DataSheet_1_Nanopore Sequencing and De Novo Assembly of a Black-Shelled Pacific Oyster (Crassostrea gigas) Genome.docx

• Main Authors: Xiaotong Wang, Wenjie Xu, Lei Wei, Chenglong Zhu, Cheng He, Hongce Song, Zhongqiang Cai, Wenchao Yu, Qiuyun Jiang, Lingling Li, Kun Wang, Chenguang Feng
• Format: Dataset
• Language: unknown
• Published: 2019
• Subjects: Genetics; Genetic Engineering; Biomarkers; Developmental Genetics (incl. Sex Determination); Epigenetics (incl. Genome Methylation and Epigenomics); Gene Expression (incl. Microarray and other genome-wide approaches); Genome Structure and Regulation; Genomics; Genetically Modified Animals; Livestock Cloning; Gene and Molecular Therapy; Crassostrea gigas; black-shelled pacific oyster; evolution; genome assembly; nanopore sequencing; Pacific; Pacific oyster
• Online Access: https://doi.org/10.3389/fgene.2019.01211.s001; https://figshare.com/articles/DataSheet_1_Nanopore_Sequencing_and_De_Novo_Assembly_of_a_Black-Shelled_Pacific_Oyster_Crassostrea_gigas_Genome_docx/10766573

The Pacific oyster, Crassostrea gigas, belongs to one of the most species-rich phyla and provides important ecological and economical services. Here we present a genome assembly for a variety of this species, black-shelled Pacific oyster, using a combination of 61.8 Gb Nanopore long reads and 105.6 Gb raw BGI-seq short reads. The genome assembly comprised 3,676 contigs, with a total length of 587 Mb and a contig N50 of 581 kb. Annotation of the genome assembly identified 283 Mb (48.32%) of repetitive sequences and a total of 26,811 protein-coding genes. A long-term transposable element active, accompanied by recent expansion (1 million years ago), was detected in this genome. The divergence between black-shelled and the previous published Pacific oysters was estimated at about 2.2 million years ago, which implies that species C. gigas had great intraspecific genetic variations. Moreover, we identified 148/188 specifically expanded/contracted gene families in this genome. We believe this genome assembly will be a valuable resource for understanding the genetic breeding, conservation, and evolution of oysters and bivalves.