Full-length transcriptome analysis provides new insights into the diversity of immune-related genes in the threatened freshwater shellfish Solenaia oleivora

• Published in: Fish & shellfish immunology 2023-09, Vol.140, p.108964-108964, Article 108964
• Main Authors: Zhang, Ting, Ma, Xueyan, Wen, Haibo, Xu, Dongpo, Jin, Wu, Zhou, Yanfeng
• Format: Article
• Language: English
• Subjects: Immune; PacBio sequencing; Shellfish; Transcriptome
• ISSN: 1050-4648; 1095-9947
• DOI: 10.1016/j.fsi.2023.108964

Solenaia oleivora, a valuable and rare bivalve endemic to China, is becoming a threatened freshwater sepcies. However, the lack of research on its genome and immune system will hinder advances in its conservation and artificial breeding. In this study, we obtained the full-length transcriptome of S. oleivora using PacBio sequencing. A total of 21,415 transcripts with an average length of 1,726 bp were generated. Among these transcripts, 12,084 had coding sequences (CDS), of which 8,639 were annotated in 6 databases. The structure analysis identified 625 transcript factors (TFs), 8,005 long non-coding RNAs (lncRNAs), and 5,288 simple sequences repeat (SSRs). Meanwhile, massive immune genes were identified from the transcriptome of S. oleivora. In terms of non-self-identification, 97 transcripts of pattern recognition receptors (PRRs) were discovered, including peptidoglycan recognition proteins (PGRPs), gram-negative bacteria binding proteins (GNBPs), toll-like receptors (TLRs), scavenger receptors (SRs), galectins (GALs), C-type lectins (CLTs), and fibrinogen-related protein (FREPs). For pathogen elimination, 7 transcripts related to antimicrobial peptides, lysozymes, and lysosomal enzymes were identified. Moreover, 33 complement-associated transcripts were found. This study enriched the genome resources of S. oleivora and provided new insights for the study of the immune system of S. oleivora. •A full-length transcriptome and 21,415 transcripts of S.oleivora were obtained.•625 TFs, 8,005 lncRNAs, and 5,288 SSRs, and 206,994 SNPs were identified.•97 PRRs were identified, including TLRs, PGRPs, GNBPs, SRs, GALs, CTLs, and FREPs.•7 pathogen elimination-related genes were found, including defensin, LYZ, and ACP.•33 complement-related genes were found, including C1qDCPs, FCNs, C3, Bf, and C6.