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An improved draft genome sequence of hybridPopulus alba x Populus glandulosa

文献类型： 外文期刊

作者： Huang, Xiong 1 ; Chen, Song 3 ; Peng, Xiaopeng 2 ; Bae, Eun-Kyung 4 ; Dai, Xinren 1 ; Liu, Guiming 5 ; Qu, Guanzheng 3 ;

作者机构： 1.Chinese Acad Forestry, State Key Lab Tree Genet & Breeding, Beijing 100091, Peoples R China

2.Chinese Acad Forestry, Res Inst Forestry, Beijing 100091, Peoples R China

3.Northeast Forestry Univ, State Key Lab Tree Genet & Breeding, Harbin 150040, Peoples R China

4.Natl Inst Forest Sci, Div Forest Biotechnol, Suwon 441847, South Korea

5.Beijing Acad Agr & Forestry Sci, Agrobiotechnol Res Ctr, Beijing 100097, Peoples R China

6.Kyung Hee Univ, Dept Plant & Environm New Resources, Yongin 446701, South Korea

关键词： Genome assembly; Gene annotation; Hybrid poplar; Populus alba x p; glandulosacl; 84 K

期刊名称：JOURNAL OF FORESTRY RESEARCH （ 影响因子：2.149； 五年影响因子：1.877 ）

ISSN： 1007-662X

年卷期：

页码：

收录情况： SCI

摘要： Populus alba x P. glandulosaclone 84 K, derived from South Korea, is widely cultivated in China and used as a model in the molecular research of woody plants because of high gene transformation efficiency. Here, we combined 63-fold coverage Illumina short reads and 126-fold coverage PacBio long reads to assemble the genome. Due to the high heterozygosity level at 2.1% estimated byk-mer analysis, we exploited TrioCanu for genome assembly. The PacBio clean subreads ofP. alba x P. glandulosawere separated into two parts according to the similarities, compared with the parental genomes ofP. albaandP. glandulosa. The two parts of the subreads were assembled to two sets of subgenomes comprising subgenome A (405.31 Mb, fromP. alba) and subgenome G (376.05 Mb, fromP. glandulosa) with the contig N50 size of 5.43 Mb and 2.15 Mb, respectively. A high-qualityP. alba x P. glandulosagenome assembly was obtained. The genome size was 781.36 Mb with the contig N50 size of 3.66 Mb and the longest contig was 19.47 Mb. In addition, a total of 176.95 Mb (43.7%), 152.37 Mb (40.5%) of repetitive elements were identified and a total of 38,701 and 38,449 protein-coding genes were predicted in subgenomes A and G, respectively. For functional annotation, 96.98% of subgenome A and 96.96% of subgenome G genes were annotated with public databases. This de novo assembled genome will facilitate systematic and comprehensive study, such as multi-omics analysis, in the model treeP. alba x P. glandulosa.

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