Abstract
Rice production worldwide has continued to decline due to various environmental stresses, with drought stress being a prominent factor, as rice is a semi-aquatic plant. Thus, development of drought stress-resistant rice varieties is of great importance for rice production. In our previous study, we found that microRNAs (miRNAs) play a crucial role in the response to drought stress in Dongxiang wild rice (DXWR) (Oryza rufipogon Griff.). Developing drought stress-responsive miRNA-based single sequence repeat (SSR) markers for DXWR will be of great value for the efficient identification and utilization of miRNA genes to breed drought stress-resistant rice varieties. In this study, ninety-nine novel SSR markers were developed based on the drought stress-responsive miRNAs of DXWR. These markers were distributed in all 12 rice chromosomes, and most were in chromosomes 2 and 6, with di- and tri-nucleotides being the most abundant repeat motifs. Twelve out of fourteen synthesized markers displayed high levels of genetic diversity in the genomes of three populations of DXWR and 40 modern rice varieties worldwide. The number of alleles per locus ranged from 2 to 7, with an average of 4.67; the genetic diversity index ranged from 0.21 to 0.76, with an average of 0.58; and the polymorphism information content value ranged from 0.18 to 0.72, with an average of 0.53. These novel molecular markers developed from the drought stress-responsive miRNAs of DXWR could be additional tools for mapping elite miRNA genes and breeding drought stress-resistant rice varieties.
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Acknowledgements
We are grateful to Dr. Nie Yuanyuan (Jiangxi Super-rice Research and Development Center/National Engineering Laboratory for Rice, Nanchang 330200, China) and Dr. Wang Shimei (Rice Research Institute of Anhui Academy of Agricultural Sciences, Hefei 230001, China) for kindly providing the typical drought-resistant and -susceptible modern rice varieties.
Funding
This research was supported by the National Natural Science Foundation of China (31960370, 32070374, and 31960085), Natural Science Foundation of Jiangxi Province, China (20202ACB205002), and Postgraduate Innovation Fund of Jiangxi Normal University (YC2019-B043).
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CY and YW performed the experiments. CY and DG performed statistical analyses. CY, FY, and ZF drafted the manuscript. ZF and XJ contributed to the experimental design and edition of the manuscript.
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Chen, Y., Fan, Y., Yang, W. et al. Development and verification of SSR markers from drought stress-responsive miRNAs in Dongxiang wild rice (Oryza rufipogon Griff.). Funct Integr Genomics 22, 1153–1157 (2022). https://doi.org/10.1007/s10142-022-00891-3
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DOI: https://doi.org/10.1007/s10142-022-00891-3