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- Title
Full-length transcriptome from different life stages of cobia (Rachycentron canadum, Rachycentridae).
- Authors
Ebeneezar, Sanal; Krupesha Sharma, S. R.; Vijayagopal, P.; Sebastian, Wilson; Sajina, K. A.; Tamilmani, G.; Sakthivel, M.; Rameshkumar, P.; Anikuttan, K. K.; Varghese, Eldho; Linga Prabu, D.; Jeena, N. S.; Sumithra, T. G.; Gayathri, S.; Iyyapparaja Narasimapallavan, G.; Gopalakrishnan, A.
- 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. Measurement(s) Full length transcriptome of Cobia (Rachycentron canadum) Technology Type(s) PacBio Sequel 2 Sample Characteristic - Organism Rachycentron canadum Sample Characteristic - Environment Marine environment Sample Characteristic - Location India
- Subjects
INDIA; COBIA; TRANSCRIPTOMES; ANTISENSE DNA; LINCRNA; MARICULTURE; NUTRITIONAL genomics
- Publication
Scientific Data, 2023, Vol 10, Issue 1, p1
- ISSN
2052-4463
- Publication type
Article
- DOI
10.1038/s41597-022-01907-0