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Rapid identification of a candidate nicosulfuron sensitivity gene (Nss) in maize (Zea mays L.) via combining bulked segregant analysis and RNA-seq

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A candidate nicosulfuron sensitivity gene Nss was identified by combining bulked segregant analysis and RNA-seq. Multiple mutations of this gene were discovered in nicosulfuron-sensitive maize compared with the tolerant.

Abstract

It has been demonstrated that variabilities exist in maize response to nicosulfuron. Two nicosulfuron-sensitive inbred lines (HB39, HB41) and two tolerant inbred lines (HB05, HB09) were identified via greenhouse and field trials. Genetic analysis indicated that the sensitivity to nicosulfuron in maize was controlled by a single, recessive gene. To precisely and rapidly map the nicosulfuron sensitivity gene (Nss), two independent F2 segregating populations, Population A (HB41 × HB09) and Population B (HB39 × HB05), were constructed. By applying bulked segregant RNA-Seq (BSR-Seq), the Nss gene was, respectively, mapped on the short arm of chromosome 5 (chr5: 1.1–15.3 Mb) and (chr5: 0.5–18.2 Mb) using two populations, with 14.2 Mb region in common. Further analysis revealed that there were 43 and 119 differentially expressed genes in the mapping intervals, with 18 genes in common. Gene annotation results showed that a cytochrome P450 gene (CYP81A9) appeared to be the candidate gene of Nss associated with nicosulfuron sensitivity in maize. Sequence analysis demonstrated that two common deletion mutations existed in the sensitive maize, which might lead to the nicosulfuron sensitivity in maize. The results will make valuable contributions to the understanding of molecular mechanism of herbicide sensitivity in maize.

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Acknowledgements

This research was financially supported by the National Natural Science Foundation of China (31501660), the National Key R&D Program of China (2018YFD0200600) and the Technology Research and Development Program of Hebei, China (17226507D).

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Authors and Affiliations

  1. Institute of Cereal and Oil Crops, Hebei Academy of Agriculture and Forestry Sciences, Shijiazhuang, 050035, China

    Xiaomin Liu, Xian Xu, Binghua Li, Shengmin Tian, Jianping Wang & Guiqi Wang

  2. Department of Crop, Soil and Environmental Science, Auburn University, Auburn, AL, 36849, USA

    Bo Bi, Hui Zhang & J. Scott McElroy

  3. College of Agriculture, Northeast Agricultural University, Harbin, 150030, China

    Yujun Han

Authors
  1. Xiaomin Liu
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  2. Bo Bi
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  3. Xian Xu
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  4. Binghua Li
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  5. Shengmin Tian
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  6. Jianping Wang
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  7. Hui Zhang
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  8. Guiqi Wang
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  10. J. Scott McElroy
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Contributions

Author contribution statement

XL and GW designed the experiments and drafted the manuscript; XL, BB, XX and HZ carried out the experiments and analysis of RNA-seq; BL, ST and JW carried out the phenotyping; GW, YH and JSM conceived the idea of the study and finalized the manuscript. All of the authors read and approved the final manuscript.

Corresponding authors

Correspondence to Guiqi Wang, Yujun Han or J. Scott McElroy.

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Communicated by Michael Gore.

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Liu, X., Bi, B., Xu, X. et al. Rapid identification of a candidate nicosulfuron sensitivity gene (Nss) in maize (Zea mays L.) via combining bulked segregant analysis and RNA-seq. Theor Appl Genet 132, 1351–1361 (2019). https://doi.org/10.1007/s00122-019-03282-8

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  • DOI: https://doi.org/10.1007/s00122-019-03282-8

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