Morrison Ginnie D, Linder C Randal
Department of Integrative Biology, University of Texas at Austin, Austin, Texas
Department of Integrative Biology, University of Texas at Austin, Austin, Texas.
G3 (Bethesda). 2014 Jun 5;4(8):1465-78. doi: 10.1534/g3.114.012427.
In the natural world, genotype expression is influenced by an organism's environment. Identifying and understanding the genes underlying phenotypes in different environments is important for making advances in fields ranging from evolution to medicine to agriculture. With the availability of genome-wide genetic-marker datasets, it is possible to look for genes that interact with the environment. Using the model organism, Arabidopsis thaliana, we looked for genes underlying phenotypes as well as genotype-by-environment interactions in four germination traits under two light and two nutrient conditions. We then performed genome-wide association tests to identify candidate genes underlying the observed phenotypes and genotype-by-environment interactions. Of the four germination traits examined, only two showed significant genotype-by-environment interactions. While genome-wide association analyses did not identify any markers or genes explicitly linked to genotype-by-environment interactions, we did identify a total of 55 markers and 71 genes associated with germination differences. Of the 71 genes, four--ZIGA4, PS1, TOR, and TT12--appear to be strong candidates for further study of germination variation under different environments.
在自然界中，基因型的表达受生物体环境的影响。识别和理解不同环境下表型背后的基因，对于在从进化到医学再到农业等诸多领域取得进展至关重要。随着全基因组遗传标记数据集的可得性，寻找与环境相互作用的基因成为可能。利用模式生物拟南芥，我们在两种光照和两种营养条件下，寻找四种萌发性状的表型以及基因型与环境互作背后的基因。然后我们进行了全基因组关联测试，以识别观察到的表型和基因型与环境互作背后的候选基因。在所研究的四种萌发性状中，只有两种表现出显著的基因型与环境互作。虽然全基因组关联分析未识别出与基因型与环境互作明确相关的任何标记或基因，但我们总共识别出了55个标记和71个与萌发差异相关的基因。在这71个基因中，四个基因——ZIGA4、PS1、TOR和TT12——似乎是进一步研究不同环境下萌发变异的有力候选基因。
