A multilocus sequence analysis scheme for characterization of Flavobacterium columnare isolates
Ashrafi, R., Pulkkinen, K., Sundberg, L.-R., Pekkala, N., & Ketola, T. (2015). A multilocus sequence analysis scheme for characterization of Flavobacterium columnare isolates. BMC Microbiology, 15, Article 243. https://doi.org/10.1186/s12866-015-0576-4
Julkaistu sarjassa
BMC MicrobiologyTekijät
Päivämäärä
2015Oppiaine
Ekologia ja evoluutiobiologiaSolu- ja molekyylibiologiaAkvaattiset tieteetBiologisten vuorovaikutusten huippututkimusyksikköEcology and Evolutionary BiologyCell and Molecular BiologyAquatic SciencesCentre of Excellence in Biological Interactions ResearchTekijänoikeudet
© 2015 Ashrafi et al.
Background: 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.
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Julkaisija
BioMed Central Ltd.ISSN Hae Julkaisufoorumista
1471-2180Julkaisu tutkimustietojärjestelmässä
https://converis.jyu.fi/converis/portal/detail/Publication/25283103
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