Genomic epidemiology of the commercially important pathogen Renibacterium salmoninarum within the Chilean salmon industry

Sion C. Bayliss, David W. Verner-Jeffreys, David Ryder, Rudy Suarez, Roxana Ramirez, Jaime Romero, Ben Pascoe, Sam K. Sheppard, Marcos Godoy, Edward J. Feil

Research output: Contribution to journalArticle

Abstract

Renibacterium salmoninarum is the causative agent of bacterial kidney disease (BKD), which is a commercially important disease of farmed salmonids. Typing by conventional methods provides limited information on the evolution and spread of this pathogen, as there is a low level of standing variation within the R. salmoninarum population. Here, we apply whole-genome sequencing to 42 R. salmoninarum isolates from Chile, primarily from salmon farms, in order to understand the epidemiology of BKD in this country. The patterns of genomic variation are consistent with multiple introductions to Chile, followed by rapid dissemination over a 30 year period. The estimated dates of introduction broadly coincide with major events in the development of the Chilean aquaculture industry. We find evidence for significant barriers to transmission of BKD in the Chilean salmon production chain that may also be explained by previously undescribed signals of host tropism in R. salmoninarum. Understanding the genomic epidemiology of BKD can inform disease intervention and improve sustainability of the economically important salmon industry. This article contains data hosted by Microreact.

Original languageEnglish
Number of pages12
JournalMicrobial Genomics
Volume4
Issue number9
Early online date24 Jul 2018
DOIs
Publication statusPublished - 1 Sep 2018

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Salmon
Kidney Diseases
Industry
Epidemiology
Chile
Viral Tropism
Salmonidae
Aquaculture
Genome
Population

Keywords

  • aquaculture
  • bacterial kidney disease
  • epidemiology
  • Renibacterium salmoninarum
  • whole-genome sequencing

ASJC Scopus subject areas

  • Medicine(all)

Cite this

Genomic epidemiology of the commercially important pathogen Renibacterium salmoninarum within the Chilean salmon industry. / Bayliss, Sion C.; Verner-Jeffreys, David W.; Ryder, David; Suarez, Rudy; Ramirez, Roxana; Romero, Jaime; Pascoe, Ben; Sheppard, Sam K.; Godoy, Marcos; Feil, Edward J.

In: Microbial Genomics, Vol. 4, No. 9, 01.09.2018.

Research output: Contribution to journalArticle

Bayliss, Sion C. ; Verner-Jeffreys, David W. ; Ryder, David ; Suarez, Rudy ; Ramirez, Roxana ; Romero, Jaime ; Pascoe, Ben ; Sheppard, Sam K. ; Godoy, Marcos ; Feil, Edward J. / Genomic epidemiology of the commercially important pathogen Renibacterium salmoninarum within the Chilean salmon industry. In: Microbial Genomics. 2018 ; Vol. 4, No. 9.
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