Open AccessCore non-coding RNAs of Piscirickettsia salmonis
Author(s) -
Cristopher Segovia,
Raúl AriasCarrasco,
Alejandro J. Yáñez,
Vinicius MaracajaCoutinho,
Javier Santander
Publication year - 2018
Publication title -
plos one
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 0.99
H-Index - 332
ISSN - 1932-6203
DOI - 10.1371/journal.pone.0197206
Subject(s) - biology , non coding rna , genetics , genome , rna , intergenic region , gene , computational biology
Piscirickettsia salmonis , a fastidious Gram-negative intracellular facultative bacterium, is the causative agent o Piscirickettsiosis. P . salmonis has broad host range with a nearly worldwide distribution, causing significant mortality. The molecular regulatory mechanisms of P . salmonis pathogenesis are relatively unknown, mainly due to its difficult in vitro culture and genomic differences between genogroups. Bacterial non-coding RNAs (ncRNAs) are important post-transcriptional regulators of bacterial physiology and virulence that are predominantly transcribed from intergenic regions ( trans -acting) or antisense strand of open reading frames ( cis -acting). The repertoire of ncRNAs present in the genome of P . salmonis and its possible role in bacterial physiology and pathogenesis are unknown. Here, we predicted and analyzed the core ncRNAs of P . salmonis base on structure and correlate this prediction to RNA sequencing data. We identified a total of 69 ncRNA classes related to tRNAs, rRNA, thermoregulators, antitoxins, ribozymes, riboswitches, miRNAs and antisense-RNAs. Among these ncRNAs, 29 classes of ncRNAs are shared between all P . salmonis genomes, constituting the core ncRNAs of P . salmonis . The ncRNA core of P . salmonis could serve to develop diagnostic tools and explore the role of ncRNA in fish pathogenesis.