Nucleotide sequence of the Serratia entomophila plasmid pADAP and the Serratia proteamaculans pU143 plasmid virulence associated region

Plasmid

Volumn 65, Issue 1, 2011, Pages 32-41

  Hurst, Mark R H ^a   Becher, S Anette ^b   O'Callaghan, Maureen ^a  

^a AGRESEARCH LTD   (New Zealand)

^b INVERMAY AGRICULTURAL CENTRE   (New Zealand)

Author keywords

PADAP; PSG348 Serratia entomophila; PU143; Serratia grimesii; Serratia proteamaculans; Yersinia

Indexed keywords

BACTERIAL DNA;

ARTICLE; BACTERIAL GENE; BACTERIAL GENOME; BACTERIAL STRAIN; BACTERIAL VIRULENCE; COLEOPTERA; CONTROLLED STUDY; DNA REPLICATION; DNA SEQUENCE; ESCHERICHIA COLI; NONHUMAN; NUCLEOTIDE SEQUENCE; PLASMID; PROPHAGE; SERRATIA; SERRATIA ENTOMOPHILA; SERRATIA GRIMESII; SERRATIA PROTEAMACULANS;

ANIMALS; BASE SEQUENCE; BEETLES; MOLECULAR SEQUENCE ANNOTATION; MOLECULAR SEQUENCE DATA; OPEN READING FRAMES; PHYLOGENY; PLASMIDS; REPLICATION ORIGIN; SEQUENCE ALIGNMENT; SEQUENCE ANALYSIS, DNA; SERRATIA; SERRATIA INFECTIONS; VIRULENCE;

BACTERIA (MICROORGANISMS); COLEOPTERA; COSTELYTRA ZEALANDICA; ESCHERICHIA COLI; SCARABAEIDAE; SERRATIA ENTOMOPHILA; SERRATIA GRIMESII; SERRATIA PROTEAMACULANS; YERSINIA;

EID: 78650744470     PISSN: 0147619X     EISSN: 10959890     Source Type: Journal    
DOI: 10.1016/j.plasmid.2010.10.001     Document Type: Article

References (47)

1. Altschul S.F., Madden T.L., Schaffer A.A., Zhang J., Zhang Z., Miller W., Lipman D.J. Gapped BLAST and PSI-BLAST, a new generation of protein database search programs. Nucleic Acids Res. 1997, 25:3389-3402.
2. AL. Bergey's Manual of Systematic Bacteriology 1984, vol. 1:498-506. Williams, Wilkins, Baltimore.
3. Bowen D., Rocheleau T.A., Blackburn M., Andreev O., Golubeva E., Bhartia R., ffrench-Constant R.H. Insecticidal toxins from the bacterium Photorhabdus luminescens. Science 1998, 280:2129-2132.
4. Degnan P.H., Yu Y., Sisneros N., Wing R.A., Moran N.A. Hamiltonella defensa, genome evolution of protective bacterial endosymbiont from pathogenic ancestors. Proc. Natl. Acad. Sci. USA 2009, 106:9063-9068.
5. Dodd S.J., Hurst M.R., Glare T.R., O'Callaghan M., Ronson C.W. Occurrence of sep insecticidal toxin complex genes in Serratia spp. and Yersinia frederiksenii. Appl. Environ. Microbiol. 2006, 72:6584-6592.
6. Dower W.J., Miller J.F., Ragsdale C.W. High efficiency transformation of E. coli by high voltage electroporation. Nucleic acids Res. 1988, 16:6127-6145.
7. Duchaud E., Rusniok C., Frangeul L., et al. The genome sequence of the entomopathogenic bacterium Photorhabdus luminescens. Nat. Biotechnol. 2003, 21:1307-1313.
8. ffrench-Constant R., Waterfield N. An ABC guide to the bacterial toxin complexes. Adv. Appl. Microbiol. 2005, 58C:169-183.
9. Glare T.R., Corbett G.E., Sadler A.J. Association of a large plasmid with amber disease of the New Zealand grass grub, Costelytra zealandica, caused by Serratia entomophila and Serratia proteamaculans. J. Invertebr. Pathol. 1993, 62:165-170.
10. Glare T.R., Hurst M.R.H., Grkovic S. Plasmid transfer among several members of the family: Enterobacteriaceae increases the number of species capable of causing experimental amber disease in grass grub. FEMS Micro. Lett. 1996, 139:117-120.
11. Gilmour M.W., Thomson N.R., Sanders M., Parkhill J., Taylor D.E. The complete nucleotide sequence of the resistance plasmid R478: defining the backbone components of incompatibility group H conjugative plasmids through comparative genomics. Plasmid 2004, 52:182-202.
12. Goodrich J.A., Schwartz M.L., McClure W.R. Searching for and predicting the activity of sites for DNA binding proteins: compilation and analysis of the binding sites for Escherichia coli integration host factor (IHF). Nucleic Acids Res. 1990, 18:4993-5000.
13. Grkovic S., Glare T.R., Jackson T.A., Corbett G.E. Genes essential for amber disease in grass grubs are located on the large plasmid found in Serratia entomophila and Serratia proteamaculans. App. Environ. Microbiol. 1995, 61:2218-2223.
14. Guindon S., Gascuel O. A simple, fast, and accurate algorithm to estimate large phylogenies by maximum likelihood. Syst. Biol. 2003, 52:696-704.
15. Huo Y.X., Zhang Y.T., Xiao Y., Zhang X., Buck M., Kolb A., Wang Y.P. IHF-binding sites inhibit DNA loop formation and transcription initiation. Nucleic Acid. Res. 2009, 37:3878-3886.
16. Hurst M.R., Glare T.R. Restriction map of the Serratia entomophila plasmid pADAP carrying virulence factors for Costelytra zealandica. Plasmid 2002, 47:51-60.
17. Hurst M.R., Glare T.R., Jackson T.A., Ronson C.W. Plasmid-located pathogenicity determinants of Serratia entomophila, the causal agent of amber disease of grass grub, show similarity to the insecticidal toxins of Photorhabdus luminescens. J. Bacteriol. 2000, 182:5127-5138.
18. Hurst M.R., O'Callaghan M., Glare T.R. Peripheral sequences of the Serratia entomophila pADAP virulence-associated region. Plasmid 2003, 50:213-229.
19. Hurst M.R., Glare T.R., Jackson T.A. Cloning Serratia entomophila antifeeding genes - a putative defective prophage active against the grass grub Costelytra zealandica. J. Bacteriol. 2004, 186:5116-5128.
20. Hurst M.R.H., Beard S.S., Jackson T.A., Jones S.M. Isolation and characterization of the Serratia entomophila antifeeding prophage. FEMS Microbiol. Lett. 2007, 270:42-48.
21. Hurst M.R., Jones S.M., Tan B., Jackson T.A. Induced expression of the Serratia entomophila Sep proteins shows activity towards the larvae of the New Zealand grass grub Costelytra zealandica. FEMS Microbiol. Lett. 2007, 275:160-167.
22. Huson D.H., Richter D.C., Rausch C., Dezulian T., Franz M., Rupp R. Dendroscope - an interactive viewer for large phylogenetic trees. BMC Bioinformatics 2007, 8:460.
23. Jackson T.A., Boucias D.G., Thaler J.O. Pathobiology of amber disease, caused by Serratia Spp., in the New Zealand grass grub, Costelytra zealandica. J. Invertebr. Pathol. 2001, 78:232-243.
24. Kado C.I., Liu S.T. Rapid procedure for detection and isolation of large and small plasmids. J. Bacteriol. 1981, 145:1365-1373.
25. Kim S.R., Funayama N., Komano T. Nucleotide sequence and characterization of the traABCD region of IncI1 plasmid R64. J. Bacteriol. 1993, 175:5035-5042.
26. Lorow D., Jessee D. Max efficiency DH10B™: a host for cloning methylated DNA. Focus 1990, 12:19.
27. McGarry K.C., Ryan V.T., Grimwade J.E., Leonard A.C. Two discriminatory binding sites in the Escherichia coli replication origin are required for DNA strand opening by initiator DnaA-ATP. Proc. Natl. Acad. Sci. USA 2004, 101:2811-2816.
28. McGhee G.C., Jones A.L. Complete nucleotide sequence of ubiquitous plasmid pEA29 from Erwinia amylovora strain Ea88: gene organization and intraspecies variation. Appl. Environ. Microbiol. 2000, 66:4897-4907.
29. McGhee G.C., Schnabel E.L., Maxson-Stein K., Jones B., Stromberg V.K., Lacy G.H., Jones A.L. Relatedness of chromosomal and plasmid DNAs of Erwinia pyrifoliae and Erwinia amylovora. Appl. Environ. Microbiol. 2002, 68:6182-6192.
30. Méndez J., Fernández L., Menéndez A., Reimundo P., Pérez-Pascual D., Navais R., Guijarro J.A. A chromosomally located traHIJKCLMN operon encoding a putative secretion system is involved in the virulence of Yersinia ruckeri. Appl. Environ. Microbiol. 2009, 75:937-945.
31. Mendiola M.V., Bernales I., de la Cruz F. Differential roles of the transposon termini in IS91 transposition. Proc. Natl. Acad. Sci. USA 1994, 91:1922-1926.
32. Miller J.H., Mekalanos J.J. A novel suicide vector and its use in construction of insertion mutations: osmoregulation of outer membrane proteins and virulence determinants in Vibrio cholerae requires toxR. J. Bacteriol. 1988, 170:2575-2583.
33. Mott M.L., Berger J.M. DNA replication initiation: mechanisms and regulation in bacteria. Nat. Rev. Microbiol. 2007, 5:343-354.
34. Penfold R.J., Pemberton J.M. An improved suicide vector for construction of chromosomal insertion mutations in bacteria. Gene 1992, 118:145-146.
35. Posada D., Buckley T.R. Model selection and model averaging in phylogenetics: advantages of the AIC and Bayesian approaches over likelihood ratio tests. Syst. Biol. 2004, 53:793-808.
36. Sambrook, J., Fritsch, E.F., Maniatis, T., 1989. Molecular Cloning, second ed. Cold Spring Harbor Laboratory Press.
37. Sergeant M., Jarrett P., Ousley M., Morgan J.A. Interactions of insecticidal toxin gene products from Xenorhabdus nematophilus PMFI296. Appl. Environ. Microbiol. 2003, 69:3344-3349.
38. Simon R., Pricfcr L., Pühler A. A broad host range mobilization system for in vivo genetic engineering: transposon mutagenesis in Gram-negative bacteria. Biotechnology 1983, 1:784-791.
39. del Solar G., Giraldo R., Ruiz-Echevarria M.J., Espinosa M., Diaz-Orejas R. Replication and control of circular bacterial plasmids. Microbiol. Mol. Biol. Rev. 1998, 62:434-464.
40. Stothard P., Wishart D.S. Circular genome visualization and exploration using CGView. Bioinformatics 2005, 21:537-539.
41. Syed Ibrahim K., Bakkiyaraj D., James R., Ganesh Babu T., Karutha Pandian S.T. Isolation and sequence analysis of a small cryptic plasmid pRK10 from a corrosion inhibitor degrading strain Serratia marcescens ACE2. Plasmid 2009, 62:183-190.
42. Tavakoli N., Comanducci A., Dodd H.M., Lett M.C., Albiger B., Bennett P. IS1294, a DNA element that transposes by RC transposition. Plasmid 2000, 44:66-84.
43. Thompson J.D., Higgins D.G., Gibson T.J. CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position specific gap penalties and weight matrix choice. Nucleic Acid. Res. 1994, 22:4673-4680.
44. Toleman M.A., Bennett P.M., Walsh T.R. ISCR elements: novel gene-capturing systems of the 21st century?. Microbiol. Mol. Biol. Rev. 2006, 70:296-316.
45. Trought T.E.T., Jackson T.A., French R.A. Incidence and transmission of a disease of grass grub Costelytra zealandica in Canterbury. NZ J. Exp. Agric. 1982, 10:79-82.
46. Waterfield N.R., Daborn P.J., ffrench-Constant R.H. Insect pathogenicity islands in the insect pathogenic bacterium Photorhabdus luminescens. Physiol. Entomol. 2004, 29:240-250.
47. Waterfield N., Hares M., Yang G., Dowling A., ffrench-Constant R. Potentiation and cellular phenotypes of the insecticidal toxin complexes of Photorhabdus bacteria. Cell Microbiol. 2005, 7:373-382.