Comparative bioinformatic and proteomic approaches to evaluate the outer membrane proteome of the fish pathogen Yersinia ruckeri

Ormsby, M. J., Grahame, E., Burchmore, R. and Davies, R. L. (2019) Comparative bioinformatic and proteomic approaches to evaluate the outer membrane proteome of the fish pathogen Yersinia ruckeri. Journal of Proteomics, 199, pp. 135-147. (doi:10.1016/j.jprot.2019.02.014) (PMID:30831250) (PMCID:PMC6447952)

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Abstract

Yersinia ruckeri is the aetiological agent of enteric redmouth (ERM) disease and is responsible for significant economic losses in farmed salmonids. Enteric redmouth disease is associated primarily with rainbow trout (Oncorhynchus mykiss, Walbaum) but its incidence in Atlantic salmon (Salmo salar) is increasing. Outer membrane proteins (OMPs) of Gram-negative bacteria are located at the host-pathogen interface and play important roles in virulence. The outer membrane of Y. ruckeri is poorly characterised and little is known about its composition and the roles of individual OMPs in virulence. Here, we employed a bioinformatic pipeline to first predict the OMP composition of Y. ruckeri. Comparative proteomic approaches were subsequently used to identify those proteins expressed in vitro in eight representative isolates recovered from Atlantic salmon and rainbow trout. One hundred and forty-one OMPs were predicted from four Y. ruckeri genomes and 77 of these were identified in three or more genomes and were considered as “core” proteins. Gel-free and gel-based proteomic approaches together identified 65 OMPs in a single reference isolate and subsequent gel-free analysis identified 64 OMPs in the eight Atlantic salmon and rainbow trout isolates. Together, our gel-free and gel-based proteomic analyses identified 84 unique OMPs in Y. ruckeri.

Item Type:Articles
Additional Information:This work, including the efforts of Michael J. Ormsby, was funded by an Industrial CASE PhD studentship award from the Biotechnology and Biological Sciences Research Council (BBSRC; BB/I01554X/1).
Status:Published
Refereed:Yes
Glasgow Author(s) Enlighten ID:Burchmore, Dr Richard and Ormsby, Mr Michael and Davies, Dr Robert
Authors: Ormsby, M. J., Grahame, E., Burchmore, R., and Davies, R. L.
College/School:College of Medical Veterinary and Life Sciences > Institute of Infection Immunity and Inflammation
Journal Name:Journal of Proteomics
Publisher:Elsevier
ISSN:1874-3919
ISSN (Online):1876-7737
Published Online:01 March 2019
Copyright Holders:Copyright © 2019 The Authors
First Published:First published in Journal of Proteomics 199: 135-147
Publisher Policy:Reproduced under a Creative Commons License

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