Integrating Image-Based Phenomics and Association Analysis to Dissect the Genetic Architecture of Temporal Salinity Responses in Rice
Integrating Image-Based Phenomics and Association Analysis to Dissect the Genetic Architecture of Temporal Salinity Responses in Rice
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DOI：
10.1104/pp.15.00450
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发表时间：
2015-08-01
期刊：
影响因子：
7.4
通讯作者：
Walia, Harkamal
中科院分区：
文献类型：
--
作者：
Campbell, Malachy T.;Knecht, Avi C.;Walia, Harkamal
盐度影响了很大一部分耕地，尤其不利于灌溉农业，而灌溉农业提供了全球三分之一的粮食供应。水稻（Oryza sativa）是最重要的粮食作物，对盐敏感。水稻种质中存在耐盐遗传资源，但由于难以捕捉盐胁迫生理反应的动态性质而未得到充分利用。这些生理反应的遗传基础预计是多基因的。为了应对这一挑战，我们在 14 天的 90 mM NaCl 胁迫下，生成了 378 个不同水稻基因型的时间成像数据，并开发了一个统计模型来评估水稻种质中动态盐度诱导的生长反应的遗传结构。 3 号染色体上的基因组区域与早期生长反应密切相关，并使用可见光范围成像捕获。荧光成像识别出与盐度诱导的荧光反应相关的四个基因组区域。 1 号染色体上的一个区域既调节指示长期离子胁迫的荧光位移，又调节盐度胁迫期间的早期生长速率下降。据我们所知，我们提出了一种新方法来捕获植物对其环境的动态反应，并使用纵向全基因组关联模型阐明这些反应的遗传基础。
Salinity affects a significant portion of arable land and is particularly detrimental for irrigated agriculture, which provides one-third of the global food supply. Rice (Oryza sativa), the most important food crop, is salt sensitive. The genetic resources for salt tolerance in rice germplasm exist but are underutilized due to the difficulty in capturing the dynamic nature of physiological responses to salt stress. The genetic basis of these physiological responses is predicted to be polygenic. In an effort to address this challenge, we generated temporal imaging data from 378 diverse rice genotypes across 14 d of 90 mM NaCl stress and developed a statistical model to assess the genetic architecture of dynamic salinity-induced growth responses in rice germplasm. A genomic region on chromosome 3 was strongly associated with the early growth response and was captured using visible range imaging. Fluorescence imaging identified four genomic regions linked to salinity-induced fluorescence responses. A region on chromosome 1 regulates both the fluorescence shift indicative of the longer term ionic stress and the early growth rate decline during salinity stress. We present, to our knowledge, a new approach to capture the dynamic plant responses to its environment and elucidate the genetic basis of these responses using a longitudinal genome-wide association model.