文献类型：期刊文献

英文题名：The chromosome-level draft genome of Dalbergia odorifera

作者：Hong, Zhou[1] Li, Jiang[2] Liu, Xiaojin[1] Lian, Jinmin[2] Zhang, Ningnan[1] Yang, Zengjiang[1] Niu, Yongchao[2] Cui, Zhiyi[1] Xu, Daping[1]

第一作者：洪舟

通信作者：Xu, DP[1]

机构：[1]Chinese Acad Forestry, Res Inst Trop Forestry, State Key Lab Tree Genet & Breeding, Guangzhou 510520, Peoples R China;[2]Biozeron Shenzhen Inc, Shenzhen 518000, Peoples R China

年份：2020

卷号：9

期号：8

外文期刊名：GIGASCIENCE

收录：;Scopus(收录号：2-s2.0-85089647636);WOS:【SCI-EXPANDED(收录号:WOS:000569172100007)】；

基金：This work was supported by the Fundamental Research Funds for the Central Non-profit Research Institution of Chinese Academy of Forestry(CAFYBB2017ZX001-4, CAFYBB2016QB009, CAFYBB2017SY021), National Natural Science Foundation of China (31500537), and the National Key Research and Development Program of China (2016YFD0600601).

语种：英文

外文关键词：Dalbergia odorifera T. Chen; de novo sequencing; chromosome-level genome assembly; annotation; phylogeny

摘要：Background: Dalbergia odorifera T. Chen (Fabaceae) is an International Union for Conservation of Nature red-listed tree. This tree is of high medicinal and commercial value owing to its officinal, insect-proof, durable heartwood. However, there is a lack of genome reference, which has hindered development of studies on the heartwood formation. Findings: We presented the first chromosome-scale genome assembly of D. odorifera obtained on the basis of Illumina paired-end sequencing, Pacific Biosciences single-molecule real-time sequencing, 10x Genomics linked reads, and Hi-C technology. We assembled 97.68% of the 653.45 Mb D. odorifera genome with scaffold N50 and contig sizes of 56.16 and 5.92 Mb, respectively. Ten super-scaffolds corresponding to the 10 chromosomes were assembled, with the longest scaffold reaching 79.61 Mb. Repetitive elements account for 54.17% of the genome, and 30,310 protein-coding genes were predicted from the genome, of which similar to 92.6% were functionally annotated. The phylogenetic tree showed that D. odorifera diverged from the ancestor of Arabidopsis thaliana and Populus trichocarpa and then separated from Glycine max and Cajanus cajan. Conclusions: We sequence and reveal the first chromosome-level de novo genome of D. odorifera. These studies provide valuable genomic resources for the research of heartwood formation in D. odorifera and other timber trees. The high-quality assembled genome can also be used as reference for comparative genomics analysis and future population genetic studies of D. odorifera.