A high-quality chromosome-level genome of wild Rosa rugosa
A high-quality chromosome-level genome of wild Rosa rugosa
复制标题
野生玫瑰的高质量染色体水平基因组
DOI：
10.1093/dnares/dsab017
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发表时间：
2021-09-09
期刊：
影响因子：
4.1
通讯作者：
Yu，Yunyan
中科院分区：
文献类型：
--
作者：
Zang，Fengqi;Ma，Yan;Yu，Yunyan
蔷薇是一种具有经济、生态和药用价值的重要灌木。高质量的r染色体基因组。基因序列采用PacBio和Hi-C技术进行组装。最终组装基因组序列大小约为407.1 Mb， contig N50大小为2.85 Mb， scaffold N50大小为56.6 Mb。98%以上的组装基因组序列锚定在7条假染色体上（402.9 Mb）。基因组共包含蛋白编码基因37512个，其中功能注释基因37016个（98.68%），其中206.67 Mb（50.76%）为重复序列。系统发育分析表明r。rugosa大约在660万年前从中国蔷薇（rosa chinensis）中分化出来，并且在与中国蔷薇（rosa chinensis）分化后没有发生谱系特异性的全基因组复制事件。对。染色体合性分析显示r之间的合性高度保守。rugosaandR。对,betweenR。还有山核桃和桃李。比较基因组和转录组分析揭示了与颜色、气味和环境适应相关的基因。染色体水平的参考基因组为分子辅助育种和园艺比较基因组学研究提供了重要的基因组资源。
Rosa rugosais an important shrub with economic, ecological, and pharmaceutical value. A high-quality chromosome-scale genome forR. rugosasequences 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 (402.9 Mb). 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 thatR. rugosadiverged fromRosa chinensis ∼6.6 million years ago, and no lineage-specific whole-genome duplication event occurred after divergence fromR. chinensis. Chromosome synteny analysis demonstrated highly conserved synteny betweenR. rugosaandR. chinensis, betweenR. rugosaandPrunus persicaas 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.