Genome-wide characterization of soybean P 1B -ATPases gene family provides functional implications in cadmium responses.
Genome-wide characterization of soybean P 1B -ATPases gene family provides functional implications in cadmium responses.
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大豆p 1b -atpases基因家族的全基因组表征在镉反应中具有功能意义。
DOI：
10.1186/s12864-016-2730-2
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发表时间：
2016-05-20
期刊：
影响因子：
4.4
通讯作者：
Yang C
中科院分区：
文献类型：
--
作者：
Fang X;Wang L;Deng X;Wang P;Ma Q;Nian H;Wang Y;Yang C
P1 B-ATP酶亚家族是参与重金属转运的重要类群，在模式植物如拟南芥和水稻中得到了广泛的研究。新的证据表明，大豆中的一个同源基因也参与镉（Cd）胁迫，但该基因家族尚未在大豆中得到充分研究。在这里，我们在大豆基因组中鉴定了20个重金属ATP酶（HMA）家族成员，呈现为10个旁系同源对，这明显大于拟南芥或水稻中的数量，并且可能是由大豆中最新的全基因组复制事件引起的。系统发育分析将20个成员分为6组，每组具有保守或不同的基因结构和蛋白质基序模式。来自多个组织的RNA测序和qRT-PCR数据的整合提供了大豆中HMA家族的总体表达模式。进一步比较同源对之间的表达模式和单核苷酸多态性分布表明大豆进化过程中HMA基因的功能保守和分化。最后，HMAs在镉胁迫下表达的分析提供了植物如何管理镉耐受性的证据，至少在两个对比的大豆基因型研究。全基因组鉴定，染色体分布，基因结构，进化和表达分析的20个HMA基因在大豆中提供了一个全面的了解他们的潜在参与镉响应。这些结果为进一步研究大豆HMA基因家族及其保守和差异的生物学功能奠定了基础。本文的在线版本（doi：10.1186/s12864-016-2730-2）包含补充材料，可供授权用户使用。
The P1B-ATPase subfamily is an important group involved in transporting heavy metals and has been extensively studied in model plants, such as Arabidopsis thaliana and Oryza sativa. Emerging evidence indicates that one homolog in Glycine max is also involved in cadmium (Cd) stress, but the gene family has not been fully investigated in soybean. Here, we identified 20 heavy metal ATPase (HMA) family members in the soybean genome, presented as 10 paralogous pairs, which is significantly greater than the number in Arabidopsis or rice, and was likely caused by the latest whole genome duplication event in soybean. A phylogenetic analysis divided the 20 members into six groups, each having conserved or divergent gene structures and protein motif patterns. The integration of RNA-sequencing and qRT-PCR data from multiple tissues provided an overall expression pattern for the HMA family in soybean. Further comparisons of expression patterns and the single nucleotide polymorphism distribution between paralogous pairs suggested functional conservation and the divergence of HMA genes during soybean evolution. Finally, analyses of the HMAs expressed in response to Cd stress provided evidence on how plants manage Cd tolerance, at least in the two contrasting soybean genotypes examined. The genome-wide identification, chromosomal distribution, gene structures, and evolutionary and expression analyses of the 20 HMA genes in soybean provide an overall insight into their potential involvement in Cd responses. These results will facilitate further research on the HMA gene family, and their conserved and divergent biological functions in soybean. The online version of this article (doi:10.1186/s12864-016-2730-2) contains supplementary material, which is available to authorized users.