Sequence and de novo assembly of the genome of the Indian oil sardine, Sardinella longiceps

Sukumaran, Sandhya and Sebastian, Wilson and Gopalakrishnan, A and Mathew, Oommen K and Vysakh, V G and Rohit, Prathibha and Jena, J K (2023) Sequence and de novo assembly of the genome of the Indian oil sardine, Sardinella longiceps. Scientific Data, 10 (565). ISSN 2052-4463

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Abstract

The Indian oil sardine, Sardinella longiceps, is a widely distributed and commercially important small pelagic fish of the Northern Indian Ocean. The genome of the Indian oil sardine has been characterized using Illumina and Nanopore platforms. The assembly is 1.077 Gb (31.86 Mb Scaffold N50) in size with a repeat content of 23.24%. The BUSCO (Benchmarking Universal Single Copy Orthologues) completeness of the assembly is 93.5% when compared with Actinopterygii (ray finned fishes) data set. A total of 46316 protein coding genes were predicted. Sardinella longiceps is nutritionally rich with high levels of omega-3 polyunsaturated fatty acids (PUFA). The core genes for omega-3 PUFA biosynthesis, such as Elovl 1a and 1b,Elovl 2, Elovl 4a and 4b,Elovl 8a and 8b,and Fads 2, were observed in Sardinella longiceps. The presence of these genes may indicate the PUFA biosynthetic capability of Indian oil sardine, which needs to be confirmed functionally.

Item Type:	Article
Uncontrolled Keywords:	Whole genome Sequence; de novo assembly; genome; Indian oil sardine; Sardinella longiceps; Genomics
Subjects:	Fish and Fisheries > Fish Genetics Pelagic Fisheries > Oil sardine Pelagic Fisheries
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:	28 Aug 2023 04:41
Last Modified:	28 Aug 2023 04:41
URI:	http://eprints.cmfri.org.in/id/eprint/17373

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