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dc.contributor.authorAshrafi, Roghaieh
dc.contributor.authorPulkkinen, Katja
dc.contributor.authorSundberg, Lotta-Riina
dc.contributor.authorPekkala, Nina
dc.contributor.authorKetola, Tarmo
dc.identifier.citationAshrafi, R., Pulkkinen, K., Sundberg, L.-R., Pekkala, N., & Ketola, T. (2015). A multilocus sequence analysis scheme for characterization of Flavobacterium columnare isolates. <i>BMC Microbiology</i>, <i>15</i>, Article 243. <a href="" target="_blank"></a>
dc.description.abstractBackground: Columnaris disease caused by Flavobacterium columnare is a serious problem in aquaculture, annually causing large economic losses around the world. Despite considerable research, the molecular epidemiology of F. columnare remains poorly understood. Methods: We investigated the population structure and spatiotemporal changes in the genetic diversity of F. columnare population in Finland by using a multilocus sequence typing (MLST) and analysis (MLSA) based on DNA sequence variation within six housekeeping genes. A total of 83 strains of F. columnare were collected from eight different areas located across the country between 2003 and 2012. Results: Partial sequencing of six housekeeping genes (trpB, tuf, atpA, rpoD, gyrB and dnaK) revealed eight sequence types and a moderate level of genetic diversity (H = 0.460). Phylogenetic analysis of the concatenated protein-encoding gene sequence data (ca. 3,509 nucleotides) formed two lineages, which could be further divided into five clusters. All analysed F. columnare strains appeared to have a genetic origin distinct from that of another important fish pathogen form the genus Flavobacterium, F. psychrophilum. Although the value of the index of association between alleles, 0.292 (P < 0.001), supports some degree of clonality for this species in Finland, recombination has introduced molecular diversity to the population almost three times more than mutation. Conclusion: The results suggest that Finnish F. columnare strains have an epidemic population structure followed by clonal expansion of successful genotypes. Our study with reproducible methodology and comparable results establishes a robust framework for the discrimination and phylogenetic analysis of F. columnare isolates, which will help to improve our understanding about geographic distribution and epidemiology of columnaris disease.
dc.publisherBioMed Central Ltd.
dc.relation.ispartofseriesBMC Microbiology
dc.subject.otherFlavobacterium columnare
dc.subject.otherMLST/MLSA scheme
dc.subject.otherrecombination rate
dc.titleA multilocus sequence analysis scheme for characterization of Flavobacterium columnare isolates
dc.contributor.laitosBio- ja ympäristötieteiden laitosfi
dc.contributor.laitosDepartment of Biological and Environmental Scienceen
dc.contributor.oppiaineEkologia ja evoluutiobiologiafi
dc.contributor.oppiaineSolu- ja molekyylibiologiafi
dc.contributor.oppiaineAkvaattiset tieteetfi
dc.contributor.oppiaineBiologisten vuorovaikutusten huippututkimusyksikköfi
dc.contributor.oppiaineEcology and Evolutionary Biologyen
dc.contributor.oppiaineCell and Molecular Biologyen
dc.contributor.oppiaineAquatic Sciencesen
dc.contributor.oppiaineCentre of Excellence in Biological Interactions Researchen
dc.rights.copyright© 2015 Ashrafi et al.

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