文献类型：期刊文献

英文题名：A high-quality chromosome-level genome of wild Rosa rugosa

作者：Zang, Fengqi[1,2] Ma, Yan[3] Tu, Xiaolong[4] Huang, Ping[1,2] Wu, Qichao[3] Li, Zhimin[4] Liu, Tao[4] Lin, Furong[1,2] Pei, Surui[4] Zang, Dekui[3] Zhang, Xuemei[4] Zheng, Yongqi[1,2] Yu, Yunyan[3]

第一作者：Zang, Fengqi

通信作者：Zheng, YQ[1];Zheng, YQ[2];Yu, YY[3]

机构：[1]Chinese Acad Forestry, State Key Lab Tree Genet & Breeding, Beijing 100091, Peoples R China;[2]Chinese Acad Forestry, Res Inst Forestry, Key Lab Forest Silviculture & Tree Cultivat Natl, Beijing 100091, Peoples R China;[3]Shandong Agr Univ, Coll Forestry, Key Lab State Forestry Adm Silviculture Lower Yel, Tai An 271018, Shandong, Peoples R China;[4]Annord Gene Technol Beijing Co Ltd, Beijing 100176, Peoples R China

年份：2021

卷号：28

期号：5

外文期刊名：DNA RESEARCH

收录：;WOS:【SCI-EXPANDED(收录号:WOS:000743562600005)】；

基金：This study was invested by the Shandong Agricultural Seeds Engineering Project (2019LZGC01802), National Natural Science Foundation of China (31870688), and the National Center for Forestry and Grassland Genetic Resources (NCFGGR-2020). There was no additional external funding received for this study.

语种：英文

外文关键词：Rosa rugosa; genome sequencing; Hi-C assembly; genome annotation; chromosome synteny

摘要：Rosa rugosa is an important shrub with economic, ecological, and pharmaceutical value. A high-quality chromosome-scale genome for R. rugosa sequences was assembled using PacBio and Hi-C technologies. The final assembly genome sequences size was about 407.1 Mb, the contig N50 size was 2.85 Mb, and the scaffold N50 size was 56.6 Mb. More than 98% of the assembled genome sequences were anchored to seven pseudochromosomes (402.9Mb). The genome contained 37,512 protein-coding genes, with 37,016 genes (98.68%) that were functionally annotated, and 206.67 Mb (50.76%) of the assembled sequences are repetitive sequences. Phylogenetic analyses indicated that R. rugosa diverged from Rosa chinensis similar to 6.6 million years ago, and no lineage-specific whole-genome duplication event occurred after divergence from R. chinensis. Chromosome synteny analysis demonstrated highly conserved synteny between R. rugosa and R. chinensis, between R. rugosa and Prunus persica as well. Comparative genome and transcriptome analysis revealed genes related to colour, scent, and environment adaptation. The chromosome-level reference genome provides important genomic resources for molecular-assisted breeding and horticultural comparative genomics research.