title: De novo assembly and annotation of the European abalone Haliotis tuberculata transcriptome.
abstract: The European abalone Haliotis tuberculata is a delicacy and consequently a commercially valuable gastropod species. Aquaculture production and wild populations are subjected to multiple climate-associated stressors and anthropogenic pressures, including rising sea-surface temperatures, ocean acidification and an emerging pathogenic Vibrio infection. Transcript expression data provides a valuable resource for understanding abalone responses to variation in the biotic and abiotic environment. To generate an extensive transcriptome, we performed next-generation sequencing of RNA on larvae exposed to temperature and pH variation and on haemolymph of adults from two wild populations after experimental infection with Vibrio harveyi. We obtained more than 1.5 billion raw paired-end reads, which were assembled into 328,519 contigs. Filtration and clustering produced a transcriptome of 41,099 transcripts, of which 10,626 (25.85%) were annotated with Blast hits, and 7380 of these were annotated with Gene Ontology (GO) terms in Blast2Go. A differential expression analysis comparing all samples from the two life stages identified 5690 and 10,759 transcripts with significantly higher expression in larvae and adult haemolymph respectively. This is the greatest sequencing effort yet in the Haliotis genus, and provides the first high-throughput transcriptomic resource for H. tuberculata.
authors.affiliation: Laboratoire des Sciences de l'Environnement Marin (LEMAR), UMR6539 CNRS/UBO/IRD/Ifremer, Institut Universitaire Européen de la Mer, University of Brest (UBO), Université Européenne de Bretagne (UEB), Place Nicolas Copernic, 29280, Plouzané, France. Electronic address: ewan.harney@univ-brest.fr.
authors.forename: Ewan
authors.initials: E
authors.lastname: Harney
authors.affiliation: Laboratoire des Sciences de l'Environnement Marin (LEMAR), UMR6539 CNRS/UBO/IRD/Ifremer, Institut Universitaire Européen de la Mer, University of Brest (UBO), Université Européenne de Bretagne (UEB), Place Nicolas Copernic, 29280, Plouzané, France.
authors.forename: Bruno
authors.initials: B
authors.lastname: Dubief
authors.affiliation: Ifremer, Laboratoire des Sciences de l'Environnement Marin (LEMAR), UMR 6539 CNRS/UBO/IRD/Ifremer, Centre Bretagne Z.I. Pointe du Diable, 29280 Plouzané, France.
authors.forename: Pierre
authors.initials: P
authors.lastname: Boudry
authors.affiliation: SMEL (Synergie Mer Et Littoral), Centre Expérimental, 50560 Blainville-sur-Mer, France.
authors.forename: Olivier
authors.initials: O
authors.lastname: Basuyaux
authors.affiliation: Institute of Clinical Molecular Biology, Christian-Albrechts-University of Kiel, 24105 Kiel, Germany.
authors.forename: Markus B
authors.initials: MB
authors.lastname: Schilhabel
authors.affiliation: France Haliotis, Kerazan Lilia, 29880 Plouguerneau, France.
authors.forename: Sylvain
authors.initials: S
authors.lastname: Huchette
authors.affiliation: Laboratoire des Sciences de l'Environnement Marin (LEMAR), UMR6539 CNRS/UBO/IRD/Ifremer, Institut Universitaire Européen de la Mer, University of Brest (UBO), Université Européenne de Bretagne (UEB), Place Nicolas Copernic, 29280, Plouzané, France.
authors.forename: Christine
authors.initials: C
authors.lastname: Paillard
authors.affiliation: Laboratoire des Sciences de l'Environnement Marin (LEMAR), UMR6539 CNRS/UBO/IRD/Ifremer, Institut Universitaire Européen de la Mer, University of Brest (UBO), Université Européenne de Bretagne (UEB), Place Nicolas Copernic, 29280, Plouzané, France.
authors.forename: Flavia L D
authors.initials: FLD
authors.lastname: Nunes
mesh_terms: D000818:Animals; D049851:Gastropoda / Q000235:genetics* / Q000254:growth & development / Q000382:microbiology; D063990:Gene Ontology; D059014:High-Throughput Nucleotide Sequencing; D007814:Larva; D017423:Sequence Analysis, RNA; D059467:Transcriptome; D014733:Vibrio / Q000502:physiology*
keywords: Climate change; Development; Gastropoda; Mollusca; RNA-Seq; Vibrio harveyi