硬粒小麦品种兰登的染色体水平基因组组装

Chromosome-level genome assembly of the Durum wheat cultivar Langdon.

作者信息

Chen Mengen, Li Junlong, Zhang Yue, Ding Yanmeng, Qin Wenjie, Wu Mengyuan, Li Na, Jin Cuicui, Wang Huili, Chen Shuo, Niu Dun, Sun Xiao, Zhang Bingbing, Chen Shulin, Wang Zhiyong, Shi Cuilan, Zhang Kunpu, Wang Daowen, Dai Shoufen, Yan Zehong, Li Guangwei

机构信息

State Key Laboratory of High-Efficiency Production of Wheat-Maize Double Cropping, Henan Center for Crop genomics and Rice Engineering, College of Agronomy, Longzi Lake Campus, Henan Agricultural University, Zhengzhou, 450046, China.

National Wheat Engineering Research Center, College of Agronomy, Henan Agricultural University, Longzi Lake Campus, Zhengzhou, 450046, China.

出版信息

Sci Data. 2025 Aug 6;12(1):1372. doi: 10.1038/s41597-025-05724-z.

DOI:10.1038/s41597-025-05724-z

PMID:40769987

原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC12328727/

Abstract

Durum wheat (Triticum turgidum ssp. durum, 2n = 4x = 28, BBAA) is the second most cultivated lineage of wheat after hexaploid common wheat. Langdon is a prominent durum wheat cultivar, highly valued for its crucial role in the development of synthetic hexaploid wheat and its importance in agricultural research. Here, we present a high-quality chromosome-level genome assembly of Langdon using a combination of HiFi sequencing and high-throughput chromosome conformation capture (Hi-C) techniques. The total genome assembly size was 10.47 Gbp, with a benchmarking universal single-copy orthologs (BUSCO) score of 98.80%, consensus nucleotide quality value (QV) score of 50.31, long terminal repeat assembly index (LAI) value of 19.39, a scaffold N50 reached to 751.30 Mbp and a contig N50 value of 41.18 Mbp. Repetitive elements constituted 88.22% of the assembly, and 68,342 high confidence (HC) genes were annotated. The high-quality chromosome-level Langdon assembly can serve as a valuable reference for durum wheat, aiding gene research and comparative genomics, and leveraging synthetic hexaploid wheat's genetic resources to advance global wheat improvement.

摘要

硬粒小麦（Triticum turgidum ssp. durum，2n = 4x = 28，BBAA）是继六倍体普通小麦之后种植的第二大品系小麦。兰登是一个著名的硬粒小麦品种，因其在人工合成六倍体小麦培育过程中的关键作用以及在农业研究中的重要性而备受重视。在此，我们结合高保真测序和高通量染色体构象捕获（Hi-C）技术，展示了兰登高质量的染色体水平基因组组装。基因组组装的总大小为10.47 Gbp，基准通用单拷贝直系同源基因（BUSCO）得分98.80%，一致核苷酸质量值（QV）得分50.31，长末端重复序列组装指数（LAI）值19.39，支架N50达到751.30 Mbp，重叠群N50值41.18 Mbp。重复元件占组装序列的88.22%，共注释了68342个高可信度（HC）基因。高质量的染色体水平兰登组装可作为硬粒小麦的重要参考，有助于基因研究和比较基因组学，并利用人工合成六倍体小麦的遗传资源推动全球小麦改良。