Global proteomic profiling of Yersinia ruckeri strains

Abstract

Yersinia ruckeri is the causative agent of enteric redmouth disease (ERM) of salmonids. There is little information regarding the proteomics of Y. ruckeri. Herein, we perform whole protein identification and quantification of biotype 1 and biotype 2 strains of Y. ruckeri grown under standard culture conditions using a shotgun proteomic approach. Proteins were extracted, digested and peptides were separated by a nano liquid chromatography system and analyzed with a high-resolution hybrid triple quadrupole time of flight mass spectrometer coupled via a nano ESI interface. SWATH-MS technology and sophisticated statistical analyses were used to identify proteome differences among virulent and avirulent strains. GO annotation, subcellular localization, virulence proteins and antibiotic resistance ontology were predicted using bioinformatic tools. A total of 1395 proteins were identified in the whole cell of Y. ruckeri. These included proteases, chaperones, cell division proteins, outer membrane proteins, lipoproteins, receptors, ion binding proteins, transporters and catalytic proteins. In virulent strains, a total of 16 proteins were upregulated including anti-sigma regulatory factor, arginine deiminase, phosphate-binding protein PstS and superoxide dismutase Cu–Zu. Additionally, several virulence proteins were predicted such as Clp and Lon pro-teases, TolB, PPIases, PstS, PhoP and LuxR family transcriptional regulators. These putative virulence proteins might be used for development of novel targets for treatment of ERM in fish. Our study represents one of the first global proteomic reference profiles of Y. ruckeri and this data can be accessed via ProteomeXchange with identifier PXD005439. These proteomic profiles elucidate proteomic mechanisms, pathogenicity, host-interactions, antibiotic resistance ontology and localization of Y. ruckeri proteins.Electronic supplementary materialThe online version of this article (doi:10.1186/s13567-017-0460-3) contains supplementary material, which is available to authorized users.

Proteome analysis reveals a role of rainbow trout lymphoid organs during Yersinia ruckeri infection process

“…More recently, we identified differentially expressed proteins and global proteomic profiles of Y . ruckeri strains in order to elucidate proteomic biology and changes between strains 13 , 14 . There is an urgent need to understand the protein changes in the host lymphoid organs in response to Y .…”

Citrus flavonoids, β-Glucan and organic acid feed additives decrease relative risk duringYersinia ruckeriO1 biotype 2 infection of rainbow trout (Oncorhynchus mykiss)

“…A study by Vikram et al indicates that purified citrus flavonoids can act as quorum sensing inhibitors, modulators of bacterial growth and inhibitors of type three secretion system component expression in Vibrio harveyi (Vikram et al, 2010). The presence of a type three secretion system in Y. ruckeri has recently been suggested by Kumar et al (2017), and a combination of general antimicrobial activities and inhibition of pathogenicity could thus be a plausible explanation for the observed reduction in pathogenicity. This would, however, require further studies into the exact molecular effects of the flavonoid supplement in question, and is therefore merely speculative for now.…”

Mutations involved in the emergence of Yersinia ruckeri biotype 2 in France

“…FliG, the protein encoded by fliG , is located in the basal body C ring of the flagella (Passmore, Meas, & Marykwas, ). Kumar et al () have identified FliG in the SP‐O5 strain of Y. ruckeri belonging to BT1 but not in the other BT1 strain (CSF007‐82) and the two BT2 strains (7959‐11 and YRNC‐10) analysed in their study. Modification of FliG sequences of Escherichia coli and Salmonella spp.…”

“…The flagellum of the Enterobacteriaceae is a complex organelle, and nearly 50 genes are involved in its synthesis and functioning (Soutourina & Bertin, 2003). Several proteins involved in flagellar biosynthesis (FliC, FliG, FliH and FliN), in flagellar hook (FlgD, FlgE and FlgK) or in flagellar motor (MotB) have been identified in Y. ruckeri by proteomic analysis (Kumar, Hummel, Welch, Razzazi-Fazeli, & El-Matbouli, 2017). Evenhuis, LaPatra, Verner-Jeffreys, Dalsgaard, and Welch (2009) demonstrated that the absence of the flhA or flhE Summary Yersina ruckeri is an enterobacteria responsible for Enteric redmouth disease (ERM), which causes significant economic losses in the aquaculture industry worldwide.…”