Aquaculture & Marine Biology

Biography

Biography: Pooja harshan

Abstract

The chondrostean order Orectolobiformes, encompasses various model organisms including the grey bamboo shark that play significant role in uplifting biological research. The main objective was to generate a de novo reference transcriptome for the grey bamboo shark, Chiloscyllium griseum (Chondrichthyes; Hemiscyllidae) exercising paired end (PE) illumina RNA sequencing technology.The present work focuses on generating a de novo illumina paired-end sequencing library data set of the grey bamboo shark, Chiloscyllium griseum using an illumina HiSeq X10 PE 10 platform. The gene panel obtained has to be interrogated for any potential biological function in particular, ‘vertebrate immunity’ through comparative transcriptomics strategy using a model or a reference organism. The model chosen for the present study is Callorhinchus milii (Elephant shark/Ghost shark). 348,764 transcripts were generated after the de novo transcriptome assembly and 70,647 transcripts could find a homolog matched with the Uniprot database. These transcripts were further subjected to organism annotation and functional assignment of gene ontology (GO) terms. Also, GO terms for the available transcripts were retrieved where ever possible and grouped into different category based on the ‘biological process’,‘cellular component’ and ‘molecular function’. Busco analysis was performed to assess the completedness of transcriptome assembly. Five candidate genes novel to immunological pathways were identified in silico and the potential function of the corresponding proteins was predicted using InterPro Scan. This work yields a transcriptome dataset of Chiloscyllium griseum that can be used as a draft representative of large-scale catalogue of genes corresponding to both innate and adaptive immune response in Chiloscyllium.