A chromosome-level genome assembly of the oriental river prawn, Macrobrachium nipponense

被引：35
|
作者：
Jin, Shubo [1 ]
Bian, Chao [2 ]
Jiang, Sufei [1 ]
Han, Kai [3 ]
Xiong, Yiwei [1 ]
Zhang, Wenyi [1 ]
Shi, Chengcheng [3 ]
Qiao, Hui [1 ]
Gao, Zijian [2 ]
Li, Ruihan [2 ]
Huang, Yu [2 ]
Gong, Yongsheng [1 ]
You, Xinxin [2 ]
Fan, Guangyi [3 ]
Shi, Qiong [2 ]
Fu, Hongtuo [1 ]
机构：
[1] Chinese Acad Fishery Sci, Key Lab Freshwater Fisheries & Germplasm Resourc, Minist Agr, Freshwater Fisheries Res Ctr, Wuxi 214081, Jiangsu, Peoples R China
[2] BGI, Shenzhen Key Lab Marine Genom, Guangdong Prov Key Lab Mol Breeding Marine Econ A, BGI Acad Marine Sci,BGI Marine, Shenzhen 518083, Peoples R China
[3] BGI Shenzhen, BGI Qingdao, Qingdao 266555, Peoples R China
来源：
GIGASCIENCE | 2021年 / 10卷 / 01期
基金：
国家重点研发计划;
关键词：
Macrobrachium nipponense; Chromosome-level genome; Evolutionary analysis; Genome duplication; Candidate sex-related genes; FRESH-WATER PRAWN; EXPRESSION ANALYSIS; MOLECULAR-CLONING; GENE; DATABASE; TOOL; PREDICTION; PROVIDES; PROGRAM; PACKAGE;
D O I：
10.1093/gigascience/giaa160
中图分类号：
Q [生物科学];
学科分类号：
07 ; 0710 ; 09 ;
摘要：
Background: The oriental river prawn, Macrobrachium nipponense, is an economically important shrimp in China. Male prawns have higher commercial value than females because the former grow faster and reach larger sizes. It is therefore important to reveal sex-differentiation and development mechanisms of the oriental river prawn to enable genetic improvement. Results: We sequenced 293.3 Gb of raw Illumina short reads and 405.7 Gb of Pacific Biosciences long reads. The final whole-genome assembly of the Oriental river prawn was similar to 4.5 Gb in size, with predictions of 44,086 protein-coding genes. A total of 49 chromosomes were determined, with an anchor ratio of 94.7% and a scaffold N50 of 86.8 Mb. A whole-genome duplication event was deduced to have happened 109.8 million years ago. By integration of genome and transcriptome data, 21 genes were predicted as sex-related candidate genes. Conclusion: The first high-quality chromosome-level genome assembly of the oriental river prawn was obtained. These genomic data, along with transcriptome sequences, are essential for understanding sex-differentiation and development mechanisms in the oriental river prawn, as well as providing genetic resources for in-depth studies on developmental and evolutionary biology in arthropods.
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页数：9
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