Genome-wide association analysis of seedling traits in diverse Sorghum germplasm under thermal stress.
Genome-wide association analysis of seedling traits in diverse Sorghum germplasm under thermal stress.
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DOI：
10.1186/s12870-016-0966-2
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发表时间：
2017-01-13
影响因子：
5.3
通讯作者：
Xin Z
中科院分区：
文献类型：
--
作者：
Chopra R;Burow G;Burke JJ;Gladman N;Xin Z
温度波动引起的气候变化是一个危及作物生产的世界性问题。现在比以往任何时候都更有必要了解如何利用主要作物的种质变异来帮助发现和发展能够承受和适应温度波动的育种品系。在这里，我们在代表主要小种和工作组的高粱联合小组(SAP)中分析了与温度胁迫反应相关的遗传变异，以确定与主要谷类作物对温度胁迫的适应性相关的单核苷酸多态(SNPs)。保水剂在冷热胁迫下表现出较大的苗期性状变异。全基因组分析发现了30个与苗期在低温胁迫下测量的性状密切相关的SNPs，并标记了调控花青素表达和可溶性碳水化合物代谢的基因。同时，有12个SNPs与高温胁迫下的苗木性状显著相关，这些SNPs标记了糖代谢和离子转运途径的基因。对显著相关的SNPs附近的基因共表达网络的评估表明，高粱冷热胁迫的基因相互作用复杂。Sb06G025040是一种碱性螺旋环状螺旋转录因子，被认为与叶片的紫色着色有关，我们聚焦并验证了Sb06G025040转录因子网络中四个基因的表达，观察到该网络中的基因在中等耐寒品系中上调，而在较敏感品系中表达上调。本研究为高粱在冷热胁迫下苗期性状变异相关基因组区域的定位提供了便利。这些发现显示了利用基因信息培育耐高温高粱品种的潜力，并进一步确定了影响高粱对温度胁迫适应的基因及其网络。这项研究中关于基因网络的知识可以扩展到其他谷类作物，以更好地了解植物发育阶段对温度波动的适应能力的遗传基础。本文的在线版本(doi：10.1186/s12870-0160966-2)包含补充材料，授权用户可以使用。
Climate variability due to fluctuation in temperature is a worldwide concern that imperils crop production. The need to understand how the germplasm variation in major crops can be utilized to aid in discovering and developing breeding lines that can withstand and adapt to temperature fluctuations is more necessary than ever. Here, we analyzed the genetic variation associated with responses to thermal stresses in a sorghum association panel (SAP) representing major races and working groups to identify single nucleotide polymorphisms (SNPs) that are associated with resilience to temperature stress in a major cereal crop. The SAP exhibited extensive variation for seedling traits under cold and heat stress. Genome-wide analyses identified 30 SNPs that were strongly associated with traits measured at seedling stage under cold stress and tagged genes that act as regulators of anthocyanin expression and soluble carbohydrate metabolism. Meanwhile, 12 SNPs were significantly associated with seedling traits under heat stress and these SNPs tagged genes that function in sugar metabolism, and ion transport pathways. Evaluation of co-expression networks for genes near the significantly associated SNPs indicated complex gene interactions for cold and heat stresses in sorghum. We focused and validated the expression of four genes in the network of Sb06g025040, a basic-helix-loop-helix (bHLH) transcription factor that was proposed to be involved in purple color pigmentation of leaf, and observed that genes in this network were upregulated during cold stress in a moderately tolerant line as compared to the more sensitive line. This study facilitated the tagging of genome regions associated with variation in seedling traits of sorghum under cold and heat stress. These findings show the potential of genotype information for development of temperature resilient sorghum cultivars and further characterization of genes and their networks responsible for adaptation to thermal stresses. Knowledge on the gene networks from this research can be extended to the other cereal crops to better understand the genetic basis of resilience to temperature fluctuations during plant developmental stages. The online version of this article (doi:10.1186/s12870-016-0966-2) contains supplementary material, which is available to authorized users.