Dataset Information

Transcriptomic analysis of field-droughted sorghum from seedling to maturity reveals biotic and metabolic responses.

ABSTRACT: Drought is the most important environmental stress limiting crop yields. The C4 cereal sorghum [Sorghum bicolor (L.) Moench] is a critical food, forage, and emerging bioenergy crop that is notably drought-tolerant. We conducted a large-scale field experiment, imposing preflowering and postflowering drought stress on 2 genotypes of sorghum across a tightly resolved time series, from plant emergence to postanthesis, resulting in a dataset of nearly 400 transcriptomes. We observed a fast and global transcriptomic response in leaf and root tissues with clear temporal patterns, including modulation of well-known drought pathways. We also identified genotypic differences in core photosynthesis and reactive oxygen species scavenging pathways, highlighting possible mechanisms of drought tolerance and of the delayed senescence, characteristic of the stay-green phenotype. Finally, we discovered a large-scale depletion in the expression of genes critical to arbuscular mycorrhizal (AM) symbiosis, with a corresponding drop in AM fungal mass in the plants' roots.

SUBMITTER: Varoquaux N

PROVIDER: S-EPMC6936495 | biostudies-literature | 2019 Dec

REPOSITORIES: biostudies-literature

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Transcriptomic analysis of field-droughted sorghum from seedling to maturity reveals biotic and metabolic responses.

Varoquaux Nelle N Cole Benjamin B Gao Cheng C Pierroz Grady G Baker Christopher R CR Patel Dhruv D Madera Mary M Jeffers Tim T Hollingsworth Joy J Sievert Julie J Yoshinaga Yuko Y Owiti Judith A JA Singan Vasanth R VR DeGraaf Stephanie S Xu Ling L Blow Matthew J MJ Harrison Maria J MJ Visel Axel A Jansson Christer C Niyogi Krishna K KK Hutmacher Robert R Coleman-Derr Devin D O'Malley Ronan C RC Taylor John W JW Dahlberg Jeffery J Vogel John P JP Lemaux Peggy G PG Purdom Elizabeth E

Proceedings of the National Academy of Sciences of the United States of America 20191205 52

Drought is the most important environmental stress limiting crop yields. The C4 cereal sorghum [<i>Sorghum bicolor</i> (L.) Moench] is a critical food, forage, and emerging bioenergy crop that is notably drought-tolerant. We conducted a large-scale field experiment, imposing preflowering and postflowering drought stress on 2 genotypes of sorghum across a tightly resolved time series, from plant emergence to postanthesis, resulting in a dataset of nearly 400 transcriptomes. We observed a fast and ...[more]

PMID: 31806758

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Project description:Arbuscular mycorrhizal (AM) fungi contribute to plant nutrient uptake in systems managed with reduced fertilizer inputs such as organic agriculture and natural ecosystems by extending the effective size of the rhizosphere and delivering mineral. Connecting the molecular study of the AM symbiosis with agriculturally- and ecologically-relevant field environments remains a challenge and is a largely unexplored research topic. This study utilized a cross-disciplinary approach to examine the transcriptional, metabolic, and physiological responses of tomato (Solanum lycopersicum) AM roots to a localized patch of nitrogen (N). A wild-type mycorrhizal tomato and a closely-related nonmycorrhizal mutant were grown at an organic farm in soil that contained an active AM extraradical hyphal network and soil microbe community. The majority of genes regulated by upon enrichment of nitrogen were similarly expressed in mycorrhizal and nonmycorrhizal roots, suggesting that the primary response to an enriched N patch is mediated by mycorrhiza-independent root processes. However where inorganic N concentrations in the soil were low, differential regulation of key tomato N transport and assimilation genes indicate a transcriptome shift towards mycorrhiza-mediated N uptake over direct root supplied N. Furthermore, two novel mycorrhizal-specific tomato ammonium transporters were also found to be regulated under low N conditions. A conceptual model is presented integrating the transcriptome response to low N and highlighting the mycorrhizal-specific ammonium transporters. These results enhance our understanding of the role of the AM symbiosis in sensing and response to an enriched N patch, and demonstrate that transcriptome analyses of complex plant-microbe-soil interactions provide a global snapshot of biological processes relevant to soil processes in organic agriculture. 30 samples were analyzed. There were 2 genotypes (wildtype and mutant) and 3 treatments (two N treatments and a water control) for a total of 6 groups. Each group had 5 biological replicates.

Dataset Information

Transcriptomic analysis of field-droughted sorghum from seedling to maturity reveals biotic and metabolic responses.

Publications

Transcriptomic analysis of field-droughted sorghum from seedling to maturity reveals biotic and metabolic responses.

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