SNP-based typing: A useful tool to study bordetella pertussis populations

PLoS ONE

Volumn 6, Issue 5, 2011, Pages

  van Gent, Marjolein ^a   Bart, Marieke J ^a   van der Heide, Han G J ^a   Heuvelman, Kees J ^a   Kallonen, Teemu ^b,c   He, Qiushui ^b   Mertsola, Jussi ^b   Advani, Abdolreza ^d   Hallander, Hans O ^d   Janssens, Koen ^e   Hermans, Peter W ^f   Mooi, Frits R ^a  

^a NATIONAL INSTITUTE FOR PUBLIC HEALTH AND THE ENVIRONMENT   (Netherlands)

^b NATIONAL PUBLIC HEALTH INSTITUTE   (Finland)

^c UNIVERSITY OF TURKU   (Finland)

^d SWEDISH INSTITUTE FOR INFECTIOUS DISEASE CONTROL   (Sweden)

^e Applied Maths NV ^*  (Belgium)

^f RADBOUD UNIVERSITY MEDICAL CENTER   (Netherlands)

Author keywords

[No Author keywords available]

Indexed keywords

PERTUSSIS TOXIN; PROTEIN PTXP1; PROTEIN PTXP3; UNCLASSIFIED DRUG;

ARTICLE; BACTERIAL STRAIN; BACTERIUM ISOLATION; BORDETELLA PERTUSSIS; CONTROLLED STUDY; GENETIC ANALYSIS; GENETIC DISTANCE; GEOGRAPHIC DISTRIBUTION; HOMOPLASY; INTERMETHOD COMPARISON; MOLECULAR PHYLOGENY; MONOPHYLY; MULTIPLE LOCUS VARIABLE NUMBER OF TANDEM REPEAT ANALYSIS; NETHERLANDS; NONHUMAN; PROMOTER REGION; PROTEIN EXPRESSION; PULSED FIELD GEL ELECTROPHORESIS; SINGLE NUCLEOTIDE POLYMORPHISM; CLASSIFICATION; GENETICS; MOLECULAR EVOLUTION; PHYLOGENY; TANDEM REPEAT;

BORDETELLA PERTUSSIS;

BORDETELLA PERTUSSIS; ELECTROPHORESIS, GEL, PULSED-FIELD; EVOLUTION, MOLECULAR; PHYLOGENY; POLYMORPHISM, SINGLE NUCLEOTIDE; TANDEM REPEAT SEQUENCES;

EID: 79957585360     PISSN: None     EISSN: 19326203     Source Type: Journal    
DOI: 10.1371/journal.pone.0020340     Document Type: Article

References (43)

1. He Q, Mertsola J, (2008) Factors contributing to pertussis resurgence. Future Microbiol 3: 329-339.
2. Mooi FR, (2010) Bordetella pertussis and vaccination: the persistence of a genetically monomorphic pathogen. InfectGenetEvol 10: 36-49.
3. de Greeff SC, de Melker HE, van Gageldonk PG, Schellekens JF, van der Klis FR, et al. (2010) Seroprevalence of Pertussis in the Netherlands: Evidence for Increased Circulation of Bordetella pertussis. PLoS One 5: e14183.
4. van Boven M, Mooi FR, Schellekens JF, de Melker HE, Kretzschmar M, (2005) Pathogen adaptation under imperfect vaccination: implications for pertussis. Proc Biol Sci 272: 1617-1624.
5. Kallonen T, He Q, (2009) Bordetella pertussis strain variation and evolution postvaccination. ExpertRevVaccines 8: 863-875.
6. Mooi FR, van Loo IH, King AJ, (2001) Adaptation of Bordetella pertussis to vaccination: a cause for its reemergence? EmergInfectDis 7: 526-528.
7. Borisova O, Kombarova SY, Zakharova NS, van Gent M, Aleshkin VA, et al. (2007) Antigenic divergence between Bordetella pertussis clinical isolates from Moscow, Russia, and vaccine strains. ClinVaccine Immunol 14: 234-238.
8. Fingermann M, Fernandez J, Sisti F, Rodriguez ME, Gatti B, et al. (2006) Differences of circulating Bordetella pertussis population in Argentina from the strain used in vaccine production. Vaccine 24: 3513-3521.
9. Fry NK, Neal S, Harrison TG, Miller E, Matthews R, et al. (2001) Genotypic variation in the Bordetella pertussis virulence factors pertactin and pertussis toxin in historical and recent clinical isolates in the United Kingdom. InfectImmun 69: 5520-5528.
10. Gzyl A, Augustynowicz E, van Loo I, Slusarczyk J, (2001) Temporal nucleotide changes in pertactin and pertussis toxin genes in Bordetella pertussis strains isolated from clinical cases in Poland. Vaccine 20: 299-303.
11. Hallander HO, Advani A, Donnelly D, Gustafsson L, Carlsson RM, (2005) Shifts of Bordetella pertussis variants in Sweden from 1970 to 2003, during three periods marked by different vaccination programs. JClinMicrobiol 43: 2856-2865.
12. Kodama A, Kamachi K, Horiuchi Y, Konda T, Arakawa Y, (2004) Antigenic divergence suggested by correlation between antigenic variation and pulsed-field gel electrophoresis profiles of Bordetella pertussis isolates in Japan. J Clin Microbiol 42: 5453-5457.
13. Kurniawan J, Maharjan RP, Chan WF, Reeves PR, Sintchenko V, et al. (2010) Bordetella pertussis clones identified by multilocus variable-number tandem-repeat analysis. EmergInfectDis 16: 297-300.
14. Mooi FR, van Oirschot H, Heuvelman K, van der Heide HG, Gaastra W, et al. (1998) Polymorphism in the Bordetella pertussis virulence factors P.69/pertactin and pertussis toxin in The Netherlands: temporal trends and evidence for vaccine-driven evolution. InfectImmun 66: 670-675.
15. Yao SM, Lin YC, Chou CY, Chen YY, Hsiao MJ, et al. (2005) Antigenic divergence of Bordetella pertussis isolates in Taiwan. J Clin Microbiol 43: 5457-5461.
16. Mooi FR, van Loo IH, van Gent M, He Q, Bart MJ, et al. (2009) Bordetella pertussis strains with increased toxin production associated with pertussis resurgence. EmergInfectDis 15: 1206-1213.
17. van Gent M, de Greeff SC, van der Heide HG, Mooi FR, (2009) An investigation into the cause of the 1983 whooping cough epidemic in the Netherlands. Vaccine 27: 1898-1903.
18. Mooi FR, Hallander H, Wirsing von Konig CH, Hoet B, Guiso N, (2000) Epidemiological typing of Bordetella pertussis isolates: recommendations for a standard methodology. EurJClinMicrobiolInfectDis 19: 174-181.
19. Advani A, Donnelly D, Hallander H, (2004) Reference system for characterization of Bordetella pertussis pulsed-field gel electrophoresis profiles. JClinMicrobiol 42: 2890-2897.
20. Litt DJ, Neal SE, Fry NK, (2009) Changes in genetic diversity of the Bordetella pertussis population in the United Kingdom between 1920 and 2006 reflect vaccination coverage and emergence of a single dominant clonal type. J Clin Microbiol 47: 680-688.
21. Schouls LM, van der Heide HG, Vauterin L, Vauterin P, Mooi FR, (2004) Multiple-locus variable-number tandem repeat analysis of Dutch Bordetella pertussis strains reveals rapid genetic changes with clonal expansion during the late 1990s. JBacteriol 186: 5496-5505.
22. Diavatopoulos DA, Cummings CA, Schouls LM, Brinig MM, Relman DA, et al. (2005) Bordetella pertussis, the causative agent of whooping cough, evolved from a distinct, human-associated lineage of B. bronchiseptica. PLoS Pathog 1: e45.
23. Bart MJ, van Gent M, van der Heide HG, Boekhorst J, Hermans P, et al. (2010) Comparative genomics of prevaccination and modern Bordetella pertussis strains. BMCGenomics 11: 627.
24. Bouchez V, Caro V, Levillain E, Guigon G, Guiso N, (2008) Genomic content of Bordetella pertussis clinical isolates circulating in areas of intensive children vaccination. PLoS One 3: e2437.
25. Maharjan RP, Gu C, Reeves PR, Sintchenko V, Gilbert GL, et al. (2008) Genome-wide analysis of single nucleotide polymorphisms in Bordetella pertussis using comparative genomic sequencing. Res Microbiol 159: 602-608.
26. Parkhill J, Sebaihia M, Preston A, Murphy LD, Thomson N, et al. (2003) Comparative analysis of the genome sequences of Bordetella pertussis, Bordetella parapertussis and Bordetella bronchiseptica. NatGenet 35: 32-40.
27. Advani A, Gustafsson L, Carlsson RM, Donnelly D, Hallander HO, (2007) Clinical outcome of pertussis in Sweden: association with pulsed-field gel electrophoresis profiles and serotype. APMIS 115: 736-742.
28. Elomaa A, He Q, Minh NN, Mertsola J, (2009) Pertussis before and after the introduction of acellular pertussis vaccines in Finland. Vaccine 27: 5443-5449.
29. Carrico JA, Silva-Costa C, Melo-Cristino J, Pinto FR, de Lencastre H, et al. (2006) Illustration of a common framework for relating multiple typing methods by application to macrolide-resistant Streptococcus pyogenes. JClinMicrobiol 44: 2524-2532.
30. Hunter PR, Gaston MA, (1988) Numerical index of the discriminatory ability of typing systems: an application of Simpson's index of diversity. JClinMicrobiol 26: 2465-2466.
31. Cummings CA, Brinig MM, Lepp PW, van de Pas S, Relman DA, (2004) Bordetella species are distinguished by patterns of substantial gene loss and host adaptation. J Bacteriol 186: 1484-1492.
32. Musser JM, Hewlett EL, Peppler MS, Selander RK, (1986) Genetic diversity and relationships in populations of Bordetella spp. JBacteriol 166: 230-237.
33. van der Zee A, Mooi F, Van Embden J, Musser J, (1997) Molecular evolution and host adaptation of Bordetella spp.: phylogenetic analysis using multilocus enzyme electrophoresis and typing with three insertion sequences. J Bacteriol 179: 6609-6617.
34. Pearson T, Busch JD, Ravel J, Read TD, Rhoton SD, et al. (2004) Phylogenetic discovery bias in Bacillus anthracis using single-nucleotide polymorphisms from whole-genome sequencing. ProcNatlAcadSciUSA 101: 13536-13541.
35. Pearson T, Okinaka RT, Foster JT, Keim P, (2009) Phylogenetic understanding of clonal populations in an era of whole genome sequencing. InfectGenetEvol 9: 1010-1019.
36. Elomaa A, Advani A, Donnelly D, Antila M, Mertsola J, et al. (2007) Population dynamics of Bordetella pertussis in Finland and Sweden, neighbouring countries with different vaccination histories. Vaccine 25: 918-926.
37. Achtman M, (2008) Evolution, population structure, and phylogeography of genetically monomorphic bacterial pathogens. Annu Rev Microbiol 62: 53-70.
38. van Amersfoorth SC, Schouls LM, van der Heide HG, Advani A, Hallander HO, et al. (2005) Analysis of Bordetella pertussis populations in European countries with different vaccination policies. JClinMicrobiol 43: 2837-2843.
39. Voorhoeve AM, Muller AS, Schulpen TW, t' Mannetje W, van Rens M, (1978) Machakos project studies. Agents affecting health of mother and child in a rural area of Kenya. IV: The epidemiology of pertussis. Trop Geogr Med 30: 125-139.
40. Preziosi MP, Yam A, Wassilak SG, Chabirand L, Simaga A, et al. (2002) Epidemiology of pertussis in a West African community before and after introduction of a widespread vaccination program. Am J Epidemiol 155: 891-896.
41. Patel S, Schoone G, Ligthart GS, Gikken H, Preston NW, (1978) Machakos project studies. Agents affecting health of mother and child in a rural area of Kenya. V. Pertussis sentypes in Kenyan children 1974-1975. TropGeogrMed 30: 141-146.
42. Octavia S, Maharjan RP, Sintchenko V, Stevenson G, Reeves PR, et al. (2010) Insight into evolution of Bordetella pertussis from comparative genomic analysis: evidence of vaccine-driven selection. MolBiolEvol.
43. Advani A, van der Heide HG, Hallander HO, Mooi FR, (2009) Analysis of Swedish Bordetella pertussis isolates with three typing methods: characterization of an epidemic lineage. JMicrobiolMethods 78: 297-301.