De novo genome assembly of a high-protein soybean variety HJ117

文献类型： 外文期刊

第一作者： Liu, Zhi

作者： Liu, Zhi;Yang, Qing;Liu, Bingqiang;Li, Chenhui;Shi, Xiaolei;Wei, Yu;Yang, Chunyan;Zhang, Mengchen;Yan, Long;Li, Chenhui;Guan, Yuefeng

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关键词： Soybean; De novo assembly; Genome feature; High protein content

期刊名称：BMC GENOMIC DATA （ 影响因子：1.9； 五年影响因子：1.9 ）

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年卷期： 2024 年 25 卷 1 期

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收录情况： SCI

摘要： ObjectivesSoybean is an important feed and oil crop in the world due to its high protein and oil content. China has a collection of more than 43,000 soybean germplasm resources, which provides a rich genetic diversity for soybean breeding. However, the rich genetic diversity poses great challenges to the genetic improvement of soybean. This study reports on the de novo genome assembly of HJ117, a soybean variety with high protein content of 52.99%. These data will prove to be valuable resources for further soybean quality improvement research, and will aid in the elucidation of regulatory mechanisms underlying soybean protein content.Data descriptionWe generated a contiguous reference genome of 1041.94 Mb for HJ117 using a combination of Illumina short reads (23.38 Gb) and PacBio long reads (25.58 Gb), with high-quality sequence coverage of approximately 22.44x and 24.55x, respectively. HJ117 was developed through backcross breeding, using Jidou 12 as the recurrent parent and Chamoshidou as the donor parent. The assembly was further assisted by 114.5 Gb Hi-C data (109.9x), resulting in a contig N50 of 19.32 Mb and scaffold N50 of 51.43 Mb. Notably, Core Eukaryotic Genes Mapping Approach (CEGMA) assessment and Benchmarking Universal Single-Copy Orthologs (BUSCO) assessment results indicated that most core eukaryotic genes (97.18%) and genes in the BUSCO dataset (99.4%) were identified, and 96.44% of the genomic sequences were anchored onto twenty pseudochromosomes.

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