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J. Mar. Sci. Eng. 2015, 3(2), 382-400;

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

Reproductive Genomics Group, Strategic Research Program, Temasek Life Sciences Laboratory, Singapore 117604, Singapore
Agri-Food and Veterinary Authority of Singapore, Singapore 608550, Singapore
Donnelly Centre for Cellular and Biomolecular Research, University of Toronto, Toronto, ON M5S 3E1, Canada
The Centre for Applied Genomics, The Hospital for Sick Children, Peter Gilgan Centre for Research and Learning, Toronto, ON M5G 0A4, Canada
Centre for Comparative Genomics, Murdoch University, Murdoch 6150, Australia
Department of Animal Sciences and Animal Husbandry, Georgikon Faculty, University of Pannonia, Keszthely H-8360, Hungary
These authors contributed equally to this work.
Authors to whom correspondence should be addressed.
Academic Editor: Dean Jerry
Received: 12 May 2015 / Accepted: 22 May 2015 / Published: 2 June 2015
(This article belongs to the Special Issue Genetic Breeding Technology and Its Application in Marine Aquaculture)
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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. View Full-Text
Keywords: Asian seabass; barramundi; transcriptome sequencing; transcriptome assembly; NGS; RNA-Seq Asian seabass; barramundi; transcriptome sequencing; transcriptome assembly; NGS; RNA-Seq

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This is an open access article distributed under the Creative Commons Attribution License which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited. (CC BY 4.0).

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Thevasagayam, N.M.; Sridatta, P.S.; Jiang, J.; Tong, A.; Saju, J.M.; Kathiresan, P.; Kwan, H.Y.; Ngoh, S.Y.; Liew, W.C.; Kuznetsova, I.S.; Shen, X.; Lok, S.; Vij, S.; Orbán, L. Transcriptome Survey of a Marine Food Fish: Asian Seabass (Lates calcarifer). J. Mar. Sci. Eng. 2015, 3, 382-400.

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