气候变化领域集成服务门户(CCPortal): Chromosome-Level Genome Assembly Provides New Insights into Genome Evolution and Tuberous Root Formation of Potentilla anserina

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DOI	10.3390/genes12121993
	Chromosome-Level Genome Assembly Provides New Insights into Genome Evolution and Tuberous Root Formation of Potentilla anserina
	Gan, Xiaolong; Li, Shiming; Zong, Yuan; Cao, Dong; Li, Yun; Liu, Ruijuan; Cheng, Shu; Liu, Baolong; Zhang, Huaigang
通讯作者	Zhang, HG (通讯作者)，Univ Chinese Acad Sci, Beijing 100049, Peoples R China. ; Zhang, HG (通讯作者)，Chinese Acad Sci, Northwest Inst Plateau Biol, Key Lab Adaptat & Evolut Plateau Biota, Xining 810008, Peoples R China. ; Zhang, HG (通讯作者)，Key Lab Crop Mol Breeding, Xining 810008, Peoples R China.
发表日期	2021
EISSN	2073-4425
卷号	12 期号:12
英文摘要	Potentilla anserina is a perennial stoloniferous plant with edible tuberous roots in Rosaceae, served as important food and medicine sources for Tibetans in the Qinghai-Tibetan Plateau (QTP), China, over thousands of years. However, a lack of genome information hindered the genetic study. Here, we presented a chromosome-level genome assembly using single-molecule long-read sequencing, and the Hi-C technique. The assembled genome was 454.28 Mb, containing 14 chromosomes, with contig N50 of 2.14 Mb. A total of 46,495 protein-coding genes, 169.74 Mb repeat regions, and 31.76 Kb non-coding RNA were predicted. P. anserina diverged from Potentilla micrantha similar to 28.52 million years ago (Mya). Furthermore, P. anserina underwent a recent tetraploidization similar to 6.4 Mya. The species-specific genes were enriched in Starch and sucrose metabolism and Galactose metabolism pathways. We identified the sub-genome structures of P. anserina, with A sub-genome was larger than B sub-genome and closer to P. micrantha phylogenetically. Despite lacking significant genome-wide expression dominance, the A sub-genome had higher homoeologous gene expression in shoot apical meristem, flower and tuberous root. The resistance genes was contracted in P. anserina genome. Key genes involved in starch biosynthesis were expanded and highly expressed in tuberous roots, which probably drives the tuber formation. The genomics and transcriptomics data generated in this study advance our understanding of the genomic landscape of P. anserina, and will accelerate genetic studies and breeding programs.
关键词	PHYLOGENETIC ANALYSIS WEB SERVER SEQUENCE ALIGNMENT PROGRAM ACCURATE TOOL
英文关键词	Potentilla anserina; allopolyploids; genome assembly; gene family; sub-genome expression dominance; starch metabolism
语种	英语
WOS研究方向	Genetics & Heredity
WOS类目	Genetics & Heredity
WOS记录号	WOS:000738099200001
来源期刊	GENES
来源机构	中国科学院西北生态环境资源研究院
文献类型	期刊论文
条目标识符	http://gcip.llas.ac.cn/handle/2XKMVOVA/254017
作者单位	[Gan, Xiaolong; Liu, Baolong; Zhang, Huaigang] Univ Chinese Acad Sci, Beijing 100049, Peoples R China; [Gan, Xiaolong; Zong, Yuan; Cao, Dong; Li, Yun; Liu, Ruijuan; Liu, Baolong; Zhang, Huaigang] Chinese Acad Sci, Northwest Inst Plateau Biol, Key Lab Adaptat & Evolut Plateau Biota, Xining 810008, Peoples R China; [Gan, Xiaolong; Zong, Yuan; Cao, Dong; Li, Yun; Liu, Ruijuan; Liu, Baolong; Zhang, Huaigang] Key Lab Crop Mol Breeding, Xining 810008, Peoples R China; [Li, Shiming; Cheng, Shu] BGI Shenzhen, Shenzhen 518083, Peoples R China; [Li, Shiming; Cheng, Shu] BGI Shenzhen, BGI Inst Appl Agr, Shenzhen 518120, Peoples R China
推荐引用方式 GB/T 7714	Gan, Xiaolong,Li, Shiming,Zong, Yuan,et al. Chromosome-Level Genome Assembly Provides New Insights into Genome Evolution and Tuberous Root Formation of Potentilla anserina[J]. 中国科学院西北生态环境资源研究院,2021,12(12).
APA	Gan, Xiaolong.,Li, Shiming.,Zong, Yuan.,Cao, Dong.,Li, Yun.,...&Zhang, Huaigang.(2021).Chromosome-Level Genome Assembly Provides New Insights into Genome Evolution and Tuberous Root Formation of Potentilla anserina.GENES,12(12).
MLA	Gan, Xiaolong,et al."Chromosome-Level Genome Assembly Provides New Insights into Genome Evolution and Tuberous Root Formation of Potentilla anserina".GENES 12.12(2021).