Bioinformatic tools help molecular characterization of Perkinsus olseni differentially expressed genes

Abstract

In the 80ies, in Southern Europe and in particular in Ria Formosa there was an episode of heavy mortality of the economically relevant clam Ruditapes (R.) decussatus associated with a debilitating disease (Perkinsosis) caused by Perkinsus olseni. This protozoan parasite was poorly known concerning its' differential transcriptome in response to its host, R. decussatus. This laboratory available protozoan system was used to identify parasite genes related to host interaction. Beyond the application of molecular biology technologies and methodologies, only the help of Bioinformatics tools allowed to analyze the results of the study. The strategy started with SSH technique, allowing the identification of parasite up-regulated genes in response to its natural host, then a macroarray was constructed and hybridized to characterize the parasite genes expression when exposed to bivalves hemolymph from permissive host (R. decussatus), resistant host (R. philippinarum) and non permissive bivalve (Donax trunculus) that cohabit in the same or adjacent habitats in Southern Portugal. Genes and respective peptides full molecular characterization depended on several Bioinformatic tools application. Also a new Bioinformatic tool was developed.

New insights into the Manila clam – Perkinsus olseni interaction based on gene expression analysis of clam hemocytes and parasite trophozoites through in vitro challenges

“…Clam perkinsosis has also been studied from the parasite point perspective focusing on different biological processes, including its proliferation (Casas et al, 2002b;Elandalloussi et al, 2003Elandalloussi et al, , 2005aAraujo et al, 2013), metabolic pathways (Elandalloussi et al, 2005b), pathogenicity (Shimokawa et al, 2010;Waki et al, 2012;Waki and Yoshinaga, 2013), population genetic structure (Pardo et al, 2011;Vilas et al, 2011), and gene and protein expression profiles (Ascenso et al, 2007;Leite et al, 2008;Ascenso, 2011;Fernández-Boo et al, 2014, 2015a, 2015b.…”