Journal article
Transcriptome survey of a marine food fish: Asian seabass (Lates calcarifer)
Journal of Marine Science and Engineering, Vol.3(2), pp.382-400
2015
Abstract
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.
Details
- Title
- Transcriptome survey of a marine food fish: Asian seabass (Lates calcarifer)
- Authors/Creators
- N. Thevasagayam (Author/Creator)P. Sridatta (Author/Creator)J. Jiang (Author/Creator)A. Tong (Author/Creator)J. Saju (Author/Creator)P. Kathiresan (Author/Creator)H. Kwan (Author/Creator)S. Ngoh (Author/Creator)W. Liew (Author/Creator)I. Kuznetsova (Author/Creator)X. Shen (Author/Creator)S. Lok (Author/Creator)S. Vij (Author/Creator)L. Orbán (Author/Creator)
- Publication Details
- Journal of Marine Science and Engineering, Vol.3(2), pp.382-400
- Publisher
- MDPI
- Identifiers
- 991005543026907891
- Copyright
- © 2015 MDPI AG
- Murdoch Affiliation
- Centre for Comparative Genomics
- Language
- English
- Resource Type
- Journal article
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