Compositional shifts in root-associated bacterial and archaeal microbiota track the plant life cycle in field-grown rice

被引:333
作者
Edwards, Joseph A. [1 ]
Santos-Medellin, Christian M. [1 ]
Liechty, Zachary S. [1 ]
Bao Nguyen [1 ]
Lurie, Eugene [1 ,4 ]
Eason, Shane [2 ]
Phillips, Gregory [2 ]
Sundaresan, Venkatesan [1 ,3 ]
机构
[1] Univ Calif Davis, Dept Plant Biol, Davis, CA 95616 USA
[2] Arkansas State Univ, Dept Agr, Jonesboro, AR USA
[3] Univ Calif Davis, Dept Plant Sci, Davis, CA 95616 USA
[4] Baylor Coll Med, Dept Mol & Human Genet, Houston, TX 77030 USA
基金
美国国家科学基金会;
关键词
ARABIDOPSIS-THALIANA; RHIZOSPHERE MICROBIOME; YIELD RESPONSE; RESISTANCE; COMMUNITY; DROUGHT; STRESS; MAIZE; GREENHOUSE; DIVERSITY;
D O I
10.1371/journal.pbio.2003862
中图分类号
Q5 [生物化学]; Q7 [分子生物学];
学科分类号
071010 ; 081704 ;
摘要
Bacterial communities associated with roots impact the health and nutrition of the host plant. The dynamics of these microbial assemblies over the plant life cycle are, however, not well understood. Here, we use dense temporal sampling of 1,510 samples from root spatial compartments to characterize the bacterial and archaeal components of the root-associated microbiota of field grown rice (Oryza sativa) over the course of 3 consecutive growing seasons, as well as 2 sites in diverse geographic regions. The root microbiota was found to be highly dynamic during the vegetative phase of plant growth and then stabilized compositionally for the remainder of the life cycle. Bacterial and archaeal taxa conserved between field sites were defined as predictive features of rice plant age by modeling using a random forest approach. The age-prediction models revealed that drought-stressed plants have developmentally immature microbiota compared to unstressed plants. Further, by using genotypes with varying developmental rates, we show that shifts in the microbiome are correlated with rates of developmental transitions rather than age alone, such that different microbiota compositions reflect juvenile and adult life stages. These results suggest a model for successional dynamics of the root-associated microbiota over the plant life cycle.
引用
收藏
页数:28
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