Genome wide association study reveals plant loci controlling heritability of the rhizosphere microbiome |
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| Authors: | Siwen Deng Daniel F. Caddell Gen Xu Lindsay Dahlen Lorenzo Washington Jinliang Yang Devin Coleman-Derr |
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| Affiliation: | 1.Department of Plant and Microbial Biology, University of California, Berkeley, CA USA ;2.Plant Gene Expression Center, USDA-ARS, Albany, CA USA ;3.Department of Agronomy and Horticulture, University of Nebraska-Lincoln, Lincoln, NE USA ;4.Center for Plant Science Innovation, University of Nebraska-Lincoln, Lincoln, NE USA ;5.Present Address: Department of Plant Sciences, University of California, Davis, CA USA |
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| Abstract: | Host genetics has recently been shown to be a driver of plant microbiome composition. However, identifying the underlying genetic loci controlling microbial selection remains challenging. Genome-wide association studies (GWAS) represent a potentially powerful, unbiased method to identify microbes sensitive to the host genotype and to connect them with the genetic loci that influence their colonization. Here, we conducted a population-level microbiome analysis of the rhizospheres of 200 sorghum genotypes. Using 16S rRNA amplicon sequencing, we identify rhizosphere-associated bacteria exhibiting heritable associations with plant genotype, and identify significant overlap between these lineages and heritable taxa recently identified in maize. Furthermore, we demonstrate that GWAS can identify host loci that correlate with the abundance of specific subsets of the rhizosphere microbiome. Finally, we demonstrate that these results can be used to predict rhizosphere microbiome structure for an independent panel of sorghum genotypes based solely on knowledge of host genotypic information.Subject terms: Agricultural genetics, Plant ecology, Soil microbiology |
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