Department of Animal Nutrition and Aquaculture, Shandong Vocational Animal Science and Veterinary College, 88 Shengli East Street, Weifang 261061, China.
College of Economics and Management in Shanghai Ocean University, Shanghai 201306, China.
Fish Shellfish Immunol. 2019 May;88:237-243. doi: 10.1016/j.fsi.2019.01.024. Epub 2019 Feb 18.
The Solen strictus (Gould, 1861) has been recognized as an important marine economic bivalve in Eastern and Southeast Asia. To gain a better understanding of the S. strictus immune system and its related genes in response to bacterial infections, we performed a comparative gene transcription analysis from S. strictus with Vibrio anguillarum through RNA-Seq technology, meanwhile the differentially expressed genes (DEGs) were investigated. After assembly, a total of 195,774 transcripts with an average length of 996 bp were obtained. Total 153,038 unigenes were annotated in the nr, Swiss-Prot, KEGG, COG, KOG, GO and Pfam databases, and 56,597 unigenes (36.98%) were annotated in at least one database. After bacterial challenge, there were 1588 significant differentially expressed genes (DEGs) between the challenged and control groups, including 999 up-regulated and 589 down-regulated genes. All the DEGs were classified into three gene ontology categories, and allocated to 225 KEGG pathways. Immune-related genes were detected from immune system pathways among the top 20 enriched pathways, such as Toll-like receptor signaling, RIG-I-like receptor signaling and NOD-like receptor signaling pathway. In addition, 56,079 potential simple sequence repeats (SSRs) and 1,031,521 candidate single nucleotide polymorphisms (SNPs) were detected and identified in the S. strictus transcriptome. Results of the present study will provide valuable theoretical resources for future genetic and genomic research on S. strictus. The research results will be helpful for improving the efficiency and quality of artificial breeding, establishing genetic linkage map, and enhancing health management for this species.
严格石鳖（Gould，1861）已被确认为东亚和东南亚重要的海洋经济双壳类动物。为了更好地了解严格石鳖的免疫系统及其对细菌感染的相关基因，我们通过 RNA-Seq 技术对严格石鳖与鳗弧菌进行了比较基因转录分析，同时研究了差异表达基因（DEGs）。组装后，共获得总长为 996bp 的 195774 条转录本。在 nr、Swiss-Prot、KEGG、COG、KOG、GO 和 Pfam 数据库中，共注释了 153038 个 unigenes，其中 56597 个 unigenes（36.98%）至少在一个数据库中注释。在细菌攻毒后，攻毒组和对照组之间有 1588 个显著差异表达基因（DEGs），其中 999 个上调，589 个下调。所有 DEGs 被分为三个基因本体类别，并分配到 225 个 KEGG 途径。在最富集的前 20 个途径中检测到与免疫系统途径相关的免疫相关基因，如 Toll 样受体信号、RIG-I 样受体信号和 NOD 样受体信号途径。此外，在严格石鳖转录组中检测到 56079 个潜在简单序列重复（SSR）和 1031521 个候选单核苷酸多态性（SNP）。本研究的结果将为未来严格石鳖的遗传和基因组研究提供有价值的理论资源。研究结果将有助于提高该物种的人工养殖效率和质量，建立遗传连锁图谱，并加强健康管理。
