De Novo Assembly, Characterization and Functional Annotation of Southern Hake (Merluccius australis) Transcriptome

Southern hake (Merluccius australis) is an ecological and economically important demersal fish in Chile and Argentina. Notwithstanding, genetic resource for genetic or ecological studies on this species are scarce. Consequently, here we present transcriptome sequencing results (RNA-Seq) for spleen a...

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Bibliographic Details
Published in:Frontiers in Marine Science
Main Authors: Daniela Reyes, John Gold, Ruth Gonzalez, Rodrigo Vidal
Format: Article in Journal/Newspaper
Language:English
Published: Frontiers Media S.A. 2016
Subjects:
Kidney
Spleen
Transcriptome
RNA-Seq
microsatellite
Southern hake
Science
Q
General. Including nature conservation
geographical distribution
QH1-199.5
Argentina
Hake
atlantic cod
Online Access:https://doi.org/10.3389/fmars.2016.00216
https://doaj.org/article/b0e57481595141118d08e10844d064c9
Description
Summary:Southern hake (Merluccius australis) is an ecological and economically important demersal fish in Chile and Argentina. Notwithstanding, genetic resource for genetic or ecological studies on this species are scarce. Consequently, here we present transcriptome sequencing results (RNA-Seq) for spleen and liver tissues with the 454 FLX titanium platform. The de novo transcriptome assembly generated 10,314 unigenes, with an average length of 510 bp, N50 of 572 bp and 3,171 annotated sequences. A specific Gadiform BLAST search, with focus on immune genes, showed 186 (56%) genes homologous to those of Atlantic cod. A total of 2,302 microsatellites were detected in 1,687 unigenes and 741 presented adequate flanking sequences for primer design. In total, these potential molecular markers and transcriptome characterization represent an important resource for genetic and ecological studies on southern hake.

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