| Wang Yu,Zhang Shoudu,Zhang Guofan,Cong Rihao,Li Li. 2019. Molecular mechanism of inbreeding effects based on RNA-Seq analysis of the adductor muscle of bay scallop (Argopecten irradians). Acta Oceanologica Sinica, 38(2):44－51 |
| Molecular mechanism of inbreeding effects based on RNA-Seq analysis of the adductor muscle of bay scallop (Argopecten irradians) |
| 基于RNA-Seq技术的海湾扇贝闭壳肌近交衰退的分子机理研究 |
| Received:February 02, 2018 |
| DOI：10.1007/s13131-019-1351-4 |
| Key words:Argopecten irradians inbreeding depression differentially expressed genes transcriptome |
| 中文关键词: 海湾扇贝 近交衰退 差异表达基因 转录组 |
| 基金项目:The National Natural Science Foundation of China under contract Nos 30800842 and 31502164; the Program of the Chinese Academy of Science under contract No. ZKCX2-211; the Earmarked Fund for Modern Agro-industry Technology Research System under contract No. CARS-49. |
| Author Name | Affiliation | E-mail | | Wang Yu | CAS Key Laboratory of Experimental Marine Biology, Institute of Oceanology, Chinese Academy of Sciences, Qingdao 266071, China
Tianjin Bohai Sea Fisheries Research Institute, Tianjin 300457, China
Tianjin Ocean Ranch Technical Engineering Center, Tianjin 300457, China | | | Zhang Shoudu | National Oceanographic Center, Qingdao 266071, China | | | Zhang Guofan | CAS Key Laboratory of Experimental Marine Biology, Institute of Oceanology, Chinese Academy of Sciences, Qingdao 266071, China
Laboratory for Marine Biology and Biotechnology, Pilot National Laboratory for Marine Science and Technology(Qingdao), Qingdao 266071, China
Center for Ocean Mega-Science, Chinese Academy of Sciences, Qingdao 266071, China | | | Cong Rihao | CAS Key Laboratory of Experimental Marine Biology, Institute of Oceanology, Chinese Academy of Sciences, Qingdao 266071, China
Laboratory for Marine Biology and Biotechnology, Pilot National Laboratory for Marine Science and Technology(Qingdao), Qingdao 266071, China
Center for Ocean Mega-Science, Chinese Academy of Sciences, Qingdao 266071, China | rhcong@qdio.ac.cn | | Li Li | CAS Key Laboratory of Experimental Marine Biology, Institute of Oceanology, Chinese Academy of Sciences, Qingdao 266071, China
Center for Ocean Mega-Science, Chinese Academy of Sciences, Qingdao 266071, China | lili@qdio.ac.cn |
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| Abstract: |
| Understanding the effects of inbreeding is critical for the long-term viability of shellfish breeding and for understanding inbreeding depression (ID) of the offspring of selfed individuals and full-sib crosses. The bay scallop (Argopecten irradians) is a simultaneous hermaphroditic marine bivalve with distinct male and female gonads and is a species with external fertilization. It is a canonical model invertebrate for analysis of the genetics of ID and evolution of outcrossing mating system. ID in bivalves is well documented with regard to the phenotype and molecular markers aspects, but little is known on how inbreeding affects genome-wide gene expression. Here, we compare the gene expression profiles of adductor muscle of A. irradians lines inbred to F=0.5 with those of its counterpart outbred lines which are originated from the same paternal individual. Inbred and outbred individuals have some differences in growth traits. The shell length and the total weight of inbred scallops are lower than the counterpart of outbred lines. We found that 1 175 genes were up-regulated while 1 390 were down-regulated in inbred lines. Regarding components, differentially expressed genes (DEGs) were concentrated on sarcomeres, contractile filaments, and cell membranes. Among others, whereas regarding their function, the Gene Ontology (GO) was concentrated on transferase, phosphotransferase, peptidase, and others. The DEGs-enriched metabolic pathways mainly belonged to the oxidative phosphorylation pathway and apoptosis pathway. We used another two families to verify our bioinformatic results. The selfed and the outbred family originated from different ancestors, but the selfed family showed obvious ID. By using real-time quantitative reverse transcriptase polymerase chain reaction (qRT-PCR), we verified that DEGs with inbreeding are involved in the oxidative phosphorylation and cell apoptosis pathways, suggesting that inbreeding may affect energy metabolism and homeostasis. |
| 中文摘要: |
| 了解近交效应对评估贝类长期育种的可行性及分析自交和全同胞交配子代的近交衰退有重要意义。海湾扇贝是典型的性腺雌区与雄区严格分开的雌雄同体型海洋贝类，行体外受精。它是研究贝类遗传近交衰退和交配系统进化的一个模式物种。目前双壳贝类的近交衰退研究多集中在表型和分子标记等方面，但基因组表达层面的研究较少。本研究比较了亲本遗传背景相同的海湾扇贝近交系F=0.5和杂交系闭壳肌组织的基因表达。表型方面：近交系和杂交系在某些生长性状有差异，其中近交系的壳长和总重低于杂交系。基因表达方面：自交系有1175个基因表达量上调，1390个基因表达量下调。差异表达基因主要集中在肌原纤维、收缩纤维和细胞质膜等。GO功能富集主要集中在转移酶、磷酸酶、蛋白激酶和活性肽等方面。差异明显的通路主要集中在氧化磷酸化通路和细胞凋亡通路。利用独立亲本的近交系和杂交系采用qRT-PCR技术，验证了近交系的差异表达基因主要参与氧化磷酸化通路和细胞凋亡通路， 说明自交能影响能量代谢和自稳态。 |
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