De novo transcriptome assembly of shrimp Palaemon serratus

Alejandra Perina; Ana M González-Tizón; Iago F Meilán; Andrés Martínez-Lage

doi:10.1016/j.gdata.2016.12.009

De novo transcriptome assembly of shrimp Palaemon serratus

Genom Data. 2016 Dec 23:11:89-91. doi: 10.1016/j.gdata.2016.12.009. eCollection 2017 Mar.

Authors

Alejandra Perina¹, Ana M González-Tizón¹, Iago F Meilán², Andrés Martínez-Lage¹

Affiliations

¹ Department of Cell and Molecular Biology, Evolutionary Biology Group (GIBE), Universidade da Coruña, A Fraga 10, E-15008 A Coruña, Spain; Centro de Investigaciones Científicas Avanzadas (CICA), Universidade da Coruña, 15071 A Coruña, Spain.
² aCore, Falperra 36, E-15005 A Coruña, Spain.

Abstract

The shrimp Palaemon serratus is a coastal decapod crustacean with a high commercial value. It is harvested for human consumption. In this study, we used Illumina sequencing technology (HiSeq 2000) to sequence, assemble and annotate the transcriptome of P. serratus. RNA was isolated from muscle of adults individuals and, from a pool of larvae. A total number of 4 cDNA libraries were constructed, using the TruSeq RNA Sample Preparation Kit v2. The raw data in this study was deposited in NCBI SRA database with study accession number of SRP090769. The obtained data were subjected to de novo transcriptome assembly using Trinity software, and coding regions were predicted by TransDecoder. We used Blastp and Sma3s to annotate the identified proteins. The transcriptome data could provide some insight into the understanding of genes involved in the larval development and metamorphosis.

Specifications: [Table: see text].

Keywords: Illumina; Larvae; Muscle; Palaemon serratus; RNA-seq; Transcriptome.