Full-length transcriptome from different life stages of cobia (Rachycentron canadum, Rachycentridae)

Ebeneezar, Sanal and Sharma, S R Krupesha and Vijayagopal, P and Sebastian, Wilson and Sajina, K A and Tamilmani, G and Sakthivel, M and Ramesh Kumar, P and Anikuttan, K K and Varghese, Eldho and Linga Prabu, D and Jeena, N S and Sumithra, T G and Gayathri, S and Iyapparajanarasimapallavan, G and Gopalakrishnan, A (2023) Full-length transcriptome from different life stages of cobia (Rachycentron canadum, Rachycentridae). Scientific Data, 10. pp. 1-11. ISSN 2052-4463

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Abstract

Cobia (Rachycentron canadum, Rachycentridae) is one of the prospective species for mariculture. The transcriptome-based study on cobia was hampered by an inadequate reference genome and a lack of full-length cDNAs. We used a long-read based sequencing technology (PacBio Sequel II Iso-Seq3 SMRT) to obtain complete transcriptome sequences from larvae, juveniles, and various tissues of adult cobia, and a single SMRTcell generated 99 gigabytes of data and 51,205,946,694 bases. A total of 8609435, 7441673 and 9140164 subreads were generated from the larval, juvenile, and adult sample pools, with mean sub-read lengths of 2109.9, 1988.2 and 1996.2 bp, respectively. All samples were combined to increase transcript recovery and clustered into 35661 high-quality reads. This is the first report on a full-length transcriptome from R. canadum. Our results illustrate a significant increase in the identified amount of cobia LncRNAs and alternatively spliced transcripts, which will help improve genome annotation. Furthermore, this information will be beneficial for nutrigenomics and functional studies on cobia and other commercially important mariculture species.

Item Type:	Article
Uncontrolled Keywords:	Biotechnology; Transcriptomics
Subjects:	Fish and Fisheries > Fish Genetics Demersal Fishes > Cobia
Divisions:	CMFRI-Kochi > Marine Biotechnology, Fish Nutrition and Health Division Subject Area > CMFRI > CMFRI-Kochi > Marine Biotechnology, Fish Nutrition and Health Division CMFRI-Kochi > Marine Biotechnology, Fish Nutrition and Health Division Subject Area > CMFRI-Kochi > Marine Biotechnology, Fish Nutrition and Health Division
Depositing User:	Arun Surendran
Date Deposited:	20 Feb 2023 05:41
Last Modified:	20 Feb 2023 05:41
URI:	http://eprints.cmfri.org.in/id/eprint/16751

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