数字农科院2.0

The pan-genome and local adaptation of Arabidopsis thaliana

文献类型： 外文期刊

作者： Minghui Kang;Haolin Wu;Huanhuan Liu;Wenyu Liu;Mingjia Zhu;Yu Han;Wei Liu;Chunlin Chen;Yan Song;Luna Tan;Kangqun Yin;Yusen Zhao;Zhen Yan;Shangling Lou;Yanjun Zan;Jianquan Liu

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期刊名称： Nature Communications

ISSN： 2041-1723

年卷期： 2023 年 14 卷 1 期

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收录情况： SCIE（2023版）

摘要： Arabidopsis thaliana serves as a model species for investigating various aspects of plant biology. However, the contribution of genomic structural variations (SVs) and their associate genes to the local adaptation of this widely distribute species remains unclear. Here, we de novo assemble chromosome-level genomes of 32 A. thaliana ecotypes and determine that variable genes expand the gene pool in different ecotypes and thus assist local adaptation. We develop a graph-based pan-genome and identify 61,332 SVs that overlap with 18,883 genes, some of which are highly involved in ecological adaptation of this species. For instance, we observe a specific 332 bp insertion in the promoter region of the HPCA1 gene in the Tibet-0 ecotype that enhances gene expression, thereby promotes adaptation to alpine environments. These findings augment our understanding of the molecular mechanisms underlying the local adaptation of A. thaliana across diverse habitats.

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