Science China Life Sciences
Abstract
Soybean was domesticated in China and has become one of the most important oilseed crops. Due to bottlenecks in their introduction and dissemination, soybeans from different geographic areas exhibit extensive genetic diversity. Asia is the largest soybean market; therefore, a high-quality soybean reference genome from this area is critical for soybean research and breeding. Here, we report thede novoassembly and sequence analysis of a Chinese soybean genome for “Zhonghuang 13” by a combination of SMRT, Hi-C and optical mapping data. The assembled genome size is 1.025 Gb with a contig N50 of 3.46 Mb and a scaffold N50 of 51.87 Mb. Comparisons between this genome and the previously reported reference genome (cv. Williams 82) uncovered more than 250,000 structure variations. A total of 52,051 protein coding genes and 36,429 transposable elements were annotated for this genome, and a gene co-expression network including 39,967 genes was also established. This high quality Chinese soybean genome and its sequence analysis will provide valuable information for soybean improvement in the future.
论文编号: | DOI:10.1007/s11427-018-9360-0 |
论文题目: | De Novo Assembly of a Chinese Soybean Genome |
英文论文题目: | De Novo Assembly of a Chinese Soybean Genome |
第一作者: | Shen Yanting, Liu Jing, Geng Haiying, Zhang Jixiang, Liu Yucheng, Zhang Haikuan, Xing Shilai, Du Jianchang, Ma Shisong, and Tian Zhixi |
英文第一作者: | Shen Yanting, Liu Jing, Geng Haiying, Zhang Jixiang, Liu Yucheng, Zhang Haikuan, Xing Shilai, Du Jianchang, Ma Shisong, and Tian Zhixi |
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发表年度: | 2018-07-30 |
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摘要: | Soybean was domesticated in China and has become one of the most important oilseed crops. Due to bottlenecks in their introduction and dissemination, soybeans from different geographic areas exhibit extensive genetic diversity. Asia is the largest soybean market; therefore, a high-quality soybean reference genome from this area is critical for soybean research and breeding. Here, we report thede novoassembly and sequence analysis of a Chinese soybean genome for “Zhonghuang 13” by a combination of SMRT, Hi-C and optical mapping data. The assembled genome size is 1.025 Gb with a contig N50 of 3.46 Mb and a scaffold N50 of 51.87 Mb. Comparisons between this genome and the previously reported reference genome (cv. Williams 82) uncovered more than 250,000 structure variations. A total of 52,051 protein coding genes and 36,429 transposable elements were annotated for this genome, and a gene co-expression network including 39,967 genes was also established. This high quality Chinese soybean genome and its sequence analysis will provide valuable information for soybean improvement in the future. |
英文摘要: | Soybean was domesticated in China and has become one of the most important oilseed crops. Due to bottlenecks in their introduction and dissemination, soybeans from different geographic areas exhibit extensive genetic diversity. Asia is the largest soybean market; therefore, a high-quality soybean reference genome from this area is critical for soybean research and breeding. Here, we report thede novoassembly and sequence analysis of a Chinese soybean genome for “Zhonghuang 13” by a combination of SMRT, Hi-C and optical mapping data. The assembled genome size is 1.025 Gb with a contig N50 of 3.46 Mb and a scaffold N50 of 51.87 Mb. Comparisons between this genome and the previously reported reference genome (cv. Williams 82) uncovered more than 250,000 structure variations. A total of 52,051 protein coding genes and 36,429 transposable elements were annotated for this genome, and a gene co-expression network including 39,967 genes was also established. This high quality Chinese soybean genome and its sequence analysis will provide valuable information for soybean improvement in the future. |
刊物名称: | Science China Life Sciences |
英文刊物名称: | Science China Life Sciences |
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其它备注: | Shen Yanting, Liu Jing, Geng Haiying, Zhang Jixiang, Liu Yucheng, Zhang Haikuan, Xing Shilai, Du Jianchang, Ma Shisong, and Tian Zhixi. De Novo Assembly of a Chinese Soybean Genome. Science China Life Sciences. DOI:10.1007/s11427-018-9360-0 |
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