Transcriptome Survey of a Marine Food Fish: Asian Seabass (Lates calcarifer)

Journal of Marine Science and Engineering

Natascha M. Thevasagayam³  Prakki S.R. Sridatta³  Junhui Jiang³  Amy Tong²  Jolly M. Saju³  Purushothaman Kathiresan³  Hsiao Yuen Kwan³  Si Yan Ngoh³  Woei Chang Liew³  Inna S. Kuznetsova³  Xueyan Shen³  Si Lok¹  Shubha Vij³  László Orbán³ 

[1] The Centre for Applied Genomics, The Hospital for Sick Children, Peter Gilgan Centre for Research and Learning, Toronto, ON M5G 0A4, Canada;Donnelly Centre for Cellular and Biomolecular Research, University of Toronto, Toronto, ON M5S 3E1, Canada; E-Mail:;Reproductive Genomics Group, Strategic Research Program, Temasek Life Sciences Laboratory, Singapore 117604, Singapore; E-Mails:

关键词: Asian seabass;    barramundi;    transcriptome sequencing;    transcriptome assembly;    NGS;    RNA-Seq;   

DOI  :  10.3390/jmse3020382

来源: mdpi

【 摘 要 】

The Asian seabass (or barramundi; Lates calcarifer) is a marine teleost and a popular food fish in Southeast Asia and Australia. To date, comprehensive genome and transcriptome sequence information has not been available for this species in public repositories. Here, we report a comprehensive de novo transcriptome assembly of the Asian seabass. These data will be useful for the development of molecular tools for use in aquaculture of Asian seabass as well as a resource for genome annotation. The transcriptome was obtained from sequences generated from organs of multiple individuals using three different next-generation sequencing platforms (454-FLX Titanium, SOLiD 3+, and paired-end Illumina HiSeq 2000). The assembled transcriptome contains >80% of the expected protein-coding loci, with 58% of these represented by a predicted full-length cDNA sequence when compared to the available Nile tilapia RefSeq dataset. Detailed descriptions of the various steps involved in sequencing and assembling a transcriptome are provided to serve as a helpful guide for transcriptome projects involving de novo assembly of short sequence reads for non-model teleosts or any species of interest.

【 授权许可】

CC BY   
© 2015 by the authors; licensee MDPI, Basel, Switzerland.