Department of Ecology and Evolution, University of Chicago, 1101 E 57th St, Chicago, IL, 60637, USA.
BIOGECO, INRA, University of Bordeaux, 33610, Cestas, France.
Plant J. 2019 Jan;97(1):164-181. doi: 10.1111/tpj.14170. Epub 2019 Jan 5.
Environmental sequencing shows that plants harbor complex communities of microbes that vary across environments. However, many approaches for mapping plant genetic variation to microbe-related traits were developed in the relatively simple context of binary host-microbe interactions under controlled conditions. Recent advances in sequencing and statistics make genome-wide association studies (GWAS) an increasingly promising approach for identifying the plant genetic variation associated with microbes in a community context. This review discusses early efforts on GWAS of the plant phyllosphere microbiome and the outlook for future studies based on human microbiome GWAS. A workflow for GWAS of the phyllosphere microbiome is then presented, with particular attention to how perspectives on the mechanisms, evolution and environmental dependence of plant-microbe interactions will influence the choice of traits to be mapped.
环境测序表明，植物体内栖息着复杂的微生物群落，这些群落因环境而异。然而，许多将植物遗传变异与微生物相关特征联系起来的方法都是在相对简单的条件下，通过二元的宿主-微生物相互作用控制条件下开发的。测序和统计学的最新进展使得全基因组关联研究（GWAS）成为一种越来越有前途的方法，可以在群落环境中识别与微生物相关的植物遗传变异。本文综述了早期在植物叶际微生物组的 GWAS 方面的努力以及基于人类微生物组 GWAS 的未来研究展望。然后提出了一个叶际微生物组 GWAS 的工作流程，特别关注植物-微生物相互作用的机制、进化和环境依赖性的观点将如何影响要映射的特征的选择。
