title: Sequencing and de novo assembly of the red cusk-eel (Genypterus chilensis) transcriptome.
abstract: The red cusk-eel (Genypterus chilensis) is an endemic fish species distributed along the coasts of the Eastern South Pacific. Biological studies on this fish are scarce, and genomic information for G. chilensis is practically non-existent. Thus, transcriptome information for this species is an essential resource that will greatly enrich molecular information and benefit future studies of red cusk-eel biology. In this work, we obtained transcriptome information of G. chilensis using the Illumina platform. The RNA sequencing generated 66,307,362 and 59,925,554 paired-end reads from skeletal muscle and liver tissues, respectively. De novo assembly using the CLC Genomic Workbench version 7.0.3 produced 48,480 contigs and created a reference transcriptome with a N50 of 846bp and average read coverage of 28.3×. By sequence similarity search for known proteins, a total of 21,272 (43.9%) contigs were annotated for their function. Out of these annotated contigs, 33.5% GO annotation results for biological processes, 32.6% GO annotation results for cellular components and 34.5% GO annotation results for molecular functions. This dataset represents the first transcriptomic resource for the red cusk-eel and for a member of the Ophidiimorpharia taxon.
authors.affiliation: Facultad de Ciencias Biológicas, Universidad Andrés Bello, Santiago, Chile; Interdisciplinary Center for Aquaculture Research (INCAR), Víctor Lamas 1290, PO Box 160-C, Concepción, Chile.
authors.forename: J E
authors.initials: JE
authors.lastname: Aedo
authors.affiliation: Universidad de Chile, Facultad de Ciencias Agronómicas, Departamento de Producción Agrícola, Laboratorio de Genómica Funcional & Bioinformática, Av. Santa Rosa 11315, La Pintana, 8820808 Santiago, Chile.
authors.forename: J
authors.initials: J
authors.lastname: Maldonado
authors.affiliation: Centro de Investigación Marina Quintay (CIMARQ), Universidad Andrés Bello, Quintay, Chile.
authors.forename: J M
authors.initials: JM
authors.lastname: Estrada
authors.affiliation: Facultad de Ciencias Biológicas, Universidad Andrés Bello, Santiago, Chile; Interdisciplinary Center for Aquaculture Research (INCAR), Víctor Lamas 1290, PO Box 160-C, Concepción, Chile; Centro de Investigación Marina Quintay (CIMARQ), Universidad Andrés Bello, Quintay, Chile.
authors.forename: E N
authors.initials: EN
authors.lastname: Fuentes
authors.affiliation: Universidad de Chile, Facultad de Ciencias Agronómicas, Departamento de Producción Agrícola, Laboratorio de Genómica Funcional & Bioinformática, Av. Santa Rosa 11315, La Pintana, 8820808 Santiago, Chile.
authors.forename: H
authors.initials: H
authors.lastname: Silva
authors.affiliation: Laboratory of Biotechnology and Aquatic Genomics, Interdisciplinary Center for Aquaculture Research (INCAR), University of Concepción, P.O. Box 160-C, Chile.
authors.forename: C
authors.initials: C
authors.lastname: Gallardo-Escarate
authors.affiliation: Facultad de Ciencias Biológicas, Universidad Andrés Bello, Santiago, Chile; Interdisciplinary Center for Aquaculture Research (INCAR), Víctor Lamas 1290, PO Box 160-C, Concepción, Chile; Centro de Investigación Marina Quintay (CIMARQ), Universidad Andrés Bello, Quintay, Chile.
authors.forename: A
authors.initials: A
authors.lastname: Molina
authors.affiliation: Facultad de Ciencias Biológicas, Universidad Andrés Bello, Santiago, Chile; Interdisciplinary Center for Aquaculture Research (INCAR), Víctor Lamas 1290, PO Box 160-C, Concepción, Chile; Centro de Investigación Marina Quintay (CIMARQ), Universidad Andrés Bello, Quintay, Chile. Electronic address: jvaldes@unab.cl.
authors.forename: J A
authors.initials: JA
authors.lastname: Valdés
mesh_terms: D000818:Animals; D001483:Base Sequence; D019295:Computational Biology; D017931:DNA Primers / Q000235:genetics; D018076:DNA, Complementary / Q000235:genetics; D005399:Fishes / Q000235:genetics*; D020869:Gene Expression Profiling; D008099:Liver / Q000378:metabolism; D058977:Molecular Sequence Annotation; D008969:Molecular Sequence Data; D018482:Muscle, Skeletal / Q000378:metabolism; D010140:Pacific Ocean; D017423:Sequence Analysis, RNA; D059467:Transcriptome / Q000235:genetics*
chemical_list: D017931:DNA Primers; D018076:DNA, Complementary
keywords: Liver transcriptome; NGS; Red cusk-eel; Skeletal muscle transcriptome