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De Novo assembly and annotation of Perna indica transcriptome using next generation sequencing technology

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Relation http://eprints.cmfri.org.in/15560/
https://www.ycjournal.net/Multilogicinscience/ArticleDetails.aspx?ref=NQA5ADcAMQA=
https://doi.org/10.17605/OSF.IO/WJ89V
 
Title De Novo assembly and annotation of Perna indica transcriptome using next generation sequencing technology
 
Creator Mary, Sujitha
Sukumaran, Sandhya
Sebastian, Wilson
Gopalakrishnan, A
 
Subject Bivalves
Molluscan Fisheries
 
Description Indian coastline is bestowed with a rich diversity of molluscan species of which mussels belonging to the genus Perna (Family; Mytilidae) occupy a major position. Aquaculture importance of these species is globally recognized. They are extensively used as pollution indicators as they can accumulate contaminants at levels higher than that present in water. This property has made them valuable biomarkers of environmental pollution. The scarcity in the genetic resources of this species is one of the major hindrances in its wide usage as a biomonitor. Here we sequenced the first transcriptome of Perna indica, collected from the southernmost part of Kerala coast, using NGS illumina HiSeq 2500 technology. The de novo assembly of Perna indica transcriptome generated 157203 contigs and 132641 non-redundant genes with a minimum length of 201bp. The blast search and InterPro database scan resulted in assigning domains, ontology and pathway mapping to these genes which helped in identifying genes involved in metabolism, immune related genes, proteins and domains associated with these genes. 84% of the transcripts which had atleast one blast-hit showed similarity to species from bivalves. 12420 transcripts with GO terms and 17835 transcripts with 395 KEGG pathways were identified in the assembled transcriptome of Perna indica.
 
Date 2021
 
Type Article
PeerReviewed
 
Format text
 
Language en
 
Identifier http://eprints.cmfri.org.in/15560/1/Multilogic%20in%20Science_2021_Sandhya%20Sukumaran.pdf
Mary, Sujitha and Sukumaran, Sandhya and Sebastian, Wilson and Gopalakrishnan, A (2021) De Novo assembly and annotation of Perna indica transcriptome using next generation sequencing technology. Multilogic in Science, 12 (40). pp. 186-190. ISSN 2277-7601