Tidings from the Tides–De novo transcriptome assembly of the endemic estuarine bivalve Villorita cyprinoides

Rahuman, Summaya and Jeena, N S and Sebastian, Wilson and Varghese, Eldho and Asokan, P K (2024) Tidings from the Tides–De novo transcriptome assembly of the endemic estuarine bivalve Villorita cyprinoides. Scientific Data, 11. pp. 1-10. ISSN 2052-4463

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Official URL: https://www.nature.com/articles/s41597-024-03541-4
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Abstract

The Indian black clam Villorita cyprinoides Gray, 1825, is an economically valuable estuarine bivalve that faces challenges from multiple stressors and anthropogenic pressures. However, limited genomic resources have hindered molecular investigations into the impact of these stressors on clam populations. Here, we have generated the first transcriptomic reference datasets for V. cyprinoides to address this knowledge gap. A total of 25,040,592 and 22,486,217 million Illumina paired-end reads generated from two individuals were assembled using Trinity and rnaSPAdes. From the 47,607 transcripts identified as Coding Domain Sequences, 37,487 returned positive BLAST hits against six different databases. Additionally, a total of 14,063 Single Sequence Repeats were identified using GMATA. This study significantly enhances the genetic understanding of V. cyprinoides, a potential candidate for aquaculture that supports the livelihoods of many people dependent on small-scale fisheries. The data generated provides insights into broader genealogical connections within the family Cyrenidae through comparative transcriptomics. Furthermore, this transcriptional profile serves as baseline data for future studies in toxicological and conservation genetics.

Item Type: Article
Uncontrolled Keywords: RNA sequencing; Transcriptomics
Subjects: Molluscan Fisheries > Bivalves
Fish and Fisheries > Fish Genetics
Fish Biotechnology
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: 18 Jul 2024 04:45
Last Modified: 18 Jul 2024 04:45
URI: http://eprints.cmfri.org.in/id/eprint/18622

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