Literature DB >> 32414680

De novo assembly and functional annotation of the heart + hemolymph transcriptome in the Caribbean spiny lobster Panulirus argus.

J Antonio Baeza1, Matthew MacManes2.   

Abstract

The spiny lobster, Panulirus argus, is an ecologically relevant species in shallow water coral reefs and a target of the most lucrative fishery in the greater Caribbean region. This study reports, for the first time, the heart + hemolymph transcriptome of the Caribbean spiny lobster Panulirus argus assembled from short Illumina 150bp PE raw reads. A total of 80,152,094 raw reads were assembled using the Oyster River Protocol pipeline. The assembly resulted in a total of 254,773 transcripts. Functional gene annotation was conducted using the software package 'dammit'. Lastly, gene enrichment analyses were conducted using the Gene Ontology (GO) and KEGG pathway (Kaas) databases. This resource will be of utmost importance in future research aiming at exploring the effect of local and regional anthropogenic disturbances, as well as global climate change on the molecular physiology of this overexploited species.
Copyright © 2020 Elsevier B.V. All rights reserved.

Entities:  

Keywords:  Caribbean spiny lobster; Coral reef; Hemolymph; Panulirus argus; Transcriptome

Mesh:

Year:  2020        PMID: 32414680     DOI: 10.1016/j.margen.2020.100783

Source DB:  PubMed          Journal:  Mar Genomics        ISSN: 1874-7787            Impact factor:   1.710


  2 in total

1.  Yes, we can use it: a formal test on the accuracy of low-pass nanopore long-read sequencing for mitophylogenomics and barcoding research using the Caribbean spiny lobster Panulirus argus.

Authors:  J Antonio Baeza
Journal:  BMC Genomics       Date:  2020-12-09       Impact factor: 3.969

2.  Genome survey sequencing of the Caribbean spiny lobster Panulirus argus: Genome size, nuclear rRNA operon, repetitive elements, and microsatellite discovery.

Authors:  J Antonio Baeza
Journal:  PeerJ       Date:  2020-12-17       Impact factor: 2.984

  2 in total

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