Method for lineage typing of epidemic Renibacterium salmoninarum in Chilean salmon farms

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dc.catalogadorjwg
dc.contributor.authorMora Salas, Patricia
dc.contributor.authorZapararte, Sebastián
dc.contributor.authorVillouta, Pamela
dc.contributor.authorAraya León, Henry
dc.contributor.authorAvendaño Herrera, Rubén
dc.contributor.authorMardones Loyola, Fernando Otoniel
dc.contributor.authorMardones, Fernando O.
dc.date.accessioned2024-01-26T15:10:39Z
dc.date.available2024-01-26T15:10:39Z
dc.date.issued2023
dc.description.abstractRenibacterium salmoninarum (Rs) is the etiological agent of bacterial kidney disease (BKD), which significantly affects farmed and wild salmonids worldwide. Although the whole genome of Rs (~3.1 million nucleotides) is highly conserved, genomic epidemiology analyses have identified four sub-lineages from Chilean isolates. A total of 94 Rs genomes from the BIGSdb aquaculture database were aligned and compared using bioinformatics tools, identifying 2199 independent single-nucleotide polymorphisms (SNPs) spread along the genome. A detailed analysis of the distribution of the SNPs showed five local zones of a length in the range of 10–15 kbp that should be used to unambiguously identify a specific sub-lineage. Based on the Rs type strain DSM 20767T, we designed multiplex PCR primers that produce specific amplification products which were further sequenced by the Sanger method to obtain the genotype of the sub-lineage. For the genetic typing, we evaluated 27 Rs isolates recovered from BKD outbreaks from different fish species and regions of Chile. Based on the findings reported here, we propose the PCR approach as a valuable tool for the rapid and reliable studying of the relationships between Rs isolates and the different sub-lineages without requiring the sequencing of the entire genome.
dc.description.funderFONDECYT
dc.description.funderAgencia Nacional de Investigación y Desarrollo
dc.identifier.doi10.1111/jfd.13761
dc.identifier.eissn13652761
dc.identifier.issn13652761 01407775
dc.identifier.pubmedid36696457
dc.identifier.scopusidSCOPUS_ID:85147211794
dc.identifier.urihttp://onlinelibrary.wiley.com/journal/10.1111/(ISSN)1365-2761
dc.identifier.urihttps://doi.org/10.1111/jfd.13761
dc.identifier.urihttps://repositorio.uc.cl/handle/11534/80988
dc.information.autorucEscuela de Ingeniería; Zapararte Sebastian; ; 1025649
dc.information.autorucEscuela de Medicina; Mardones Loyola Fernando Otoniel; 0000-0003-1228-5392; 1084534
dc.language.isoen
dc.nota.accesoContenido parcial
dc.publisherJohn Wiley and Sons Inc
dc.relation.ispartofJournal of Fish Diseases
dc.revistaJournal of Fish Diseases
dc.rightsacceso restringido
dc.subject.ddc610
dc.subject.deweyMedicina y saludes_ES
dc.subject.ods03 Good health and well-being
dc.subject.odspa03 Salud y bienestar
dc.titleMethod for lineage typing of epidemic Renibacterium salmoninarum in Chilean salmon farms
dc.typeartículo
sipa.codpersvinculados1025649
sipa.codpersvinculados1084534
sipa.trazabilidadORCID;2024-01-15
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