Kim Bo-Mi, Ahn Do-Hwan, Kim Hyejin, Lee Jung Sick, Rhee Jae-Sung, Park Hyun
Unit of Polar Genomics, Korea Polar Research Institute, Incheon, 21990, South Korea.
Department of Aqualife Medicine, Chonnam National University, Yeosu, 59626, South Korea.
Genes Genomics. 2019 Feb;41(2):183-191. doi: 10.1007/s13258-018-0750-9. Epub 2018 Oct 10.
The purplish Washington clam (Saxidomus purpuratus) in the family Veneridae is distributed widely along the intertidal zones of northeast Asia and is increasingly being utilized as a commercially important food resource. Bivalves maintain homeostasis by regulating their food intake and digestion, innate immunity, and biotransformation in a mollusk-specific organ, the digestive gland. To understand digestive gland-specific pathways, we generated a high-quality de novo assembly of the digestive gland transcriptome of this clam using the Illumina Miseq platform. A total of 9.9 million raw reads were obtained and assembled using the Oases assembly platform, resulting in 27,358 contigs with an N50 of 433 bp. Functional gene annotations were performed using Gene Ontology, Eukaryotic Orthologous Groups, and Kyoto Encyclopedia of Genes and Genomes pathway analyses. In the transcriptome, many crucial genes involved in innate immunity and digestion metabolism were detected. A number of enzymes associated with drug metabolism were annotated, as much as that identified from the whole transcriptome of the Pacific oyster Crassostrea gigas. We provide valuable sequence information of S. purpuratus to predict functional understandings of the bivalve-specific digestive gland. This resource will be valuable for researchers comparing gene compositions and their expression levels in the digestive glands of bivalves.
紫华盛顿蛤（Saxidomus purpuratus）属于帘蛤科，广泛分布于东北亚的潮间带，并且越来越多地被用作具有重要商业价值的食物资源。双壳贝类通过调节食物摄入与消化、先天免疫以及在软体动物特有的消化腺中的生物转化来维持体内平衡。为了了解消化腺特异性途径，我们使用Illumina Miseq平台对这种蛤的消化腺转录组进行了高质量的从头组装。共获得990万个原始读数，并使用Oases组装平台进行组装，得到27358个重叠群，N50为433 bp。使用基因本体论、真核直系同源组和京都基因与基因组百科全书途径分析进行功能基因注释。在转录组中，检测到许多参与先天免疫和消化代谢的关键基因。注释了许多与药物代谢相关的酶，其数量与从太平洋牡蛎（Crassostrea gigas）的全转录组中鉴定出的数量一样多。我们提供了紫华盛顿蛤的有价值的序列信息，以预测对双壳贝类特异性消化腺的功能理解。该资源对于比较双壳贝类消化腺中基因组成及其表达水平的研究人员将是有价值的。
