Centromere-Specific Retrotransposons and Very-Long-Chain Fatty Acid Biosynthesis in the Genome of Yellowhorn (Xanthoceras sorbifolium, Sapindaceae), an Oil-Producing Tree With Significant Drought Resistance

doi:10.3389/fpls.2021.766389

	Centromere-Specific Retrotransposons and Very-Long-Chain Fatty Acid Biosynthesis in the Genome of Yellowhorn (Xanthoceras sorbifolium, Sapindaceae), an Oil-Producing Tree With Significant Drought Resistance
	Liu, Hui ; Yan, Xue-Mei ; Wang, Xin-rui ; Zhang, Dong-Xu ; Zhou, Qingyuan 2; Shi, Tian-Le ; Jia, Kai-Hua ; Tian, Xue-Chan ; Zhou, Shan-Shan ; Zhang, Ren-Gang ; Yun, Quan-Zheng ; Wang, Qing 4; Xiang, Qiuhong ; Mannapperuma, Chanaka ; Van Zalen, Elena ; Street, Nathaniel R.; Porth, Ilga 6; El-Kassaby, Yousry A.; Zhao, Wei ; Wang, Xiao-Ru ; Guan, Wenbin ; Mao, Jian-Feng
	2021
发表期刊	FRONTIERS IN PLANT SCIENCE
ISSN	1664-462X
卷号	12
摘要	In-depth genome characterization is still lacking for most of biofuel crops, especially for centromeres, which play a fundamental role during nuclear division and in the maintenance of genome stability. This study applied long-read sequencing technologies to assemble a highly contiguous genome for yellowhorn (Xanthoceras sorbifolium), an oil-producing tree, and conducted extensive comparative analyses to understand centromere structure and evolution, and fatty acid biosynthesis. We produced a reference-level genome of yellowhorn, similar to 470 Mb in length with similar to 95% of contigs anchored onto 15 chromosomes. Genome annotation identified 22,049 protein-coding genes and 65.7% of the genome sequence as repetitive elements. Long terminal repeat retrotransposons (LTR-RTs) account for similar to 30% of the yellowhorn genome, which is maintained by a moderate birth rate and a low removal rate. We identified the centromeric regions on each chromosome and found enrichment of centromere-specific retrotransposons of LINE1 and Gypsy in these regions, which have evolved recently (similar to 0.7 MYA). We compared the genomes of three cultivars and found frequent inversions. We analyzed the transcriptomes from different tissues and identified the candidate genes involved in very-long-chain fatty acid biosynthesis and their expression profiles. Collinear block analysis showed that yellowhorn shared the gamma (gamma) hexaploidy event with Vitis vinifera but did not undergo any further whole-genome duplication. This study provides excellent genomic resources for understanding centromere structure and evolution and for functional studies in this important oil-producing plant.
关键词	yellowhorn centromere LINE1 Gypsy very-long-chain fatty acid
学科领域	Plant Sciences
DOI	10.3389/fpls.2021.766389
收录类别	SCI
语种	英语
WOS关键词	MULTIPLE SEQUENCE ALIGNMENT ; ARABIDOPSIS-THALIANA ; TRANSPOSABLE ELEMENTS ; PHYLOGENETIC ANALYSIS ; NERVONIC ACID ; ANNOTATION ; EVOLUTION ; DNA ; IDENTIFICATION ; TRANSCRIPTOME
WOS研究方向	Science Citation Index Expanded (SCI-EXPANDED)
WOS记录号	WOS:000726943000001
出版者	FRONTIERS MEDIA SA
文献子类	Article
出版地	LAUSANNE
作者邮箱	swlab@bjfu.edu.cn ; jianfeng.mao@bjfu.edu.cn
作品OA属性	gold, Green Published
引用统计	被引频次：7[WOS] [WOS记录] [WOS相关记录]
文献类型	期刊论文
条目标识符	http://ir.ibcas.ac.cn/handle/2S10CLM1/26793
专题	中科院北方资源植物重点实验室
作者单位	1.Beijing Forestry Univ, Coll Biol Sci & Technol, Natl Engn Lab Tree Breeding,Beijing Adv Innovat C, Minist Educ,Sch Ecol & Nat Conservat,Key Lab Gene, Beijing, Peoples R China 2.Shanxi Datong Univ, R&D Ctr, Protected Agr Technol, Datong, Peoples R China 3.Chinese Acad Sci, Inst Bot, Key Lab Plant Resources, Beijing, Peoples R China 4.Ori Shandong Gene Sci & Technol Co Ltd, Dept Bioinformat, Weifang, Peoples R China 5.Chinese Acad Forestry, Res Inst Forest Ecol Environm & Protect, Key Lab Forest Ecol & Environm, Natl Forestry & Grassland Adm, Beijing, Peoples R China 6.Mannapperuma, Chanaka; Van Zalen, Elena; Street, Nathaniel R.] Umea Univ, Umea Plant Sci Ctr, Dept Plant Physiol, Umea, Sweden 7.Univ Laval Quebec, Fac Foresterie Geog & Geomat, Dept Sci Bois & Foret, Quebec City, PQ, Canada 8.El-Kassaby, Yousry A.] Univ British Columbia, Fac Forestry, Dept Forest & Conservat Sci, Vancouver, BC, Canada 9.Umea Univ, Umea Plant Sci Ctr, Dept Ecol & Environm Sci, Umea, Sweden
推荐引用方式 GB/T 7714	Liu, Hui,Yan, Xue-Mei,Wang, Xin-rui,et al. Centromere-Specific Retrotransposons and Very-Long-Chain Fatty Acid Biosynthesis in the Genome of Yellowhorn (Xanthoceras sorbifolium, Sapindaceae), an Oil-Producing Tree With Significant Drought Resistance[J]. FRONTIERS IN PLANT SCIENCE,2021,12.
APA	Liu, Hui.,Yan, Xue-Mei.,Wang, Xin-rui.,Zhang, Dong-Xu.,Zhou, Qingyuan.,...&Mao, Jian-Feng.(2021).Centromere-Specific Retrotransposons and Very-Long-Chain Fatty Acid Biosynthesis in the Genome of Yellowhorn (Xanthoceras sorbifolium, Sapindaceae), an Oil-Producing Tree With Significant Drought Resistance.FRONTIERS IN PLANT SCIENCE,12.
MLA	Liu, Hui,et al."Centromere-Specific Retrotransposons and Very-Long-Chain Fatty Acid Biosynthesis in the Genome of Yellowhorn (Xanthoceras sorbifolium, Sapindaceae), an Oil-Producing Tree With Significant Drought Resistance".FRONTIERS IN PLANT SCIENCE 12(2021).

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