De Novo assembly and annotation of the Pacific calico scallop (Argopecten ventricosus) transcriptome for immune-related gene discovery

Invertebrates' immune defense mechanisms play a critical role in pathogen recognition and elimination. De novo assembly annotation of the Argopecten ventricosus transcriptome were performed for immune-related gene identification. Scallops (height: 4.4 cm) challenged with inactivated Vibrio parahaemolyticus IPNGS16. The RNA from different tissues was pooled single cDNA library construction sequenced by NextSeq 500 platform 2×75 paired‐end chemistry. Before de assembling Trinity, reads analyzed FastQC, Trimmomatic, Prinseq. Assembled sequences CD-HIT-EST TransDecoder. corresponding against NCBI-nr, RefSeq protein, KAAS (KEGG) databases. Trinity yielded 107,516 contigs. TransDecoder 25,285 as CDSs which, 16,123 annotated NCBI-nr most them scored Crassostrea gigas data. Gene ontology mapped (15,262) classified molecular functions (~13,000), cellular components (~11,000), biological processes (~13,000). analysis showed categories metabolism (13%), (12%), genetic information processing (10%), organismal systems (19%), environmental human diseases (33 %). Within systems, 467 genes (KO) identified. Sixty-four annotated/blasted protein An RT-qPCR to analyze expression level obtained scallops (height 4.5 treated probiotic bacilli added culture water. Bacilli significantly increased HSP70 PGRP genes. transcripts A. will better understand its response pathogens systems.