Genetic diversity and composition of a plasmid metagenome from a wastewater treatment plant

Journal of Biotechnology

Volumn 136, Issue 1-2, 2008, Pages 65-76

  Schlüter, Andreas ^a   Krause, Lutz ^a   Szczepanowski, Rafael ^a   Goesmann, Alexander ^a   Pühler, Alfred ^a  

^a BIELEFELD UNIVERSITY   (Germany)

Author keywords

454 Pyrosequencing; Antibiotic resistance; Conjugative transfer; Environmental gene tag analysis; Mobilisation; Plasmid metagenome; Replication initiation; Stabilisation; Virulence

Indexed keywords

AMINES; AMINO ACIDS; BACTERIOLOGY; CHEMICAL OXYGEN DEMAND; CHEMOTHERAPY; CHROMATES; DRUG DELIVERY; DRUG DOSAGE; GENES; HIDDEN MARKOV MODELS; MARKOV PROCESSES; NUCLEIC ACIDS; ORGANIC ACIDS; PIPELINES; SEWAGE PUMPING PLANTS; WASTEWATER RECLAMATION; WASTEWATER TREATMENT; WATER TREATMENT; WATER TREATMENT PLANTS;

454-PYROSEQUENCING; ACINETOBACTER; AMINO-ACID SEQUENCES; ANTIBIOTIC RESISTANCE; ANTIBIOTIC RESISTANCE GENES; ANTIMICROBIAL DRUGS; CHROMATE RESISTANCE; CLINICAL ISOLATES; CONJUGATIVE TRANSFER; DATA SETS; ENVIRONMENTAL GENE TAG ANALYSIS; GENETIC DIVERSITIES; HIDDEN MARKOV MODELING; HUMAN PATHOGENS; INSERTION SEQUENCES; INTEGRONS; LACTAMASE; METAGENOME; MOBILISATION; NUCLEOTIDE SEQUENCING; ORGANIC PEROXIDES; PLASMID METAGENOME; PROTEIN FAMILIES; REPLICATION INITIATION; STABILISATION; TRANSPOSASE; ULTRA-FAST; VIRULENCE; WASTE WATER TREATMENT PLANT;

HEALTH;

BETA LACTAMASE; PEROXIDE; TRANSPOSASE;

ACINETOBACTER BAUMANNII; AMINO ACID SEQUENCE; ANTIBIOTIC SENSITIVITY; ARTICLE; BACTERIAL GENOME; BACTERIAL VIRULENCE; CONTROLLED STUDY; GENE INSERTION SEQUENCE; GENE REPLICATION; GENETIC VARIABILITY; NONHUMAN; NUCLEOTIDE SEQUENCE; PLASMID; PRIORITY JOURNAL; WASTE WATER TREATMENT PLANT;

ANTI-INFECTIVE AGENTS; BACTERIA, AEROBIC; BASE SEQUENCE; BIOTECHNOLOGY; CHROMOSOME MAPPING; DRUG RESISTANCE, BACTERIAL; GENOME, BACTERIAL; INDUSTRIAL WASTE; MOLECULAR SEQUENCE DATA; PLASMIDS; SEQUENCE ANALYSIS, DNA; VARIATION (GENETICS); WATER MICROBIOLOGY; WATER PURIFICATION;

ACINETOBACTER BAUMANNII;

EID: 50149108551     PISSN: 01681656     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.jbiotec.2008.03.017     Document Type: Article

References (105)

1. Abraham S.N., Jonsson A.B., and Normark S. Fimbriae-mediated host-pathogen cross-talk. Curr. Opin. Microbiol. 1 (1998) 75-81
2. Agerso Y., and Guardabassi L. Identification of Tet 39, a novel class of tetracycline resistance determinant in Acinetobacter spp. of environmental and clinical origin. J. Antimicrob. Chemother. 55 (2005) 566-569
3. Altschul S.F., Gish W., Miller W., Myers E.W., and Lipman D.J. Basic local alignment search tool. J. Mol. Biol. 215 (1990) 403-410
4. Ashburner M., Ball C.A., Blake J.A., Botstein D., Butler H., Cherry J.M., Davis A.P., Dolinski K., Dwight S.S., Eppig J.T., Harris M.A., Hill D.P., Issel-Tarver L., Kasarskis A., Lewis S., Matese J.C., Richardson J.E., Ringwald M., Rubin G.M., and Sherlock G. Gene ontology: tool for the unification of biology. The Gene Ontology Consortium. Nat. Genet. 25 (2000) 25-29
5. Avison M.B., Walsh T.R., and Bennett P.M. pUb6060: a broad-host-range, DNA polymerase-I-independent ColE2-like plasmid. Plasmid 45 (2001) 88-100
6. Baek C.H., Farrand S.K., Lee K.E., Park D.K., Lee J.K., and Kim K.S. Convergent evolution of Amadori opine catabolic systems in plasmids of Agrobacterium tumefaciens. J. Bacteriol. 185 (2003) 513-524
7. Bauernfeind A., Wagner S., Jungwirth R., Schneider I., and Meyer D. A novel class C β-lactamase (FOX-2) in Escherichia coli conferring resistance to cephamycins. Antimicrob. Agents Chemother. 41 (1997) 2041-2046
8. Beceiro A., Dominguez L., Ribera A., Vila J., Molina F., Villanueva R., Eiros J.M., and Bou G. Molecular characterization of the gene encoding a new AmpC β-lactamase in a clinical strain of Acinetobacter genomic species 3. Antimicrob. Agents Chemother. 48 (2004) 1374-1378
9. leuX. J. Bacteriol. 187 (2005) 2469-2482
10. Bönemann G., Stiens M., Pühler A., and Schlüter A. Mobilizable IncQ-related plasmid carrying a new quinolone resistance gene, qnrS2, isolated from the bacterial community of a wastewater treatment plant. Antimicrob. Agents Chemother. 50 (2006) 3075-3080
11. Bou G., Oliver A., Ojeda M., Monzon C., and Martinez-Beltran J. Molecular characterization of FOX-4, a new AmpC-type plasmid-mediated beta-lactamase from an Escherichia coli strain isolated in Spain. Antimicrob. Agents Chemother. 44 (2000) 2549-2553
12. Boyd D.A., Tyler S., Christianson S., McGeer A., Muller M.P., Willey B.M., Bryce E., Gardam M., Nordmann P., and Mulvey M.R. Complete nucleotide sequence of a 92-kilobase plasmid harboring the CTX-M-15 extended-spectrum beta-lactamase involved in an outbreak in long-term-care facilities in Toronto, Canada. Antimicrob. Agents Chemother. 48 (2004) 3758-3764
13. Boyd J., Williams J., Curtis B., Kozera C., Singh R., and Reith M. Three small, cryptic plasmids from Aeromonas salmonicida subsp. salmonicida A449. Plasmid 50 (2003) 131-144
14. Buell C.R., Joardar V., Lindeberg M., Selengut J., Paulsen I.T., Gwinn M.L., Dodson R.J., Deboy R.T., Durkin A.S., Kolonay J.F., Madupu R., Daugherty S., Brinkac L., Beanan M.J., Haft D.H., Nelson W.C., Davidsen T., Zafar N., Zhou L., Liu J., Yuan Q., Khouri H., Fedorova N., Tran B., Russell D., Berry K., Utterback T., Van Aken S.E., Feldblyum T.V., D'Ascenzo M., Deng W.L., Ramos A.R., Alfano J.R., Cartinhour S., Chatterjee A.K., Delaney T.P., Lazarowitz S.G., Martin G.B., Schneider D.J., Tang X., Bender C.L., White O., Fraser C.M., and Collmer A. The complete genome sequence of the Arabidopsis and tomato pathogen Pseudomonas syringae pv. tomato DC3000. Proc. Natl. Acad. Sci. U.S.A. 100 (2003) 10181-10186
15. Chen Y.T., Chang H.Y., Lai Y.C., Pan C.C., Tsai S.F., and Peng H.L. Sequencing and analysis of the large virulence plasmid pLVPK of Klebsiella pneumoniae CG43. Gene 337 (2004) 189-198
16. Chiancone E., Ceci P., Ilari A., Ribacchi F., and Stefanini S. Iron and proteins for iron storage and detoxification. Biometals 17 (2004) 197-202
17. Chiu C.H., Tang P., Chu C., Hu S., Bao Q., Yu J., Chou Y.Y., Wang H.S., and Lee Y.S. The genome sequence of Salmonella enterica serovar Choleraesuis, a highly invasive and resistant zoonotic pathogen. Nucleic Acids Res. 33 (2005) 1690-1698
18. Consortium U. The universal protein resource (UniProt). Nucleic Acids Res. 35 (2007) D193-D197
19. Correia M., Boavida F., Grosso F., Salgado M.J., Lito L.M., Cristino J.M., Mendo S., and Duarte A. Molecular characterization of a new class 3 integron in Klebsiella pneumoniae. Antimicrob. Agents Chemother. 47 (2003) 2838-2843
20. De Boever E.H., Clewell D.B., and Fraser C.M. Enterococcus faecalis conjugative plasmid pAM373: complete nucleotide sequence and genetic analyses of sex pheromone response. Mol. Microbiol. 37 (2000) 1327-1341
21. de Lorenzo V., and Neilands J.B. Characterization of iucA and iucC genes of the aerobactin system of plasmid ColV-K30 in Escherichia coli. J. Bacteriol. 167 (1986) 350-355
22. Doloy A., Verdet C., Gautier V., Decre D., Ronco E., Hammami A., Philippon A., and Arlet G. Genetic environment of acquired bla(ACC-1) beta-lactamase gene in Enterobacteriaceae isolates. Antimicrob. Agents Chemother. 50 (2006) 4177-4181
23. Dong X.Q., Lindler L.E., and Chu M.C. Complete DNA sequence and analysis of an emerging cryptic plasmid isolated from Yersinia pestis. Plasmid 43 (2000) 144-148
24. Dorsey C.W., Tomaras A.P., and Actis L.A. Sequence and organization of pMAC, an Acinetobacter baumannii plasmid harboring genes involved in organic peroxide resistance. Plasmid 56 (2006) 112-123
25. Dröge M., Pühler A., and Selbitschka W. Phenotypic and molecular characterization of conjugative antibiotic resistance plasmids isolated from bacterial communities of activated sludge. Mol. Gen. Genet. 263 (2000) 471-482
26. Duchaud E., Rusniok C., Frangeul L., Buchrieser C., Givaudan A., Taourit S., Bocs S., Boursaux-Eude C., Chandler M., Charles J.F., Dassa E., Derose R., Derzelle S., Freyssinet G., Gaudriault S., Medigue C., Lanois A., Powell K., Siguier P., Vincent R., Wingate V., Zouine M., Glaser P., Boemare N., Danchin A., and Kunst F. The genome sequence of the entomopathogenic bacterium Photorhabdus luminescens. Nat. Biotechnol. 21 (2003) 1307-1313
27. Emsley P., Charles I.G., Fairweather N.F., and Isaacs N.W. Structure of Bordetella pertussis virulence factor P.69 pertactin. Nature 381 (1996) 90-92
28. 2-fixing endosymbiont Sinorhizobium meliloti. Proc. Natl. Acad. Sci. U.S.A. 98 (2001) 9889-9894
29. Finn R.D., Mistry J., Schuster-Böckler B., Griffiths-Jones S., Hollich V., Lassmann T., Moxon S., Marshall M., Khanna A., Durbin R., Eddy S.R., Sonnhammer E.L., and Bateman A. Pfam: clans, web tools and services. Nucleic Acids Res. 34 (2006) D247-D251
30. Fouts D.E., Mongodin E.F., Mandrell R.E., Miller W.G., Rasko D.A., Ravel J., Brinkac L.M., DeBoy R.T., Parker C.T., Daugherty S.C., Dodson R.J., Durkin A.S., Madupu R., Sullivan S.A., Shetty J.U., Ayodeji M.A., Shvartsbeyn A., Schatz M.C., Badger J.H., Fraser C.M., and Nelson K.E. Major structural differences and novel potential virulence mechanisms from the genomes of multiple Campylobacter species. PLoS Biol. 3 (2005) e15
31. Francia M.V., Varsaki A., Garcillan-Barcia M.P., Latorre A., Drainas C., and de la Cruz F. A classification scheme for mobilization regions of bacterial plasmids. FEMS Microbiol. Rev. 28 (2004) 79-100
32. Frost L.S., Leplae R., Summers A.O., and Toussaint A. Mobile genetic elements: the agents of open source evolution. Nat. Rev. Microbiol. 3 (2005) 722-732
33. Gardner M.N., Deane S.M., and Rawlings D.E. Isolation of a new broad-host-range IncQ-like plasmid, pTC-F14, from the acidophilic bacterium Acidithiobacillus caldus and analysis of the plasmid replicon. J. Bacteriol. 183 (2001) 3303-3309
34. Golubov A., Neubauer H., Nolting C., Heesemann J., and Rakin A. Structural organization of the pFra virulence-associated plasmid of rhamnose-positive Yersinia pestis. Infect. Immun. 72 (2004) 5613-5621
35. Grady R., and Hayes F. Axe-Txe, a broad-spectrum proteic toxin-antitoxin system specified by a multidrug-resistant, clinical isolate of Enterococcus faecium. Mol. Microbiol. 47 (2003) 1419-1432
36. Gravesen A., Josephsen J., Vonwright A., and Vogensen F.K. Characterization of the replicon from the lactococcal theta-replicating plasmid Pjw563. Plasmid 34 (1995) 105-118
37. Haile Y., Caugant D.A., Bjune G., and Wiker H.G. Mycobacterium tuberculosis mammalian cell entry operon (mce) homologs in Mycobacterium other than tuberculosis (MOTT). FEMS Immunol. Med. Microbiol. 33 (2002) 125-132
38. Haines A.S., Jones K., Cheung M., and Thomas C.M. The IncP-6 plasmid Rms149 consists of a small mobilizable backbone with multiple large insertions. J. Bacteriol. 187 (2005) 4728-4738
39. Haneda T., Okada N., Nakazawa N., Kawakami T., and Danbara H. Complete DNA sequence and comparative analysis of the 50-kilobase virulence plasmid of Salmonella enterica serovar Choleraesuis. Infect. Immun. 69 (2001) 2612-2620
40. Hata M., Suzuki M., Matsumoto M., Takahashi M., Sato K., Ibe S., and Sakae K. Cloning of a novel gene for quinolone resistance from a transferable plasmid in Shigella flexneri 2b. Antimicrob. Agents Chemother. 49 (2005) 801-803
41. Hayes F. Toxins-antitoxins: plasmid maintenance, programmed cell death, and cell cycle arrest. Science 301 (2003) 1496-1499
42. Hays J.P., Eadie K., Verduin C.M., Verbrugh H., and van Belkum A. A novel plasmid (pEMCJH03) isolated from Moraxella catarrhalis possibly useful as a cloning and expression vector within this species. Plasmid 53 (2005) 263-268
43. Hefford M.A., Kobayashi Y., Allard S.E., Forster R.J., and Teather R.M. Sequence analysis and characterization of pOM1, a small cryptic plasmid from Butyrivibrio fibrisolvens, and its use in construction of a new family of cloning vectors for Butyrivibrios. Appl. Environ. Microbiol. 63 (1997) 1701-1711
44. Heidelberg J.F., Paulsen I.T., Nelson K.E., Gaidos E.J., Nelson W.C., Read T.D., Eisen J.A., Seshadri R., Ward N., Methe B., Clayton R.A., Meyer T., Tsapin A., Scott J., Beanan M., Brinkac L., Daugherty S., DeBoy R.T., Dodson R.J., Durkin A.S., Haft D.H., Kolonay J.F., Madupu R., Peterson J.D., Umayam L.A., White O., Wolf A.M., Vamathevan J., Weidman J., Impraim M., Lee K., Berry K., Lee C., Mueller J., Khouri H., Gill J., Utterback T.R., McDonald L.A., Feldblyum T.V., Smith H.O., Venter J.C., Nealson K.H., and Fraser C.M. Genome sequence of the dissimilatory metal ion-reducing bacterium Shewanella oneidensis. Nat. Biotechnol. 20 (2002) 1118-1123
45. Hoe N.P., Nakashima K., Lukomski S., Grigsby D., Liu M., Kordari P., Dou S.J., Pan X., Vuopio-Varkila J., Salmelinna S., McGeer A., Low D.E., Schwartz B., Schuchat A., Naidich S., De Lorenzo D., Fu Y.X., and Musser J.M. Rapid selection of complement-inhibiting protein variants in group A Streptococcus epidemic waves. Nat. Med. 5 (1999) 924-929
46. Holtwick R., von Wallbrunn A., Keweloh H., and Meinhardt F. A novel rolling-circle-replicating plasmid from Pseudomonas putida P8: molecular characterization and use as vector. Microbiology 147 (2001) 337-344
47. Johnson T.J., Siek K.E., Johnson S.J., and Nolan L.K. DNA sequence and comparative genomics of pAPEC-O2-R, an avian pathogenic Escherichia coli transmissible R plasmid. Antimicrob. Agents Chemother. 49 (2005) 4681-4688
48. Kaneko T., Nakamura Y., Sato S., Minamisawa K., Uchiumi T., Sasamoto S., Watanabe A., Idesawa K., Iriguchi M., Kawashima K., Kohara M., Matsumoto M., Shimpo S., Tsuruoka H., Wada T., Yamada M., and Tabata S. Complete genomic sequence of nitrogen-fixing symbiotic bacterium Bradyrhizobium japonicum USDA110. DNA Res. 9 (2002) 189-197
49. Karyekar C.S., Fasano A., Raje S., Lu R., Dowling T.C., and Eddington N.D. Zonula occludens toxin increases the permeability of molecular weight markers and chemotherapeutic agents across the bovine brain microvessel endothelial cells. J. Pharm. Sci. 92 (2003) 414-423
50. Katz M.E., Strugnell R.A., and Rood J.I. Molecular characterization of a genomic region associated with virulence in Dichelobacter nodosus. Infect. Immun. 60 (1992) 4586-4592
51. Kehrenberg C., and Schwarz S. Plasmid-borne florfenicol resistance in Pasteurella multocida. J. Antimicrob. Chemother. 55 (2005) 773-775
52. Kelly G., Prasannan S., Daniell S., Fleming K., Frankel G., Dougan G., Connerton I., and Matthews S. Structure of the cell-adhesion fragment of intimin from enteropathogenic Escherichia coli. Nat. Struct. Biol. 6 (1999) 313-318
53. Kil K.S., Cunningham M.W., and Barnett L.A. Cloning and sequence analysis of a gene encoding a 67-kiloDalton myosin-cross-reactive antigen of Streptococcus pyogenes reveals its similarity with class II major histocompatibility antigens. Infect. Immun. 62 (1994) 2440-2449
54. Kim S.R., and Komano T. Nucleotide sequence of the R721 shufflon. J. Bacteriol. 174 (1992) 7053-7058
55. Klockgether J., Reva O., Larbig K., and Tummler B. Sequence analysis of the mobile genome island pKLC102 of Pseudomonas aeruginosa C. J. Bacteriol. 186 (2004) 518-534
56. Kobayashi I. Behavior of restriction-modification systems as selfish mobile elements and their impact on genome evolution. Nucleic Acids Res. 29 (2001) 3742-3756
57. Krause L., Diaz N.N., Goesmann A., Kelley S., Nattkemper T.W., Rohwer F., Edwards R.A., and Stoye J. Phylogenetic classification of short environmental DNA fragments. Nucleic Acids Res. 36 (2008) 2230-2239
58. Krogfelt K.A. Bacterial adhesion: genetics, biogenesis, and role in pathogenesis of fimbrial adhesins of Escherichia coli. Rev. Infect. Dis. 13 (1991) 721-735
59. Kwong S.M., Yeo C.C., Chuah D., and Poh C.L. Sequence analysis of plasmid pRA2 from Pseudomonas alcaligenes NCIB 9867 (P25X) reveals a novel replication region. FEMS Microbiol. Lett. 158 (1998) 159-165
60. Lu J., Manchak J., Klimke W., Davidson C., Firth N., Skurray R.A., and Frost L.S. Analysis and characterization of the IncFV plasmid pED208 transfer region. Plasmid 48 (2002) 24-37
61. Maeda K., Nojiri H., Shintani M., Yoshida T., Habe H., and Omori T. Complete nucleotide sequence of carbazole/dioxin-degrading plasmid pCAR1 in Pseudomonas resinovorans strain CA10 indicates its mosaicity and the presence of large catabolic transposon Tn4676. J. Mol. Biol. 326 (2003) 21-33
62. Martinez J.L., Herrero M., and de Lorenzo V. The organization of intercistronic regions of the aerobactin operon of pColV-K30 may account for the differential expression of the iucABCD iutA genes. J. Mol. Biol. 238 (1994) 288-293
63. McIntire S.A., and Dempsey W.B. oriT sequence of the antibiotic resistance plasmid R100. J. Bacteriol. 169 (1987) 3829-3832
64. Mingeot-Leclercq M.P., Glupczynski Y., and Tulkens P.M. Aminoglycosides: activity and resistance. Antimicrob. Agents Chemother. 43 (1999) 727-737
65. Motallebi-Veshareh M., Rouch D.A., and Thomas C.M. A family of ATPases involved in active partitioning of diverse bacterial plasmids. Mol. Microbiol. 4 (1990) 1455-1463
66. Nadjar D., Labia R., Cerceau C., Bizet C., Philippon A., and Arlet G. Molecular characterization of chromosomal class C beta-lactamase and its regulatory gene in Ochrobactrum anthropi. Antimicrob. Agents Chemother. 45 (2001) 2324-2330
67. Nunez B., Avila P., and de la Cruz F. Genes involved in conjugative DNA processing of plasmid R6K. Mol. Microbiol. 24 (1997) 1157-1168
68. O'Dwyer C.A., Langford P.R., and Kroll J.S. A novel neisserial shuttle plasmid: a useful new tool for meningococcal research. FEMS Microbiol. Lett. 251 (2005) 143-147
69. Paulsen I.T., Press C.M., Ravel J., Kobayashi D.Y., Myers G.S., Mavrodi D.V., DeBoy R.T., Seshadri R., Ren Q., Madupu R., Dodson R.J., Durkin A.S., Brinkac L.M., Daugherty S.C., Sullivan S.A., Rosovitz M.J., Gwinn M.L., Zhou L., Schneider D.J., Cartinhour S.W., Nelson W.C., Weidman J., Watkins K., Tran K., Khouri H., Pierson E.A., Pierson III L.S., Thomashow L.S., and Loper J.E. Complete genome sequence of the plant commensal Pseudomonas fluorescens Pf-5. Nat. Biotechnol. 23 (2005) 873-878
70. Pimenta A.L., Racher K., Jamieson L., Blight M.A., and Holland I.B. Mutations in HlyD, part of the type 1 translocator for hemolysin secretion, affect the folding of the secreted toxin. J. Bacteriol. 187 (2005) 7471-7480
71. Pohlner J., Halter R., Beyreuther K., and Meyer T.F. Gene structure and extracellular secretion of Neisseria gonorrhoeae IgA protease. Nature 325 (1987) 458-462
72. Poulsen K., Reinholdt J., and Kilian M. Characterization of the Streptococcus pneumoniae immunoglobulin A1 protease gene (iga) and its translation product. Infect. Immun. 64 (1996) 3957-3966
73. Prust C., Hoffmeister M., Liesegang H., Wiezer A., Fricke W.F., Ehrenreich A., Gottschalk G., and Deppenmeier U. Complete genome sequence of the acetic acid bacterium Gluconobacter oxydans. Nat. Biotechnol. 23 (2005) 195-200
74. Relman D.A., Domenighini M., Tuomanen E., Rappuoli R., and Falkow S. Filamentous hemagglutinin of Bordetella pertussis: nucleotide sequence and crucial role in adherence. Proc. Natl. Acad. Sci U.S.A. 86 (1989) 2637-2641
75. Rhodes G., Parkhill J., Bird C., Ambrose K., Jones M.C., Huys G., Swings J., and Pickup R.W. 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 (2004) 7497-7510
76. Salmond G.P., and Reeves P.J. Membrane traffic wardens and protein secretion in gram-negative bacteria. Trends Biochem. Sci. 18 (1993) 7-12
77. Sandt C.H., and Hill C.W. Nonimmune binding of human immunoglobulin A (IgA) and IgG Fc by distinct sequence segments of the EibF cell surface protein of Escherichia coli. Infect. Immun. 69 (2001) 7293-7303
78. Schlüter A., Szczepanowski R., Pühler A., and Top E.M. 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 (2007) 449-477
79. Schlüter A., Szczepanowski R., Kurz N., Schneiker S., Krahn I., and Pühler A. Erythromycin resistance-conferring plasmid pRSB105, isolated from a sewage treatment plant, harbors a new macrolide resistance determinant, an integron-containing Tn402-like element, and a large region of unknown function. Appl. Environ. Microbiol. 73 (2007) 1952-1960
80. Schlüter A., Heuer H., Szczepanowski R., Forney L.J., Thomas C.M., Pühler A., and Top E.M. 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 (2003) 3139-3153
81. Schlüter A., Heuer H., Szczepanowski R., Poler S.M., Schneiker S., Pühler A., and Top E.M. Plasmid pB8 is closely related to the prototype IncP-1β plasmid R751 but transfers poorly to Escherichia coli and carries a new transposon encoding a small multidrug resistance efflux protein. Plasmid 54 (2005) 135-148
82. Schlüter A., Krahn I., Kollin F., Bönemann G., Stiens M., Szczepanowski R., Schneiker S., and Pühler A. IncP-1β plasmid pGNB1 isolated from a bacterial community from a wastewater treatment plant mediates decolorization of triphenylmethane dyes. Appl. Environ. Microbiol. 73 (2007) 6345-6350
83. Scholz P., Haring V., Wittmann-Liebold B., Ashman K., Bagdasarian M., and Scherzinger E. Complete nucleotide sequence and gene organization of the broad-host-range plasmid RSF1010. Gene 75 (1989) 271-288
84. Stearman R., Yuan D.S., Yamaguchi-Iwai Y., Klausner R.D., and Dancis A. A permease-oxidase complex involved in high-affinity iron uptake in yeast. Science 271 (1996) 1552-1557
85. Szczepanowski R., Krahn I., Bohn N., Pühler A., and Schlüter A. Novel macrolide resistance module carried by the IncP-1β resistance plasmid pRSB111, isolated from a wastewater treatment plant. Antimicrob. Agents Chemother. 51 (2007) 673-678
86. Szczepanowski R., Krahn I., Linke B., Goesmann A., Pühler A., and Schlüter A. Antibiotic multiresistance plasmid pRSB101 isolated from a wastewater treatment plant is related to plasmids residing in phytopathogenic bacteria and carries eight different resistance determinants including a multidrug transport system. Microbiology 150 (2004) 3613-3630
87. Szczepanowski R., Braun S., Riedel V., Schneiker S., Krahn I., Pühler A., and Schlüter A. The 120 592 bp IncF plasmid pRSB107 isolated from a sewage-treatment plant encodes nine different antibiotic-resistance determinants, two iron-acquisition systems and other putative virulence-associated functions. Microbiology 151 (2005) 1095-1111
88. Szczepanowski R., Bekel T., Goesmann A., Krause L., Krömeke H., Kaiser O., Eichler W., Pühler A., and Schlüter A. Insight into the plasmid metagenome of antibiotic resistant bacteria of a wastewater treatment plant analysed by the 454-sequencing technology. J. Biotechnol. 136 (2008) 54-64
89. NPS-1, and a tripartite antibiotic efflux system of the resistance-nodulation-division family. Mol. Genet. Genom. 268 (2003) 570-584
90. Tennstedt T., Szczepanowski R., Braun S., Pühler A., and Schlüter A. Occurrence of integron-associated resistance gene cassettes located on antibiotic resistance plasmids isolated from a wastewater treatment plant. FEMS Microbiol. Ecol. 45 (2003) 239-252
91. Tennstedt T., Szczepanowski R., Krahn I., Pühler A., and Schlüter A. Sequence of the 68,869 bp IncP-1α plasmid pTB11 from a waste-water treatment plant reveals a highly conserved backbone, a Tn402-like integron and other transposable elements. Plasmid 53 (2005) 218-238
92. Toussaint A., and Merlin C. Mobile elements as a combination of functional modules. Plasmid 47 (2002) 26-35
93. Tran J.H., and Jacoby G.A. Mechanism of plasmid-mediated quinolone resistance. Proc. Natl. Acad. Sci. U.S.A. 99 (2002) 5638-5642
94. Tsui I.S., Yip C.M., Hackett J., and Morris C. The type IVB pili of Salmonella enterica serovar Typhi bind to the cystic fibrosis transmembrane conductance regulator. Infect. Immun. 71 (2003) 6049-6050
95. Vargas C., Tegos G., Vartholomatos G., Drainas C., Ventosa A., and Nieto J.J. Genetic organization of the mobilization region of the plasmid pHE1 from Halomonas elongata. Syst. Appl. Microbiol. 22 (1999) 520-529
96. Venkatesan M.M., Goldberg M.B., Rose D.J., Grotbeck E.J., Burland V., and Blattner F.R. Complete DNA sequence and analysis of the large virulence plasmid of Shigella flexneri. Infect. Immun. 69 (2001) 3271-3285
97. Wang M., Tran J.H., Jacoby G.A., Zhang Y., Wang F., and Hooper D.C. Plasmid-mediated quinolone resistance in clinical isolates of Escherichia coli from Shanghai, China. Antimicrob. Agents Chemother. 47 (2003) 2242-2248
98. Whitehead T.R., and Cotta M.A. Sequence analyses of a broad host-range plasmid containing ermT from a tylosin-resistant Lactobacillus sp. isolated from swine feces. Curr. Microbiol. 43 (2001) 17-20
99. Wu J.R., Shieh H.K., Shien J.H., Gong S.R., and Chang P.C. Molecular characterization of plasmids with antimicrobial resistant genes in avian isolates of Pasteurella multocida. Avian. Dis. 47 (2003) 1384-1392
100. Wu S.W., Dornbusch K., Kronvall G., and Norgren M. Characterization and nucleotide sequence of a Klebsiella oxytoca cryptic plasmid encoding a CMY-type β-lactamase: confirmation that the plasmid-mediated cephamycinase originated from the Citrobacter freundii AmpC β-lactamase. Antimicrob. Agents Chemother. 43 (1999) 1350-1357
101. Yang F., Yang J., Zhang X.B., Chen L.H., Jiang Y., Yan Y.L., Tang X.D., Wang J., Xiong Z.H., Dong J., Xue Y., Zhu Y.F., Xu X.Y., Sun L.L., Chen S.X., Nie H., Peng J.P., Xu J.G., Wang Y., Yuan Z.H., Wen Y.M., Yao Z.J., Shen Y., Qiang B.Q., Hou Y.D., Yu J., and Jin Q. Genome dynamics and diversity of Shigella species, the etiologic agents of bacillary dysentery. Nucleic Acids Res. 33 (2005) 6445-6458
102. Yoo J.S., Kim H.S., Chung S.Y., Lee Y.C., Cho Y.S., and Choi Y.L. Characterization of the small cryptic plasmid, pGD2, of Klebsiellia sp. KCL-2. J. Biochem. Mol. Biol. 34 (2001) 584-589
103. Yurieva O., Kholodii G., Minakhin L., Gorlenko Z., Kalyaeva E., Mindlin S., and Nikiforov V. Intercontinental spread of promiscuous mercury-resistance transposons in environmental bacteria. Mol. Microbiol. 24 (1997) 321-329
104. Zhao W., Schorey J.S., Groger R., Allen P.M., Brown E.J., and Ratliff T.L. Characterization of the fibronectin binding motif for a unique mycobacterial fibronectin attachment protein, FAP. J. Biol. Chem. 274 (1999) 4521-4526
105. SHV-5. Antimicrob. Agents Chemother. 51 (2007) 1164-1171