文献类型：期刊文献

英文题名：Pseudomolecule-level assembly of the Chinese oil tree yellowhorn (Xanthoceras sorbifolium) genome

作者：Bi, Quanxin[1,2,3] Zhao, Yang[1] Du, Wei[2,3] Lu, Ying[4,5] Gui, Lang[4,5] Zheng, Zhimin[6,7] Yu, Haiyan[1,8] Cui, Yifan[1] Liu, Zhi[6,7] Cui, Tianpeng[9] Cui, Deshi[9] Liu, Xiaojuan[1] Li, Yingchao[1] Fan, Siqi[1] Hu, Xiaoyu[1] Fu, Guanghui[1] Ding, Jian[2,3] Ruan, Chengjiang[2,3] Wang, Libing[1]

第一作者：Bi, Quanxin;毕泉鑫

通信作者：Wang, LB[1];Ruan, CJ[2];Ruan, CJ[3]

机构：[1]Chinese Acad Forestry, Res Inst Forestry, State Key Lab Tree Genet & Breeding, Beijing 100091, Peoples R China;[2]Dalian Minzu Univ, Key Lab Biotechnol & Bioresources Utilizat, State Ethn Affairs Commiss, Dalian 116600, Peoples R China;[3]Dalian Minzu Univ, Minist Educ, Dalian 116600, Peoples R China;[4]Shanghai Ocean Univ, Natl Demonstrat Ctr Expt Fisheries Sci Educ, Key Lab Explorat & Utilizat Aquat Genet Resources, Minist Educ, Shanghai 201306, Peoples R China;[5]Shanghai Ocean Univ, Minist Sci & Technol, Int Res Ctr Marine Biosci, Shanghai 201306, Peoples R China;[6]Northeast Forestry Univ, State Key Lab Tree Genet & Breeding, Harbin 150040, Heilongjiang, Peoples R China;[7]Northeast Forestry Univ, ASNESC, Key Lab Saline Alkali Vegetat Ecol Restorat SAVER, Minist Educ, Harbin 150040, Heilongjiang, Peoples R China;[8]Beijing ABT Biotechnol Co Ltd, Beijing 102200, Peoples R China;[9]Zhangwu Deya Yellowhorn Profess Cooperat, Zhangwu 123200, Peoples R China

年份：2019

卷号：8

期号：6

外文期刊名：GIGASCIENCE

收录：;Scopus(收录号：2-s2.0-85068854844);WOS:【SCI-EXPANDED(收录号:WOS:000475755000017)】；

基金：This work was financially supported by the Central Public-Interest Scientific Institution Basal Research Fund (CAFYBB2019QD001), the National "12th Five-Year" Plan for Science & Technology Support of China (2015BAD07B0106), the National Natural Science Foundation of China (31800571, 31870594, 31760213), the National Key Research and Development Plan of China (2016YFC050080506) and Key Research Development Program of Liaoning Province (2017204001).

语种：英文

外文关键词：Xanthoceras sorbifolium; yellowhorn; PacBio sequencing; genome assembly; Hi-C; genome annotation; conserved chromosome

摘要：Background: Yellowhorn (Xanthoceras sorbifolium) is a species of the Sapindaceae family native to China and is an oil tree that can withstand cold and drought conditions. A pseudomolecule-level genome assembly for this species will not only contribute to understanding the evolution of its genes and chromosomes but also bring yellowhorn breeding into the genomic era. Findings: Here, we generated 15 pseudomolecules of yellowhorn chromosomes, on which 97.04% of scaffolds were anchored, using the combined Illumina HiSeq, Pacific Biosciences Sequel, and Hi-C technologies. The length of the final yellowhorn genome assembly was 504.2 Mb with a contig N50 size of 1.04 Mb and a scaffold N50 size of 32.17 Mb. Genome annotation revealed that 68.67% of the yellowhorn genome was composed of repetitive elements. Gene modelling predicted 24,672 protein-coding genes. By comparing orthologous genes, the divergence time of yellowhorn and its close sister species longan (Dimocarpus longan) was estimated at similar to 33.07 million years ago. Gene cluster and chromosome synteny analysis demonstrated that the yellowhorn genome shared a conserved genome structure with its ancestor in some chromosomes. Conclusions: This genome assembly represents a high-quality reference genome for yellowhorn. Integrated genome annotations provide a valuable dataset for genetic and molecular research in this species. We did not detect whole-genome duplication in the genome. The yellowhorn genome carries syntenic blocks from ancient chromosomes. These data sources will enable this genome to serve as an initial platform for breeding better yellowhorn cultivars.