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Full-length transcriptome from different life stages of cobia (Rachycentron canadum, Rachycentridae)
Sanal Ebeneezar1, S R Krupesha Sharma2, P Vijayagopal3
1Marine Biotechnology Fish Nutrition and Health Division, ICAR- Central Marine Fisheries Research Institute, Kochi, Kerala, 682018, India. sanalebeneezar@gmail.com.
Scientific Data
|February 16, 2023
Summary
This study presents the first full-length cobia transcriptome, generated using long-read sequencing. This resource enhances cobia genome annotation and aids future nutrigenomics and functional studies for mariculture.
Area of Science:
- Marine Biology
- Genomics
- Aquaculture
Background:
- Cobia (Rachycentron canadum) is a key species for mariculture.
- Previous transcriptome studies were limited by poor genome assembly and lack of full-length complementary DNAs (cDNAs).
Purpose of the Study:
- To generate a comprehensive, full-length cobia transcriptome using advanced sequencing technology.
- To improve the genome annotation of Rachycentron canadum.
- To provide foundational data for nutrigenomics and functional studies in cobia.
Main Methods:
- Utilized PacBio Sequel II Iso-Seq3 SMRT long-read sequencing technology.
- Sequenced RNA from cobia larvae, juveniles, and adult tissues.
- Combined and clustered subreads to generate high-quality, full-length transcripts.
Main Results:
- Generated 99 gigabytes of data, yielding 35,661 high-quality full-length cobia transcripts.
- Identified a significant increase in long non-coding RNAs (LncRNAs) and alternatively spliced transcripts.
- This represents the first report of a full-length cobia transcriptome.
Conclusions:
- The generated cobia transcriptome is a valuable resource for improving genome annotation.
- This data will facilitate future nutrigenomics and functional research in cobia.
- The findings support the advancement of cobia mariculture and related species.
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