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Identification and characterization of differentially expressed microRNAs in response to Rhizoctonia solani in maize

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Abstract

MicroRNAs (miRNAs) are a set of small, non-coding RNAs that negatively and post-transcriptionally mediate their respective target mRNAs by directing the target mRNA cleavage or translational repression. Plant miRNAs have been involved in developmental processes and adaption to biotic and abiotic stresses in their environment. The banded leaf and sheath blight (BLSB) caused by Rhizoctonia solani is extremely harmful to maize. To investigate the functions of miRNAs under R. solani inoculation, miRNA expression in R. solani infected maize (Zea mays L.) was profiled using deep sequencing. In total, 41 significantly differentially expressed known miRNAs and 39 novel R. solani-responsive miRNAs were identified, of which 9 identified miRNAs were further validated by qRT-PCR, and 2 important miRNAs were analyzed by in situ hybridization. Target genes were also predicted for these R. solani-responsive miRNAs; most of these putative target genes encoded transcription factors and proteins associated with metabolic processes or stress responses. In addition, the mRNA expression levels of several target genes that negatively correlated with the levels of corresponding miRNAs under R. solani inoculation were validated by qRT-PCR. These findings hypothesized that these miRNAs play an important role in R. solani resistance in maize, highlighting novel molecular mechanisms of R. solani resistance in plants.

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Acknowledgments

This work was supported by National Natural Science Foundation of China (30900901), the Scientific Reserch Fund of SiChuan Provincial Education Department (Grant No. 11ZB123) and SiChuan Provincial Health Department (Grant No. 120371), and the Foundation of Luzhou Municipal Science and Technology Bureau of Sichuan Province (2013-S-47, 2013LZLY-K64).

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    Authors and Affiliations

    1. Drug Discovery Research Center of Sichuan Medical University, Luzhou, 646000, Sichuan, China

      Mao Luo

    2. Key Laboratory of Biology and Genetic Improvement of Maize in Southwest Region, Ministry of Agriculture, Maize Research Institute of Sichuan Agricultural University, Wenjiang, 611130, Sichuan, China

      Haijian Lin, Wanrong Li, Yaou Shen, Maojun Zhao, Guangtang Pan & Zhiming Zhang

    3. Institute of Pathology and Southwest Cancer Center, Southwest Hospital, Third Military Medical University, Chongqing, 400038, China

      Jian Gao

    4. Key Laboratory of Tumor Immunopathology, Ministry of Education of China, Chongqing, 400038, China

      Jian Gao

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    Correspondence to Guangtang Pan.

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    Communicated by E. K.-Gebarowska.

    M. Luo, H. J. Lin and J. Gao contributed equally to this work.

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    11738_2015_2001_MOESM1_ESM.pdf

    The secondary structure of novel miRNA precursors. Predicted secondary structures of novel identified miRNAs, Mature miRNA sequences were shown in green. (PDF 403 kb)

    11738_2015_2001_MOESM2_ESM.jpg

    Functions and percentages of target genes of conserved zma-miRNAs. All predicted targets were included in these calculations. (JPEG 29 kb)

    11738_2015_2001_MOESM3_ESM.jpg

    Functions and percentages of target genes of novel zma-miRNAs. All predicted targets were included in these calculations. (JPEG 25 kb)

    GO analysis of putatively targeted genes of known and newly identified miRNAs. (JPEG 107 kb)

    Supplementary material 5 (XLSX 118 kb)

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    Luo, M., Lin, H., Gao, J. et al. Identification and characterization of differentially expressed microRNAs in response to Rhizoctonia solani in maize. Acta Physiol Plant 37, 250 (2015). https://doi.org/10.1007/s11738-015-2001-x

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