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Genomic basis underlying alternative transcripts-mediated drought tolerance in maize.

Shulin Hao1,2, Suwen Han1,2, Zhenghua He3

  • 1National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural University, Hubei Hongshan Laboratory, Wuhan, 430070, China.

Genome Biology
|January 20, 2026
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Summary
This summary is machine-generated.

This study identifies key genetic factors regulating maize's response to drought, revealing how intron variations influence alternative transcripts for improved drought resistance. This work provides resources for breeding more resilient maize varieties.

Keywords:
ABA signalingAlternative transcriptsDrought stressMaizeNatural variation

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Area of Science:

  • Plant genetics
  • Molecular biology
  • Agricultural science

Background:

  • Drought significantly impacts maize growth and yield.
  • Alternative transcripts play a vital role in plant abiotic stress responses.
  • The genetic underpinnings of alternative transcript-mediated drought response in maize are not well understood.

Purpose of the Study:

  • To investigate the genetic basis of alternative transcripts in maize drought response.
  • To identify genes and regulatory elements involved in maize drought tolerance.
  • To explore population-level variation in alternative splicing under drought stress.

Main Methods:

  • Transcriptomic analysis of a large maize association population under varying water conditions.
  • mRNA profiling of seedlings at the six-leaf stage.
  • Co-expression analysis, experimental validation, and QTL mapping (atQTLs and eQTLs).

Main Results:

  • Thousands of drought-responsive genes and alternative transcript QTLs (atQTLs) were identified.
  • A splicing factor, ZmMBF1, was found to positively regulate drought response.
  • Intron variations, including UA-rich sequences, significantly influence alternative transcripts and drought tolerance, as exemplified by ZmPYL8.

Conclusions:

  • Maize alternative transcripts respond dynamically to drought stress at the population level.
  • Intron variations are critical regulators of alternative splicing and drought response in maize.
  • This research offers valuable genetic resources and a theoretical framework for developing drought-resistant maize cultivars.