818346
-
Broad host range conjugative and mobilizable plasmids in Gram-negative bacteria
-
Clewell DB (ed). Plenum Press, New York, NY.
-
Guiney DG. 1993. Broad host range conjugative and mobilizable plasmids in Gram-negative bacteria, p 75-104. In Clewell DB (ed), Bacterial conjugation. Plenum Press, New York, NY.
-
(1993)
Bacterial conjugation
, pp. 75-104
-
-
Guiney, D.G.1
-
10
-
-
0347992016
-
Amelioration of the cost of conjugative plasmid carriage in Escherichia coli K12
-
Dahlberg C, Chao L. 2003. Amelioration of the cost of conjugative plasmid carriage in Escherichia coli K12. Genetics 165:1641-1649.
-
(2003)
Genetics
, vol.165
, pp. 1641-1649
-
-
Dahlberg, C.1
Chao, L.2
-
11
-
-
33847231339
-
Stability of a promiscuous plasmid in different hosts: no guarantee for a long-term relationship
-
De Gelder L, Ponciano JM, Joyce P, Top EM. 2007. Stability of a promiscuous plasmid in different hosts: no guarantee for a long-term 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
-
12
-
-
0023445840
-
Effects of segregation and selection on instability of plasmid pACYC184 in Escherichia coli B
-
Lenski R, Bouma J. 1987. Effects of segregation and selection on instability of plasmid pACYC184 in Escherichia coli B. J. Bacteriol. 169:5314-5316.
-
(1987)
J. Bacteriol.
, vol.169
, pp. 5314-5316
-
-
Lenski, R.1
Bouma, J.2
-
13
-
-
0022742816
-
Transitory derepression and the maintenance of conjugative plasmids
-
Lundquist PD, Levin BR. 1986. Transitory derepression and the maintenance of conjugative plasmids. Genetics 113:483-497.
-
(1986)
Genetics
, vol.113
, pp. 483-497
-
-
Lundquist, P.D.1
Levin, B.R.2
-
14
-
-
0017652638
-
The population biology of bacterial plasmids: a priori conditions for the existence of conjugationally transmitted factors
-
Stewart FM, Levin BR. 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
-
15
-
-
53849090616
-
Spatial structure and nutrients promote invasion of IncP-1 plasmids in bacterial populations
-
Fox RE, Zhong X, Krone SM, Top EM. 2008. Spatial structure and nutrients promote invasion of IncP-1 plasmids in bacterial populations. ISME J. 2:1024-1039.
-
(2008)
ISME J.
, vol.2
, pp. 1024-1039
-
-
Fox, R.E.1
Zhong, X.2
Krone, S.M.3
Top, E.M.4
-
16
-
-
33646526288
-
Sequence and analysis of the 46.6-kb plasmid pA1 from Sphingomonas sp. A1 that corresponds to the typical IncP-1β plasmid backbone without any accessory gene
-
Harada K, Aso Y, Hashimoto W, Mikami B, Murata K. 2006. Sequence and analysis of the 46.6-kb plasmid pA1 from Sphingomonas sp. A1 that corresponds to the typical IncP-1β plasmid backbone without any accessory gene. Plasmid 56:11-23.
-
(2006)
Plasmid
, vol.56
, pp. 11-23
-
-
Harada, K.1
Aso, Y.2
Hashimoto, W.3
Mikami, B.4
Murata, K.5
-
17
-
-
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 EM, 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
-
18
-
-
79956120307
-
Molecular characterization of conjugative plasmids in pesticide tolerant and multi-resistant bacterial isolates from contaminated alluvial soil
-
Anjum R, Grohmann E, Malik A. 2011. Molecular characterization of conjugative plasmids in pesticide tolerant and multi-resistant bacterial isolates from contaminated alluvial soil. Chemosphere 84:175-181.
-
(2011)
Chemosphere
, vol.84
, pp. 175-181
-
-
Anjum, R.1
Grohmann, E.2
Malik, A.3
-
19
-
-
0031986456
-
Occurrence, fate and effects of pharmaceutical substances in the environment-a review
-
Halling-Sorensen B, Nors Nielsen S, Lanzky P, Ingerslev F, Holten Lutzhoft H, Jorgensen S. 1998. Occurrence, fate and effects of pharmaceutical substances in the environment-a review. Chemosphere 36:357-393.
-
(1998)
Chemosphere
, vol.36
, pp. 357-393
-
-
Halling-Sorensen, B.1
Nors Nielsen, S.2
Lanzky, P.3
Ingerslev, F.4
Holten Lutzhoft, H.5
Jorgensen, S.6
-
20
-
-
33646239812
-
Occurrence of antibiotics in wastewater treatment facilities in Wisconsin, USA
-
Karthikeyan K, Meyer M. 2006. Occurrence of antibiotics in wastewater treatment facilities in Wisconsin, USA. Sci. Total Environ. 361:196-207.
-
(2006)
Sci. Total Environ.
, vol.361
, pp. 196-207
-
-
Karthikeyan, K.1
Meyer, M.2
-
21
-
-
0034789817
-
Drugs in the environment: emission of drugs, diagnostic aids and disinfectants into wastewater by hospitals in relation to other sources-a review
-
Kümmerer K. 2001. Drugs in the environment: emission of drugs, diagnostic aids and disinfectants into wastewater by hospitals in relation to other sources-a review. Chemosphere 45:957-969.
-
(2001)
Chemosphere
, vol.45
, pp. 957-969
-
-
Kümmerer, K.1
-
22
-
-
0038601519
-
Significance of antibiotics in the environment
-
Kümmerer K. 2003. Significance of antibiotics in the environment. J. Antimicrob. Chemother. 52:5-7.
-
(2003)
J. Antimicrob. Chemother.
, vol.52
, pp. 5-7
-
-
Kümmerer, K.1
-
23
-
-
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 EM. 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
-
24
-
-
69949162470
-
Detection of 140 clinically relevant antibiotic-resistance genes in the plasmid metagenome of wastewater treatment plant bacteria showing reduced susceptibility to selected antibiotics
-
Szczepanowski R, Linke B, Krahn I, Gartemann KH, Gutzkow T, Eichler W, Pühler A, Schlüter A. 2009. Detection of 140 clinically relevant antibiotic-resistance genes in the plasmid metagenome of wastewater treatment plant bacteria showing reduced susceptibility to selected antibiotics. Microbiology 155:2306-2319.
-
(2009)
Microbiology
, vol.155
, pp. 2306-2319
-
-
Szczepanowski, R.1
Linke, B.2
Krahn, I.3
Gartemann, K.H.4
Gutzkow, T.5
Eichler, W.6
Pühler, A.7
Schlüter, A.8
-
25
-
-
0036848536
-
The prevalence and diversity of mobile genetic elements in bacterial communities of different environmental habitats: insights gained from different methodological approaches
-
Smalla K, Sobecky PA. 2002. The prevalence and diversity of mobile genetic elements in bacterial communities of different environmental habitats: insights gained from different methodological approaches. FEMS Microbiol. Ecol. 42:165-175.
-
(2002)
FEMS Microbiol. Ecol.
, vol.42
, pp. 165-175
-
-
Smalla, K.1
Sobecky, P.A.2
-
26
-
-
0026554427
-
Isolation and screening of plasmids from the epilithon which mobilize recombinant plasmid pD10
-
Hill K, Weightman A, Fry J. 1992. Isolation and screening of plasmids from the epilithon which mobilize recombinant plasmid pD10. Appl. Environ. Microbiol. 58:1292-1300.
-
(1992)
Appl. Environ. Microbiol.
, vol.58
, pp. 1292-1300
-
-
Hill, K.1
Weightman, A.2
Fry, J.3
-
27
-
-
0028329240
-
Exogenous isolation of mobilizing plasmids from polluted soils and sludges
-
Top E, De Smet I, Verstraete W, Dijkmans R, Mergeay M. 1994. Exogenous isolation of mobilizing plasmids from polluted soils and sludges. Appl. Environ. Microbiol. 60:831-839.
-
(1994)
Appl. Environ. Microbiol.
, vol.60
, pp. 831-839
-
-
Top, E.1
De Smet, I.2
Verstraete, W.3
Dijkmans, R.4
Mergeay, M.5
-
28
-
-
0344333449
-
Isolation, characterization, and transfer of cryptic gene-mobilizing plasmids in the wheat rhizosphere
-
van Elsas JD, Gardener BB, Wolters AC, Smit E. 1998. Isolation, characterization, and transfer of cryptic gene-mobilizing plasmids in the wheat rhizosphere. Appl. Environ. Microbiol. 64:880-889.
-
(1998)
Appl. Environ. Microbiol.
, vol.64
, pp. 880-889
-
-
van Elsas, J.D.1
Gardener, B.B.2
Wolters, A.C.3
Smit, E.4
-
29
-
-
84857934383
-
Roles of long and short replication initiation proteins in the fate of IncP-1 plasmids
-
Yano H, Deckert GE, Rogers LM, Top EM. 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
-
30
-
-
0035110751
-
Two atypical mobilization proteins are involved in plasmid CloDF13 relaxation
-
Nunez B, De La Cruz F. 2001. Two atypical mobilization proteins are involved in plasmid CloDF13 relaxation. Mol. Microbiol. 39:1088-1099.
-
(2001)
Mol. Microbiol.
, vol.39
, pp. 1088-1099
-
-
Nunez, B.1
De La Cruz, F.2
-
31
-
-
2442483942
-
Genetic evidence of a coupling role for the TraG protein family in bacterial conjugation
-
Cabezon E, Sastre J, de la Cruz F. 1997. Genetic evidence of a coupling role for the TraG protein family in bacterial conjugation. Mol. Gen. Genet. 254:400-406.
-
(1997)
Mol. Gen. Genet.
, vol.254
, pp. 400-406
-
-
Cabezon, E.1
Sastre, J.2
de la Cruz, F.3
-
32
-
-
0028180278
-
pBBR1MCS: a broad-host-range cloning vector
-
Kovach M, Phillips R, Elzer P, Roop RN, Peterson K. 1994. pBBR1MCS: a broad-host-range cloning vector. Biotechniques 16:800-802.
-
(1994)
Biotechniques
, vol.16
, pp. 800-802
-
-
Kovach, M.1
Phillips, R.2
Elzer, P.3
Roop, R.N.4
Peterson, K.5
-
33
-
-
0026766423
-
Isolation and molecular characterization of a novel broad-host-range plasmid from Bordetella bronchiseptica with sequence similarities to plasmids from gram-positive organisms
-
Antoine R, Locht C. 1992. Isolation and molecular characterization of a novel broad-host-range plasmid from Bordetella bronchiseptica with sequence similarities to plasmids from gram-positive organisms. Mol. Microbiol. 6:1785-1799.
-
(1992)
Mol. Microbiol.
, vol.6
, pp. 1785-1799
-
-
Antoine, R.1
Locht, C.2
-
34
-
-
0028793123
-
Four new derivatives of the broad-host-range cloning vector pBBR1MCS, carrying different antibiotic-resistance cassettes
-
Kovach ME, Elzer PH, Hill DS, Robertson GT, Farris MA, Roop RM, II, Peterson KM. 1995. Four new derivatives of the broad-host-range cloning vector pBBR1MCS, carrying different antibiotic-resistance cassettes. Gene 166:175-176.
-
(1995)
Gene
, vol.166
, pp. 175-176
-
-
Kovach, M.E.1
Elzer, P.H.2
Hill, D.S.3
Robertson, G.T.4
Farris, M.A.5
Roop I.I, R.M.6
Peterson, K.M.7
-
36
-
-
18744368461
-
Gentamicin resistance genes in environmental bacteria: prevalence and transfer
-
Heuer H, Krögerrecklenfort E, Wellington E, Egan S, van Elsas J, van Overbeek L, Collard J, Guillaume G, Karagouni A, Nikolakopoulou T, Smalla K. 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.3
Egan, S.4
van Elsas, J.5
van Overbeek, L.6
Collard, J.7
Guillaume, G.8
Karagouni, A.9
Nikolakopoulou, T.10
Smalla, K.11
-
37
-
-
75549087004
-
Comparative genomics of pAKD4, the prototype IncP-1δ plasmid with a complete backbone
-
Sen D, Yano H, Suzuki H, Krol JE, Rogers L, Brown CJ, Top EM. 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
Krol, J.E.4
Rogers, L.5
Brown, C.J.6
Top, E.M.7
-
38
-
-
24044455869
-
Genome sequencing in microfabricated high-density picolitre reactors
-
Margulies M, Egholm M, Altman WE, Attiya S, Bader JS, Bemben LA, Berka J, Braverman MS, Chen YJ, Chen Z, Dewell SB, Du L, Fierro JM, Gomes XV, Godwin BC, He W, Helgesen S, Ho CH, Irzyk GP, Jando SC, Alenquer ML, Jarvie TP, Jirage KB, Kim JB, Knight JR, Lanza JR, Leamon JH, Lefkowitz SM, Lei M, Li J, Lohman KL, Lu H, Makhijani VB, McDade KE, McKenna MP, Myers EW, Nickerson E, Nobile JR, Plant R, Puc BP, Ronan MT, Roth GT, Sarkis GJ, Simons JF, Simpson JW, Srinivasan M, Tartaro KR, Tomasz A, Vogt KA, Volkmer GA, Wang SH, Wang Y, Weiner MP, Yu P, Begley RF, Rothberg JM. 2005. Genome sequencing in microfabricated high-density picolitre reactors. Nature 437:376-380.
-
(2005)
Nature
, vol.437
, pp. 376-380
-
-
Margulies, M.1
Egholm, M.2
Altman, W.E.3
Attiya, S.4
Bader, J.S.5
Bemben, L.A.6
Berka, J.7
Braverman, M.S.8
Chen, Y.J.9
Chen, Z.10
Dewell, S.B.11
Du, L.12
Fierro, J.M.13
Gomes, X.V.14
Godwin, B.C.15
He, W.16
Helgesen, S.17
Ho, C.H.18
Irzyk, G.P.19
Jando, S.C.20
Alenquer, M.L.21
Jarvie, T.P.22
Jirage, K.B.23
Kim, J.B.24
Knight, J.R.25
Lanza, J.R.26
Leamon, J.H.27
Lefkowitz, S.M.28
Lei, M.29
Li, J.30
Lohman, K.L.31
Lu, H.32
Makhijani, V.B.33
McDade, K.E.34
McKenna, M.P.35
Myers, E.W.36
Nickerson, E.37
Nobile, J.R.38
Plant, R.39
Puc, B.P.40
Ronan, M.T.41
Roth, G.T.42
Sarkis, G.J.43
Simons, J.F.44
Simpson, J.W.45
Srinivasan, M.46
Tartaro, K.R.47
Tomasz, A.48
Vogt, K.A.49
Volkmer, G.A.50
Wang, S.H.51
Wang, Y.52
Weiner, M.P.53
Yu, P.54
Begley, R.F.55
Rothberg, J.M.56
more..
-
39
-
-
54049108449
-
Multiple sequence alignment using ClustalW and ClustalX
-
Chapter 2:Unit 2.3. doi:10.1002/0471250953.bi0203s00
-
Thompson J, Gibson T, Higgins D. 2002. Multiple sequence alignment using ClustalW and ClustalX. Curr. Protoc. Bioinformatics Chapter 2:Unit 2.3. doi:10.1002/0471250953.bi0203s00.
-
(2002)
Curr. Protoc. Bioinformatics
-
-
Thompson, J.1
Gibson, T.2
Higgins, D.3
-
40
-
-
0034201441
-
EMBOSS: the European Molecular Biology Open Software Suite
-
Rice P, Longden I, Bleasby A. 2000. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 16:276-277.
-
(2000)
Trends Genet.
, vol.16
, pp. 276-277
-
-
Rice, P.1
Longden, I.2
Bleasby, A.3
-
41
-
-
0242487488
-
Performance-based selection of likelihood models for phylogeny estimation
-
Minin V, Abdo Z, Joyce P, Sullivan J. 2003. Performance-based selection of likelihood models for phylogeny estimation. Syst. Biol. 52:674-683.
-
(2003)
Syst. Biol.
, vol.52
, pp. 674-683
-
-
Minin, V.1
Abdo, Z.2
Joyce, P.3
Sullivan, J.4
-
43
-
-
0030801002
-
Gapped BLAST and PSI-BLAST: a new generation of protein database search programs
-
Altschul S, Madden T, Schaffer A, Zhang J, Zhang Z, Miller W, Lipman D. 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.1
Madden, T.2
Schaffer, A.3
Zhang, J.4
Zhang, Z.5
Miller, W.6
Lipman, D.7
-
44
-
-
77954718474
-
-
Approved standard, 9th ed. Clinical and Laboratory Standards Institute, Wayne, PA.
-
Wikler MA, Cockerill FR, Craig WA, Dudley MN, Eliopoulos GM, Hecht DW, Hindler JF, Low WE, Sheehan DJ, Tenover FC, Turnidge JD, Weinstein MP, Zimmer BL, Ferraro MJ, Swenson JM. 2010. Performance standards for antimicrobial disk susceptibility tests. Approved standard, 9th ed. Clinical and Laboratory Standards Institute, Wayne, PA.
-
(2010)
Performance standards for antimicrobial disk susceptibility tests
-
-
Wikler, M.A.1
Cockerill, F.R.2
Craig, W.A.3
Dudley, M.N.4
Eliopoulos, G.M.5
Hecht, D.W.6
Hindler, J.F.7
Low, W.E.8
Sheehan, D.J.9
Tenover, F.C.10
Turnidge, J.D.11
Weinstein, M.P.12
Zimmer, B.L.13
Ferraro, M.J.14
Swenson, J.M.15
-
45
-
-
84871838444
-
Inferring the evolutionary history of IncP-1 plasmids despite incongruence among backbone gene trees
-
Sen D, Brown CJ, Top EM, 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
-
46
-
-
33748807462
-
Plasmids from freshwater environments capable of IncQ retrotransfer are diverse and include pQKH54, a new IncP-1 subgroup archetype
-
Haines A, Akhtar P, Stephens E, Jones K, Thomas C, Perkins C, Williams J, Day M, Fry J. 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.1
Akhtar, P.2
Stephens, E.3
Jones, K.4
Thomas, C.5
Perkins, C.6
Williams, J.7
Day, M.8
Fry, J.9
-
47
-
-
84886704081
-
Host range diversification within the IncP-1 plasmid group
-
3 September. [Epub ahead of print.] doi:10.1099/mic.0.068387-0.
-
Yano H, Rogers LM, Knox M, Heuer H, Smalla K, Brown CJ, Top EM. 3 September 2013. Host range diversification within the IncP-1 plasmid group. Microbiology. [Epub ahead of print.] doi:10.1099/mic.0.068387-0.
-
(2013)
Microbiology
-
-
Yano, H.1
Rogers, L.M.2
Knox, M.3
Heuer, H.4
Smalla, K.5
Brown, C.J.6
Top, E.M.7
-
48
-
-
46949101915
-
Genomic and functional characterization of the modular broad-host-range RA3 plas-mid, the archetype of the IncU group
-
Kulinska A, Czeredys M, Hayes F, Jagura-Burdzy G. 2008. Genomic and functional characterization of the modular broad-host-range RA3 plas-mid, the archetype of the IncU group. Appl. Environ. Microbiol. 74:4119-4132.
-
(2008)
Appl. Environ. Microbiol.
, vol.74
, pp. 4119-4132
-
-
Kulinska, A.1
Czeredys, M.2
Hayes, F.3
Jagura-Burdzy, G.4
-
49
-
-
84879186232
-
Global transcriptional regulator KorC coordinates expression of three backbone modules of the broad-host-range RA3 plasmid from IncU incompatibility group
-
Ludwiczak M, Dolowy P, Markowska A, Szarlak J, Kulinska A, Jagura-Burdzy G. 2013. Global transcriptional regulator KorC coordinates expression of three backbone modules of the broad-host-range RA3 plasmid from IncU incompatibility group. Plasmid 70:131-145.
-
(2013)
Plasmid
, vol.70
, pp. 131-145
-
-
Ludwiczak, M.1
Dolowy, P.2
Markowska, A.3
Szarlak, J.4
Kulinska, A.5
Jagura-Burdzy, G.6
-
50
-
-
50949131890
-
Complete Sequence of p07-406, a 24,179-base-pair plasmid harboring the blaVIM-7 metallo-β-lactamase gene in a Pseudomonas aeruginosa isolate from the United States
-
Li H, Toleman MA, Bennett PM, Jones RN, Walsh TR. 2008. Complete Sequence of p07-406, a 24,179-base-pair plasmid harboring the blaVIM-7 metallo-β-lactamase gene in a Pseudomonas aeruginosa isolate from the United States. Antimicrob. Agents Chemother. 52:3099-3105.
-
(2008)
Antimicrob. Agents Chemother.
, vol.52
, pp. 3099-3105
-
-
Li, H.1
Toleman, M.A.2
Bennett, P.M.3
Jones, R.N.4
Walsh, T.R.5
-
51
-
-
64349087867
-
The diversity of conjugative relaxases and its application in plasmid classification
-
Garcillan-Barcia M, Francia M, 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
-
-
Garcillan-Barcia, M.1
Francia, M.2
de la Cruz, F.3
-
52
-
-
35948986372
-
Wholegenome analysis of the ammonia-oxidizing bacterium, Nitrosomonas eutropha C91: implications for niche adaptation
-
Stein L, Arp D, Berube P, Chain P, Hauser L, Jetten M, Klotz M, Larimer F, Norton J, Op den Camp H, Shin M, Wei X. 2007. Wholegenome analysis of the ammonia-oxidizing bacterium, Nitrosomonas eutropha C91: implications for niche adaptation. Environ. Microbiol. 9:2993-3007.
-
(2007)
Environ. Microbiol.
, vol.9
, pp. 2993-3007
-
-
Stein, L.1
Arp, D.2
Berube, P.3
Chain, P.4
Hauser, L.5
Jetten, M.6
Klotz, M.7
Larimer, F.8
Norton, J.9
Op den Camp, H.10
Shin, M.11
Wei, X.12
-
53
-
-
23144458473
-
InterProScan: protein domains identifier
-
Quevillon E, Silventoinen V, Pillai S, Harte N, Mulder N, Apweiler R, Lopez R. 2005. InterProScan: protein domains identifier. Nucleic Acids Res. 33:W116-W120.
-
(2005)
Nucleic Acids Res.
, vol.33
-
-
Quevillon, E.1
Silventoinen, V.2
Pillai, S.3
Harte, N.4
Mulder, N.5
Apweiler, R.6
Lopez, R.7
-
54
-
-
0034956875
-
Genetic organization of plasmid pXF51 from the plant pathogen Xylella fastidiosa
-
Marques MV, da Silva AM, Gomes SL. 2001. Genetic organization of plasmid pXF51 from the plant pathogen Xylella fastidiosa. Plasmid 45: 184-199.
-
(2001)
Plasmid
, vol.45
, pp. 184-199
-
-
Marques, M.V.1
da Silva, A.M.2
Gomes, S.L.3
-
55
-
-
35448958049
-
IncP-1β plasmid pGNB1 isolated from a bacterial community from a wastewater treatment plant mediates decolorization of triphenylmethane dyes
-
Schlüter A, Krahn I, Kollin F, Bönemann G, Stiens M, Szczepanowski R, Schneiker S, Pühler A. 2007. IncP-1β plasmid pGNB1 isolated from a bacterial community from a wastewater treatment plant mediates decolorization of triphenylmethane dyes. Appl. Environ. Microbiol. 73:6345-6350.
-
(2007)
Appl. Environ. Microbiol.
, vol.73
, pp. 6345-6350
-
-
Schlüter, A.1
Krahn, I.2
Kollin, F.3
Bönemann, G.4
Stiens, M.5
Szczepanowski, R.6
Schneiker, S.7
Pühler, A.8
-
56
-
-
84865654262
-
IncP-1β plasmids of Comamonas sp. and Delftia sp. strains isolated from a wastewater treatment plant mediate resistance to and decolorization of the triphenylmethane dye crystal violet
-
Stolze Y, Eikmeyer F, Wibberg D, Brandis G, Karsten C, Krahn I, Schneiker-Bekel S, Viehover P, Barsch A, Keck M, Top EM, Niehaus K, Schluter A. 2012. IncP-1β plasmids of Comamonas sp. and Delftia sp. strains isolated from a wastewater treatment plant mediate resistance to and decolorization of the triphenylmethane dye crystal violet. Microbiology 158:2060-2072.
-
(2012)
Microbiology
, vol.158
, pp. 2060-2072
-
-
Stolze, Y.1
Eikmeyer, F.2
Wibberg, D.3
Brandis, G.4
Karsten, C.5
Krahn, I.6
Schneiker-Bekel, S.7
Viehover, P.8
Barsch, A.9
Keck, M.10
Top, E.M.11
Niehaus, K.12
Schluter, A.13
-
57
-
-
79953790350
-
The IncP-1 plasmid backbone adapts to different host bacterial species and evolves through homologous recombination
-
doi:10.1038/ncomms1267
-
Norberg P, Bergstrom 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. doi:10.1038/ncomms1267.
-
(2011)
Nat. Commun.
, vol.2
, pp. 268
-
-
Norberg, P.1
Bergstrom, M.2
Jethava, V.3
Dubhashi, D.4
Hermansson, M.5
-
58
-
-
0029876244
-
A new plasmidencoded proteic killer gene system: cloning, sequencing, and analyzing hig locus of plasmid Rts1
-
Tian Q, Ohnishi M, Tabuchi A, Terawaki Y. 1996. A new plasmidencoded proteic killer gene system: cloning, sequencing, and analyzing hig locus of plasmid Rts1. Biochem. Biophys. Res. Commun. 220:280-284.
-
(1996)
Biochem. Biophys. Res. Commun.
, vol.220
, pp. 280-284
-
-
Tian, Q.1
Ohnishi, M.2
Tabuchi, A.3
Terawaki, Y.4
-
59
-
-
84861750651
-
The complete genome sequences of four new IncN plasmids from wastewater treatment plant effluent provide new insights into IncN plasmid diversity and evolution
-
Eikmeyer F, Hadiati A, Szczepanowski R, Wibberg D, Schneiker-Bekel S, Rogers LM, Brown CJ, Top EM, Pühler A, Schlüter A. 2012. The complete genome sequences of four new IncN plasmids from wastewater treatment plant effluent provide new insights into IncN plasmid diversity and evolution. Plasmid 68:13-24.
-
(2012)
Plasmid
, vol.68
, pp. 13-24
-
-
Eikmeyer, F.1
Hadiati, A.2
Szczepanowski, R.3
Wibberg, D.4
Schneiker-Bekel, S.5
Rogers, L.M.6
Brown, C.J.7
Top, E.M.8
Pühler, A.9
Schlüter, A.10
-
60
-
-
84859171818
-
Fitness of Escherichia coli strains carrying expressed and partially silent IncN and IncP1 plasmids
-
doi:10.1186/1471-2180-12-53
-
Humphrey B, Thomson NR, Thomas CM, Brooks K, Sanders M, Delsol AA, Roe JM, Bennett PM, Enne VI. 2012. Fitness of Escherichia coli strains carrying expressed and partially silent IncN and IncP1 plasmids. BMC Microbiol. 12:53. doi:10.1186/1471-2180-12-53.
-
(2012)
BMC Microbiol.
, vol.12
, pp. 53
-
-
Humphrey, B.1
Thomson, N.R.2
Thomas, C.M.3
Brooks, K.4
Sanders, M.5
Delsol, A.A.6
Roe, J.M.7
Bennett, P.M.8
Enne, V.I.9
-
62
-
-
0029020201
-
Characterization of diverse 2,4-dichlorophenoxyacetic acid-degradative plasmids isolated from soil by complementation
-
Top E, Holben W, Forney L. 1995. Characterization of diverse 2,4-dichlorophenoxyacetic acid-degradative plasmids isolated from soil by complementation. Appl. Environ. Microbiol. 61:1691-1698.
-
(1995)
Appl. Environ. Microbiol.
, vol.61
, pp. 1691-1698
-
-
Top, E.1
Holben, W.2
Forney, L.3
-
63
-
-
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
-
64
-
-
78650768252
-
Broad-host-range plasmids in treated wastewater effluent and receiving streams
-
Akiyama T, Asfahl K, Savin M. 2010. Broad-host-range plasmids in treated wastewater effluent and receiving streams. J. Environ. Qual. 39: 2211-2215.
-
(2010)
J. Environ. Qual.
, vol.39
, pp. 2211-2215
-
-
Akiyama, T.1
Asfahl, K.2
Savin, M.3
-
65
-
-
34248147506
-
Distribution and characteristics of plasmid mobilizers in aquatic and soil environments and activated sludge
-
Inoue D, Murashige K, Sei K, Soda S, Ike M, Fujita M. 2007. Distribution and characteristics of plasmid mobilizers in aquatic and soil environments and activated sludge. J. Gen. Appl. Microbiol. 53:67-70.
-
(2007)
J. Gen. Appl. Microbiol.
, vol.53
, pp. 67-70
-
-
Inoue, D.1
Murashige, K.2
Sei, K.3
Soda, S.4
Ike, M.5
Fujita, M.6
-
66
-
-
0033794814
-
Phenotypic and molecular characterization of conjugative antibiotic resistance plasmids isolated from bacterial communities of activated sludge
-
Dröge M, Pühler A, Selbitschka W. 2000. Phenotypic and molecular characterization of conjugative antibiotic resistance plasmids isolated from bacterial communities of activated sludge. Mol. Gen. Genet. 263: 471-482.
-
(2000)
Mol. Gen. Genet.
, vol.263
, pp. 471-482
-
-
Dröge, M.1
Pühler, A.2
Selbitschka, W.3
-
67
-
-
74649085158
-
Wastewater bacterial communities bring together broad-host range plasmids, integrons and a wide diversity of uncharacterized gene cassettes
-
Moura A, Henriques I, Smalla K, Correia A. 2010. Wastewater bacterial communities bring together broad-host range plasmids, integrons and a wide diversity of uncharacterized gene cassettes. Res. Microbiol. 161:58-66.
-
(2010)
Res. Microbiol.
, vol.161
, pp. 58-66
-
-
Moura, A.1
Henriques, I.2
Smalla, K.3
Correia, A.4
-
68
-
-
80051630584
-
Comparative genomics of multidrug resistance-encoding IncA/C plasmids from commensal and pathogenic Escherichia coli from multiple animal sources
-
doi:10.1371/journal.pone.0023415
-
Fernandez-Alarcon C, Singer R, Johnson T. 2011. Comparative genomics of multidrug resistance-encoding IncA/C plasmids from commensal and pathogenic Escherichia coli from multiple animal sources. PLoS One 6:e23415. doi:10.1371/journal.pone.0023415.
-
(2011)
PLoS One
, vol.6
-
-
Fernandez-Alarcon, C.1
Singer, R.2
Johnson, T.3
-
69
-
-
0020360486
-
Distribution of bacterial plasmids in clean and polluted sites in a South Wales river
-
Burton NF, Day MJ, Bull AT. 1982. Distribution of bacterial plasmids in clean and polluted sites in a South Wales river. Appl. Environ. Microbiol. 44:1026-1029.
-
(1982)
Appl. Environ. Microbiol.
, vol.44
, pp. 1026-1029
-
-
Burton, N.F.1
Day, M.J.2
Bull, A.T.3
-
70
-
-
0000332280
-
Plasmid frequency in natural populations of estuarine microorganisms
-
Glassman DL, McNicol LA. 1981. Plasmid frequency in natural populations of estuarine microorganisms. Plasmid 5:224-231.
-
(1981)
Plasmid
, vol.5
, pp. 224-231
-
-
Glassman, D.L.1
McNicol, L.A.2
-
71
-
-
0019435105
-
Incidence of plasmids in marine Vibrio spp. isolated from an oil field in the northwestern Gulf of Mexico
-
Hada H, Sizemore R. 1981. Incidence of plasmids in marine Vibrio spp. isolated from an oil field in the northwestern Gulf of Mexico. Appl. Environ. Microbiol. 41:199-202.
-
(1981)
Appl. Environ. Microbiol.
, vol.41
, pp. 199-202
-
-
Hada, H.1
Sizemore, R.2
-
72
-
-
79951882096
-
Pyrosequencing of antibioticcontaminated river sediments reveals high levels of resistance and gene transfer elements
-
doi:10.1371/journal.pone.0017038
-
Kristiansson E, Fick J, Janzon A, Grabic R, Rutgersson C, Weijdegard B, Soderstrom H, Larsson DG. 2011. Pyrosequencing of antibioticcontaminated river sediments reveals high levels of resistance and gene transfer elements. PLoS One 6:e17038. doi:10.1371/journal.pone.0017038.
-
(2011)
PLoS One
, vol.6
-
-
Kristiansson, E.1
Fick, J.2
Janzon, A.3
Grabic, R.4
Rutgersson, C.5
Weijdegard, B.6
Soderstrom, H.7
Larsson, D.G.8
-
73
-
-
84859474080
-
Insights into the bovine rumen plasmidome
-
Brown Kav A, Sasson G, Jami E, Doron-Faigenboim A, Benhar I, Mizrahi I. 2012. Insights into the bovine rumen plasmidome. Proc. Natl. Acad. Sci. U.S.A. 109:5452-5457.
-
(2012)
Proc. Natl. Acad. Sci. U.S.A.
, vol.109
, pp. 5452-5457
-
-
Brown Kav, A.1
Sasson, G.2
Jami, E.3
Doron-Faigenboim, A.4
Benhar, I.5
Mizrahi, I.6
-
74
-
-
84861654731
-
Metamobilomics-expanding our knowledge on the pool of plasmid encoded traits in natural environments using high-throughput sequencing
-
Li LL, Norman A, Hansen LH, Sorensen SJ. 2012. Metamobilomics-expanding our knowledge on the pool of plasmid encoded traits in natural environments using high-throughput sequencing. Clin. Microbiol. Infect. 18(Suppl 4):5-7.
-
(2012)
Clin. Microbiol. Infect.
, vol.18
, Issue.SUPPL. 4
, pp. 5-7
-
-
Li, L.L.1
Norman, A.2
Hansen, L.H.3
Sorensen, S.J.4
-
75
-
-
77049127826
-
Comparative metagenomic analysis of plasmid encoded functions in the human gut microbiome
-
doi:10.1186/1471-2164-11-46
-
Jones B, Sun F, Marchesi J. 2010. Comparative metagenomic analysis of plasmid encoded functions in the human gut microbiome. BMC Genomics 11:46. doi:10.1186/1471-2164-11-46.
-
(2010)
BMC Genomics
, vol.11
, pp. 46
-
-
Jones, B.1
Sun, F.2
Marchesi, J.3
-
76
-
-
83055188823
-
Broad-host-range plasmids from agricultural soils have IncP-1 backbones with diverse accessory genes
-
Sen D, Van der Auwera GA, Rogers LM, Thomas CM, Brown CJ, Top EM. 2011. Broad-host-range plasmids from agricultural soils have IncP-1 backbones with diverse accessory genes. Appl. Environ. Microbiol. 77: 7975-7983.
-
(2011)
Appl. Environ. Microbiol.
, vol.77
, pp. 7975-7983
-
-
Sen, D.1
Van der Auwera, G.A.2
Rogers, L.M.3
Thomas, C.M.4
Brown, C.J.5
Top, E.M.6
-
77
-
-
0032438888
-
Effect of mercury addition on plasmid incidence and gene mobilizing capacity in bulk soil
-
Drønen AK, Torsvik V, Goksøyr J, Top EM. 1998. Effect of mercury addition on plasmid incidence and gene mobilizing capacity in bulk soil. FEMS Microbiol. Ecol. 27:381-394.
-
(1998)
FEMS Microbiol. Ecol.
, vol.27
, pp. 381-394
-
-
Drønen, A.K.1
Torsvik, V.2
Goksøyr, J.3
Top, E.M.4
-
78
-
-
0028273843
-
Plasmids isolated from the sugar beet phyllosphere show little or no homology to molecular probes currently available for plasmid typing
-
Kobayashi N, Bailey MJ. 1994. Plasmids isolated from the sugar beet phyllosphere show little or no homology to molecular probes currently available for plasmid typing. Microbiology 140:289-296.
-
(1994)
Microbiology
, vol.140
, pp. 289-296
-
-
Kobayashi, N.1
Bailey, M.J.2
-
79
-
-
0035954733
-
Natural conjugative plasmids induce bacterial biofilm development
-
Ghigo J. 2001. Natural conjugative plasmids induce bacterial biofilm development. Nature 412:442-445.
-
(2001)
Nature
, vol.412
, pp. 442-445
-
-
Ghigo, J.1
-
80
-
-
0027140429
-
Bacterial extracellular zinc-containing metalloproteases
-
Hase C, Finkelstein R. 1993. Bacterial extracellular zinc-containing metalloproteases. Microbiol. Rev. 57:823-837.
-
(1993)
Microbiol. Rev.
, vol.57
, pp. 823-837
-
-
Hase, C.1
Finkelstein, R.2
-
81
-
-
78049418891
-
Predicting plasmid promiscuity based on genomic signature
-
Suzuki H, Yano H, Brown C, Top E. 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.3
Top, E.4
-
82
-
-
0021943518
-
Improved M13 phage cloning vectors and host strains: nucleotide sequences of the M13mp18 and pUC19 vectors
-
Yanisch-Perron C, Vieira J, Messing J. 1985. Improved M13 phage cloning vectors and host strains: nucleotide sequences of the M13mp18 and pUC19 vectors. Gene 33:103-119.
-
(1985)
Gene
, vol.33
, pp. 103-119
-
-
Yanisch-Perron, C.1
Vieira, J.2
Messing, J.3
-
83
-
-
34250668016
-
Mini-Tn7 insertion in bacteria with secondary, non-glmS-linked attTn7 sites: example Proteus mirabilis HI4320
-
Choi KH, Schweizer HP. 2006. Mini-Tn7 insertion in bacteria with secondary, non-glmS-linked attTn7 sites: example Proteus mirabilis HI4320. Nat. Protoc. 1:170-178.
-
(2006)
Nat. Protoc.
, vol.1
, pp. 170-178
-
-
Choi, K.H.1
Schweizer, H.P.2
-
84
-
-
21444457864
-
A Tn7-based broad-range bacterial cloning and expression system
-
Choi KH, Gaynor JB, White KG, Lopez C, Bosio CM, Karkhoff-Schweizer RR, Schweizer HP. 2005. A Tn7-based broad-range bacterial cloning and expression system. Nat. Methods 2:443-448.
-
(2005)
Nat. Methods
, vol.2
, pp. 443-448
-
-
Choi, K.H.1
Gaynor, J.B.2
White, K.G.3
Lopez, C.4
Bosio, C.M.5
Karkhoff-Schweizer, R.R.6
Schweizer, H.P.7
-
85
-
-
0017584161
-
Construction and characterization of new cloning vehicles. II. A multipurpose cloning system
-
Bolivar F, Rodriguez RL, Greene PJ, Betlach MC, Heyneker HL, Boyer HW, Crosa JH, Falkow S. 1977. Construction and characterization of new cloning vehicles. II. A multipurpose cloning system. Gene 2:95-113.
-
(1977)
Gene
, vol.2
, pp. 95-113
-
-
Bolivar, F.1
Rodriguez, R.L.2
Greene, P.J.3
Betlach, M.C.4
Heyneker, H.L.5
Boyer, H.W.6
Crosa, J.H.7
Falkow, S.8
|