A single‐population GWAS identified AtMATE expression level polymorphism caused by promoter variants is associated with variation in aluminum tolerance in a local Arabidopsis population
A single‐population GWAS identified AtMATE expression level polymorphism caused by promoter variants is associated with variation in aluminum tolerance in a local Arabidopsis population
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DOI：
10.1002/pld3.250
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发表时间：
2020-08
期刊：
影响因子：
3
通讯作者：
Yuki Nakano;Kazutaka Kusunoki;Haruka Maruyama;Takuo Enomoto;Mutsutomo Tokizawa;S. Iuchi;Masatomo Kobayashi-Masatom
中科院分区：
文献类型：
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作者：
Yuki Nakano;Kazutaka Kusunoki;Haruka Maruyama;Takuo Enomoto;Mutsutomo Tokizawa;S. Iuchi;Masatomo Kobayashi-Masatom
摘要铝胁迫下植物根系释放有机酸（OA），使植物对铝产生耐受性，这种耐受性受OA转运蛋白ALMT（Al激活的苹果酸转运蛋白）和多药毒性化合物外排蛋白（MATE）的调控。我们以前曾报道，AtALMT1的表达水平多态性（ELP）是强烈相关的拟南芥自然加入之间的铝耐受性的变化。然而，尽管AtMATE也在铝暴露后表达，并有助于铝耐受性，但AtMATE是否有助于铝耐受性的变化以及ELP的分子机制尚不清楚。在这里，我们解剖了AtMATE表达水平的自然变化，在根中使用不同的自然加入拟南芥铝。系统发育分析表明，超过一半的加入属于中亚（CA）人口显示显着低AtMATE表达水平，而大多数欧洲人口显示高表达水平。低AtMATE表达的CA群体的加入也显示出显著减弱的Al耐受性。在CA人群中进行的AtMATE表达的单群体全基因组关联研究（GWAS）确定了AtMATE启动子区域中的反转录转座子插入与低基因表达水平相关。这可能通过破坏位于插入位点上游的顺式调控元件的作用来影响AtMATE的转录调控，其中包括染色质免疫沉淀-qPCR分析显示的AtSTOP 1（对质子根毒性1敏感）转录因子结合位点。此外，GWAS进行没有加入表达低水平的AtMATE，排除AtMATE启动子多态性的影响，确定了几个候选基因可能与AtMATE表达。
Abstract Organic acids (OA) are released from roots in response to aluminum (Al), conferring an Al tolerance to plants that is regulated by OA transporters such as ALMT (Al‐activated malate transporter) and multi‐drug and toxic compound extrusion (MATE). We have previously reported that the expression level polymorphism (ELP) of AtALMT1 is strongly associated with variation in Al tolerance among natural accessions of Arabidopsis. However, although AtMATE is also expressed following Al exposure and contributes to Al tolerance, whether AtMATE contributes to the variation of Al tolerance and the molecular mechanisms of ELP remains unclear. Here, we dissected the natural variation in AtMATE expression level in response to Al at the root using diverse natural accessions of Arabidopsis. Phylogenetic analysis revealed that more than half of accessions belonging to the Central Asia (CA) population show markedly low AtMATE expression levels, while the majority of European populations show high expression levels. The accessions of the CA population with low AtMATE expression also show significantly weakened Al tolerance. A single‐population genome‐wide association study (GWAS) of AtMATE expression in the CA population identified a retrotransposon insertion in the AtMATE promoter region associated with low gene expression levels. This may affect the transcriptional regulation of AtMATE by disrupting the effect of a cis‐regulatory element located upstream of the insertion site, which includes AtSTOP1 (sensitive to proton rhizotoxicity 1) transcription factor‐binding sites revealed by chromatin immunoprecipitation‐qPCR analysis. Furthermore, the GWAS performed without the accessions expressing low levels of AtMATE, excluding the effect of AtMATE promoter polymorphism, identified several candidate genes potentially associated with AtMATE expression.