TY - JOUR
T1 - High-Quality Genome Assembly of Eriocheir japonica sinensis Reveals Its Unique Genome Evolution
AU - Tang, Boping
AU - Wang, Zhongkai
AU - Liu, Qiuning
AU - Zhang, Huabin
AU - Jiang, Senhao
AU - Li, Xinzheng
AU - Wang, Zhengfei
AU - Sun, Yue
AU - Sha, Zhongli
AU - Jiang, Hui
AU - Wu, Xugan
AU - Ren, Yandong
AU - Li, Haorong
AU - Xuan, Fujun
AU - Ge, Baoming
AU - Jiang, Wei
AU - She, Shusheng
AU - Sun, Hongying
AU - Qiu, Qiang
AU - Wang, Wen
AU - Wang, Qun
AU - Qiu, Gaofeng
AU - Zhang, Daizhen
AU - Li, Yongxin
N1 - Publisher Copyright:
© Copyright © 2020 Tang, Wang, Liu, Zhang, Jiang, Li, Wang, Sun, Sha, Jiang, Wu, Ren, Li, Xuan, Ge, Jiang, She, Sun, Qiu, Wang, Wang, Qiu, Zhang and Li.
PY - 2020/1/17
Y1 - 2020/1/17
N2 - As an important freshwater aquaculture species in China, the Chinese mitten crab (Eriocheir japonica sinensis) has high economic and nutritional value. However, limited genomic information is currently available for studying its basic development and genetic diversity. Here, we performed whole-genome sequencing on Oxford Nanopore Technologies Limited's platform using promethION. The assembled size of E. j.sinensis genome was approximately 1.27 Gb, which is close to the estimated size (1.19 Gb). Furthermore, based on assessment using Benchmarking Universal Single-Copy Orthologs (BUSCO) (Simao et al., 2015), 94.00% of the expected eukaryotic genes were completely present in the genome assembly. In addition, repetitive sequences accounted for ~61.42% of the assembled genome, and 22,619 protein-coding genes were annotated. Comparative genomics analysis demonstrated that the Chinese mitten crab diverged from Penaeus vannamei ~373.6 million years ago, with a faster evolution rate than shrimp. We anticipate that the annotated high-quality genome of E. j. sinensis will promote research on its basic development and evolution and make substantial contributions to comparative genomic analyses of crustaceans.
AB - As an important freshwater aquaculture species in China, the Chinese mitten crab (Eriocheir japonica sinensis) has high economic and nutritional value. However, limited genomic information is currently available for studying its basic development and genetic diversity. Here, we performed whole-genome sequencing on Oxford Nanopore Technologies Limited's platform using promethION. The assembled size of E. j.sinensis genome was approximately 1.27 Gb, which is close to the estimated size (1.19 Gb). Furthermore, based on assessment using Benchmarking Universal Single-Copy Orthologs (BUSCO) (Simao et al., 2015), 94.00% of the expected eukaryotic genes were completely present in the genome assembly. In addition, repetitive sequences accounted for ~61.42% of the assembled genome, and 22,619 protein-coding genes were annotated. Comparative genomics analysis demonstrated that the Chinese mitten crab diverged from Penaeus vannamei ~373.6 million years ago, with a faster evolution rate than shrimp. We anticipate that the annotated high-quality genome of E. j. sinensis will promote research on its basic development and evolution and make substantial contributions to comparative genomic analyses of crustaceans.
KW - Eriocheir japonica sinensis
KW - crab
KW - evolution
KW - genome assembly and annotation
KW - nanopore
UR - https://www.scopus.com/pages/publications/85079011144
U2 - 10.3389/fgene.2019.01340
DO - 10.3389/fgene.2019.01340
M3 - 文章
AN - SCOPUS:85079011144
SN - 1664-8021
VL - 10
JO - Frontiers in Genetics
JF - Frontiers in Genetics
M1 - 1340
ER -