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The Genome Sequence of Alpine Megacarpaea delavayi Identifies Species-Specific Whole-Genome Duplication.
Frontiers in Genetics ( IF 2.8 ) Pub Date : 2020-07-06 , DOI: 10.3389/fgene.2020.00812
Qiao Yang 1 , Hao Bi 1 , Wenjie Yang 1 , Ting Li 1 , Jiebei Jiang 1 , Lei Zhang 1 , Jianquan Liu 1, 2 , Quanjun Hu 1
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Megacarpaea delavayi (Brassicaceae), a plant found the high mountains of southwest China at high altitudes (3000–4800 m), is used as a vegetable or medicine. Here, we report a draft genome for this species. The assembly genome of M. delavayi is 883 Mb, and 61.59% of the genome is composed of repeat sequences. Annotation of the genome identified a total of 41,114 protein-coding genes. We found that M. delavayi experienced an independent whole-genome duplication (WGD), paralleling those independent WGDs in Iberis, Biscutella, and Anastatica in the early Miocene. Phylogenetic analyses based on the single-copy genes confirmed the position of the genus Megacarpaea within the expanded lineage II of the family and resolved its basal divergence to a subclade consisting of Anastatica, Iberis, and Biscutella. Species-specific and fast-evolving genes in M. delavayi are mainly involved in “DNA repair” and “response to UV-B radiation.” These genetic changes may together help this species survive in high-altitude environments. The reference genome reported here provides a valuable resource for studying adaptation of this and other alpine plants to the high-altitude habitats.

更新日期:2020-08-03
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