Characterization of the Leaf Microbiome from Whole-Genome Sequencing Data of the 3000 Rice Genomes Project

Rice

Simon C. Groen¹  Ian L. Quibod²  Ricardo Oliva²  Dale Pinili²  Ramil Mauleon²  Nickolai Alexandrov²  Frances N. Borja²  Veronica Roman-Reyna³ 

[1] Department of Biology, Center for Genomics and Systems Biology, New York University, 10003, New York, NY, USA;Rice Breeding Platform, International Rice Research Institute, DAPO Box 7777, Metro Manila, Philippines;Rice Breeding Platform, International Rice Research Institute, DAPO Box 7777, Metro Manila, Philippines;Present Address: Department of Plant Pathology, The Ohio State University, Columbus, OH, USA;

关键词: Oryza sativa;    Leaf microbiome;    Abundance network;    GWAS;    Functional profile;   

DOI  :  10.1186/s12284-020-00432-1

来源: Springer

【 摘 要 】

BackgroundThe crop microbial communities are shaped by interactions between the host, microbes and the environment, however, their relative contribution is beginning to be understood. Here, we explore these interactions in the leaf bacterial community across 3024 rice accessions.FindingsBy using unmapped DNA sequencing reads as microbial reads, we characterized the structure of the rice bacterial microbiome. We identified central bacteria taxa that emerge as microbial “hubs” and may have an influence on the network of host-microbe interactions. We found regions in the rice genome that might control the assembly of these microbial hubs. To our knowledge this is one of the first studies that uses raw data from plant genome sequencing projects to characterize the leaf bacterial communities.ConclusionWe showed, that the structure of the rice leaf microbiome is modulated by multiple interactions among host, microbes, and environment. Our data provide insight into the factors influencing microbial assemblage in the rice leaf and also opens the door for future initiatives to modulate rice consortia for crop improvement efforts.

【 授权许可】

CC BY