Identification of accessory genome regions in poultry clostridium perfringens isolates carrying the netB plasmid

Journal of Bacteriology

Volumn 195, Issue 6, 2013, Pages 1152-1166

  Lepp, D ^a,b   Gong, J ^b   Songer, J G ^c   Boerlin, P ^a   Parreira, V R ^a   Prescott, J F ^a  

^a UNIVERSITY OF GUELPH   (Canada)

^b AGRICULTURE AND AGRI FOOD CANADA   (Canada)

^c IOWA STATE UNIVERSITY   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ABC TRANSPORTER; CARBOHYDRATE;

ANIMAL CELL; ANIMAL EXPERIMENT; ARTICLE; BACTERIUM ISOLATE; BROILER; CELL WALL; CHICKEN; CLOSTRIDIUM PERFRINGENS; COMPARATIVE GENOMIC HYBRIDIZATION; CONTROLLED STUDY; GENE LOCUS; GENETIC ASSOCIATION; GENETIC IDENTIFICATION; METABOLISM; NECROTIZING ENTERITIS; NONHUMAN; NUCLEOTIDE SEQUENCE; NUTRIENT UPTAKE; PLASMID; POULTRY; PRIORITY JOURNAL;

ANIMALS; BACTERIAL TOXINS; BACTERIAL TYPING TECHNIQUES; CHICKENS; CHROMOSOME MAPPING; CHROMOSOMES, BACTERIAL; CLOSTRIDIUM INFECTIONS; CLOSTRIDIUM PERFRINGENS; COMPARATIVE GENOMIC HYBRIDIZATION; DNA, BACTERIAL; ENTEROTOXINS; PLASMIDS; POULTRY DISEASES; SEQUENCE ANALYSIS, DNA;

EID: 84874752112     PISSN: 00219193     EISSN: 10985530     Source Type: Journal    
DOI: 10.1128/JB.01032-12     Document Type: Article

References (47)

1. Cooper KK, Songer JG. 2009. Necrotic enteritis in chickens: a paradigm of enteric infection by Clostridium perfringens type A. Anaerobe 15:55-60.
2. Keyburn AL, Boyce JD, Vaz P, Bannam TL, Ford ME, Parker D, Di Rubbo A, Rood JI, Moore RJ. 2008. NetB, a new toxin that is associated with avian necrotic enteritis caused by Clostridium perfringens. PLoS Pathog. 4:e26. doi:10.1371/journal.ppat.0040026.
3. Keyburn AL, Yan XX, Bannam TL, Van Immerseel F, Rood JI, Moore RJ. 2010. Association between avian necrotic enteritis and Clostridium perfringens strains expressing NetB toxin. Vet. Res. 41:21.
4. Petit L, Gibert M, Popoff MR. 1999. Clostridium perfringens: toxinotype and genotype. Trends Microbiol. 7:104-110.
5. Bannam TL, Yan XX, Harrison PF, Seemann T, Keyburn AL, Stubenrauch C, Weeramantri LH, Cheung JK, McClane BA, Boyce JD, Moore RJ, Rood JI. 2011. Necrotic enteritis-derived Clostridium perfringens strain with three closely related independently conjugative toxin and antibiotic resistance plasmids. mBio 2(5):e00190-11. doi:10.1128/mBio.00190-11.
6. Brynestad S, Sarker MR, McClane BA, Granum PE, Rood JI. 2001. Enterotoxin plasmid from Clostridium perfringens is conjugative. Infect. Immun. 69:3483-3487.
7. Katayama S, Dupuy B, Daube G, China B, Cole ST. 1996. Genome mapping of Clostridium perfringens strains with I-CeuI shows many virulence genes to be plasmid-borne. Mol. Gen. Genet. 251:720-726.
8. Hughes ML, Poon R, Adams V, Sayeed S, Saputo J, Uzal FA, McClane BA, Rood JI. 2007. Epsilon-toxin plasmids of Clostridium perfringens type D are conjugative. J. Bacteriol. 189:7531-7538.
9. Sayeed S, Li J, McClane BA. 2007. Virulence plasmid diversity in Clostridium perfringens type D isolates. Infect. Immun. 75:2391-2398.
10. Lepp D, Roxas B, Parreira VR, Marri PR, Rosey EL, Gong J, Songer JG, Vedantam G, Prescott JF. 2010. Identification of novel pathogenicity loci in Clostridium perfringens strains that cause avian necrotic enteritis. PLoS One 5:e10795. doi:10.1371/journal.pone.0010795.
11. Nauerby B, Pedersen K, Madsen M. 2003. Analysis by pulsed-field gel electrophoresis of the genetic diversity among Clostridium perfringens isolates from chickens. Vet. Microbiol. 94:257-266.
12. Gholamiandekhordi AR, Ducatelle R, Heyndrickx M, Haesebrouck F, Van Immerseel F. 2006. Molecular and phenotypical characterization of Clostridium perfringens isolates from poultry flocks with different disease status. Vet. Microbiol. 113:143-152.
13. Hibberd MC, Neumann AP, Rehberger TG, Siragusa GR. 2011. Multilocus sequence typing subtypes of poultry Clostridium perfringens isolates demonstrate disease niche partitioning. J. Clin. Microbiol. 49:1556-1567.
14. Chalmers G, Bruce HL, Hunter DB, Parreira VR, Kulkarni RR, Jiang YF, Prescott JF, Boerlin P. 2008. Multilocus sequence typing analysis of Clostridium perfringens isolates from necrotic enteritis outbreaks in broiler chicken populations. J. Clin. Microbiol. 46:3957-3964.
15. Thompson DR, Parreira VR, Kulkarni RR, Prescott JF. 2006. Live attenuated vaccine-based control of necrotic enteritis of broiler chickens. Vet. Microbiol. 113:25-34.
16. Wernersson R. 2009. Probe design for expression arrays using OligoWiz. Methods Mol. Biol. 529:23-36.
17. Barbara AJ, Trinh HT, Glock RD, Songer JG. 2008. Necrotic enteritisproducing strains of Clostridium perfringens displace non-necrotic enteritis strains from the gut of chicks. Vet. Microbiol. 126:377-382.
18. Reich M, Liefeld T, Gould J, Lerner J, Tamayo P, Mesirov JP. 2006. GenePattern 2.0. Nat. Genet. 38:500-501.
19. Kim C, Joyce E, Chan K, Falkow S. 2002. Improved analytical methods for microarray-based genome-composition analysis. Genome Biol. 3: RESEARCH0065.
20. Carlson J, Heckerman D, Shani G. 2009. False discovery rate for 2×2 contingency tables. Microsoft, Mountain View, CA.
21. Carver TJ, Rutherford KM, Berriman M, Rajandream MA, Barrell BG, Parkhill J. 2005. ACT: the Artemis comparison tool. Bioinformatics 21: 3422-3423.
22. Rozen S, Skaletsky H. 2000. Primer3 on theWWWfor general users and for biologist programmers. Methods Mol. Biol. 132:365-386.
23. Chalmers G, Martin SW, Hunter DB, Prescott JF, Weber LJ, Boerlin P. 2008. Genetic diversity of Clostridium perfringens isolated from healthy broiler chickens at a commercial farm. Vet. Microbiol. 127:116-127.
24. Sawires YS, Songer JG. 2006. Clostridium perfringens: insight into virulence evolution and population structure. Anaerobe 12:23-43.
25. Myers GSA, Rasko DA, Cheung JK, Ravel J, Seshadri R, DeBoy RT, Ren Q, Varga J, Awad MM, Brinkac LM, Daugherty SC, Haft DH, Dodson RJ, Madupu R, Nelson WC, Rosovitz MJ, Sullivan SA, Khouri H, Dimitrov GI, Watkins KL, Mulligan S, Benton J, Radune D, Fisher DJ, Atkins HS, Hiscox T, Jost BH, Billington SJ, Songer JG, McClane BA, Titball RW, Rood JI, Melville SB, Paulsen IT. 2006. Skewed genomic variability in strains of the toxigenic bacterial pathogen, Clostridium perfringens. Genome Res. 16:1031-1040.
26. Shimizu T, Ohtani K, Hirakawa H, Ohshima K, Yamashita A, Shiba T, Ogasawara N, Hattori M, Kuhara S, Hayashi H. 2002. Complete genome sequence of Clostridium perfringens, an anaerobic flesh-eater. Proc. Natl. Acad. Sci. U. S. A. 99:996-1001.
27. Aziz R, Bartels D, Best A, DeJongh M, Disz T, Edwards R, Formsma K, Gerdes S, Glass E, Kubal M, Meyer F, Olsen G, Olson R, Osterman A, Overbeek R, McNeil L, Paarmann D, Paczian T, Parrello B, Pusch G, Reich C, Stevens R, Vassieva O, Vonstein V, Wilke A, Zagnitko O. 2008. The RAST server: rapid annotations using subsystems technology. BMC Genomics 9:75. doi:10.1186/1471-2164-9-75.
28. Janausch IG, Zientz E, Tran QH, Kröger A, Unden G. 2002. C4-dicarboxylate carriers and sensors in bacteria. Biochim. Biophys. Acta 1553:39-56.
29. Sheng S, Cherniak R. 1997. Structure of the capsular polysaccharide of Clostridium perfringens Hobbs 10 determined byNMRspectroscopy. Carbohydr. Res. 305:65-72.
30. Kalelkar S, Glushka J, van Halbeek H, Morris LC, Cherniak R. 1997. Structure of the capsular polysaccharide of Clostridium perfringens Hobbs 5 as determined by NMR spectroscopy. Carbohydr. Res. 299:119-128.
31. Konto-Ghiorghi Y, Mairey E, Mallet A, Duménil G, Caliot E, Trieu-Cuot P, Dramsi S. 2009. Dual role for pilus in adherence to epithelial cells and biofilm formation in Streptococcus agalactiae. PLoS Pathog. 5:e1000422. doi:10.1371/journal.ppat.1000422.
32. Smyth JA, Martin TG. 2010. Disease producing capability of netB positive isolates of Clostridium perfringens recovered from normal chickens and a cow, and netB positive and negative isolates from chickens with necrotic enteritis. Vet. Microbiol. 146:76-84.
33. Salje J, Gayathri P, Löwe J. 2010. The ParMRC system: molecular mechanisms of plasmid segregation by actin-like filaments. Nat. Rev. Microbiol. 8:683-692.
34. Cornillot E, Saint-Joanis B, Daube G, Katayama S-i, Granum PE, Canard B, Cole ST. 1995. The enterotoxin gene (cpe) of Clostridium perfringens can be chromosomal or plasmid-borne. Mol. Microbiol. 15: 639-647.
35. Lahti P, Heikinheimo A, Johansson T, Korkeala H. 2008. Clostridium perfringens type A strains carrying a plasmid-borne enterotoxin gene (genotype IS1151-cpe or IS1470-like-cpe) as a common cause of food poisoning. J. Clin. Microbiol. 46:371-373.
36. Deguchi A, Miyamoto K, Kuwahara T, Miki Y, Kaneko I, Li J, McClane BA, Akimoto S. 2009. Genetic characterization of type A enterotoxigenic Clostridium perfringens strains. PLoS One 4:e5598. doi:10.1371/journal.pone.0005598.
37. Jost BH, Trinh HT, Songer JG. 2006. Clonal relationships among Clostridium perfringens of porcine origin as determined by multilocus sequence typing. Vet. Microbiol. 116:158-165.
38. Brüssow H, Canchaya C, Hardt W-D. 2004. Phages and the evolution of bacterial pathogens: from genomic rearrangements to lysogenic conversion. Microbiol. Mol. Biol. Rev. 68:560-602.
39. Martin TG, Smyth JA. 2009. Prevalence of netB among some clinical isolates of Clostridium perfringens from animals in the United States. Vet. Microbiol. 136:202-205.
40. Abildgaard L, Sondergaard TE, Engberg RM, Schramm A, Højberg O. 2010. In vitro production of necrotic enteritis toxin B, NetB, by netBpositive and netB-negative Clostridium perfringens originating from healthy and diseased broiler chickens. Vet. Microbiol. 144:231-235.
41. Sengupta M, Austin S. 2011. Prevalence and significance of plasmid maintenance functions in the virulence plasmids of pathogenic bacteria. Infect. Immun. 79:2502-2509.
42. Sherratt DJ, Arciszewska LK, Blakely G, Colloms S, Grant K, Leslie N, McCulloch R. 1995. Site-specific recombination and circular chromosome segregation. Philos. Trans. R. Soc. Lond. B Biol. Sci. 347:37-42.
43. Lin DCH, Grossman AD. 1998. Identification and characterization of a bacterial chromosome partitioning site. Cell 92:675-685.
44. Hester CM, Lutkenhaus J. 2007. Soj (ParA) DNA binding is mediated by conserved arginines and is essential for plasmid segregation. Proc. Natl. Acad. Sci. U. S. A. 104:20326-20331.
45. Yamaichi Y, Niki H. 2000. Active segregation by the Bacillus subtilis partitioning system in Escherichia coli. Proc. Natl. Acad. Sci. U. S. A. 97: 14656-14661.
46. Dam M, Gerdes K. 1994. Partitioning of plasmid R1 Ten direct repeats flanking the parA promoter constitute a centromere-like partition site parC, that expresses incompatibility. J. Mol. Biol. 236:1289-1298.
47. Lawrence JG. 2005. Common themes in the genome strategies of pathogens. Curr. Opin. Genet. Dev. 15:584-588.