干旱区生态环境知识资源中心(Arid): A chromosome-level genome assembly provides insights into the local adaptation of Tamarix austromongolica in the Yellow River Basin, China

Arid

DOI	10.1093/dnares/dsae021
	A chromosome-level genome assembly provides insights into the local adaptation of Tamarix austromongolica in the Yellow River Basin, China
	Gong, Shuai; Gan, Honghao; Chu, Jianmin; Wang, Zhaoshan; Sun, Jia
通讯作者	Chu, JM
来源期刊	DNA RESEARCH
ISSN	1340-2838
EISSN	1756-1663
出版年	2024
卷号	31 期号:4
英文摘要	Tamarix austromongolica is endemic to the Yellow River Basin and has adapted to diverse ecological settings in the region, including the arid areas of northwestern China and the saline soil regions of the Yellow River Delta. However, the genetic basis of its local adaptation remains unclear. We report a chromosome-level assembly of the T. austromongolica genome based on PacBio high-fidelity sequencing and Hi-C technology. The 12 pseudochromosomes cover 98.44% of the 1.32 Gb assembly, with a contig N50 of 52.57 Mb and a BUSCO score of 98.2%. The genome comprises 913.6 Mb (68.83%) of repetitive sequences and 22,374 protein-coding genes. Genome evolution analyses suggest that genes under positive selection and significantly expanded gene families have facilitated T. austromongolica's adaptability to diverse environmental factors and high resistance to diseases. Using genotyping-by-sequencing, we conducted population structure and selection analyses of 114 samples from 15 sites. Two genetic groups were identified, and 114 and 289 candidate genes were assigned to the populations of the northwestern and eastern parts of the Yellow River, respectively. Furthermore, we discovered numerous candidate genes associated with high-altitude adaptability and salt tolerance. This research provides valuable genomic resources for the evolutionary study and genetic breeding of tamarisk.
英文关键词	Tamarix austromongolica chromosome-level genome assembly population genetics local adaptation
类型	Article
语种	英语
开放获取类型	gold
收录类别	SCI-E
WOS记录号	WOS:001285472300001
WOS关键词	HI-C ; PHYLOGENETIC ANALYSIS ; OXIDATIVE STRESS ; PROTEIN ; ANNOTATION ; ALIGNMENT ; TOOL ; VISUALIZATION ; CONSERVATION ; CHLOROPLAST
WOS类目	Genetics & Heredity
WOS研究方向	Genetics & Heredity
资源类型	期刊论文
条目标识符	http://119.78.100.177/qdio/handle/2XILL650/403302
推荐引用方式 GB/T 7714	Gong, Shuai,Gan, Honghao,Chu, Jianmin,et al. A chromosome-level genome assembly provides insights into the local adaptation of Tamarix austromongolica in the Yellow River Basin, China[J],2024,31(4).
APA	Gong, Shuai,Gan, Honghao,Chu, Jianmin,Wang, Zhaoshan,&Sun, Jia.(2024).A chromosome-level genome assembly provides insights into the local adaptation of Tamarix austromongolica in the Yellow River Basin, China.DNA RESEARCH,31(4).
MLA	Gong, Shuai,et al."A chromosome-level genome assembly provides insights into the local adaptation of Tamarix austromongolica in the Yellow River Basin, China".DNA RESEARCH 31.4(2024).