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Genomic Selection for Lodging-Related Traits in Double-Cropping Rice.

Wenyu Lu1, Jicheng Yue2, Jinzhao Liu1

  • 1College of Agriculture, South China Agricultural University, Guangzhou 510642, China.

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|March 14, 2026
PubMed
Summary
This summary is machine-generated.

Genomic selection effectively improves lodging resistance in double-cropping rice by increasing the proportion of resistant varieties. Indirect selection for traits like internode length is more efficient than direct selection for bending resistance.

Keywords:
breedingdouble cropping ricegenomic selectionlodging resistance

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Area of Science:

  • Agricultural Science
  • Genetics
  • Plant Breeding

Background:

  • Genomic selection (GS) offers a powerful approach to accelerate genetic gain for complex traits in crop improvement.
  • Lodging, a major challenge in rice cultivation, significantly impacts yield and quality, necessitating breeding for resistance.

Purpose of the Study:

  • To evaluate the efficacy of genomic selection for improving seven lodging-related traits in double-cropping rice.
  • To compare the performance of different genomic selection models (GBLUP, BayesLASSO, LightGBM) for prediction accuracy.
  • To assess the potential of GS in enhancing the frequency of lodging-resistant rice varieties.

Main Methods:

  • Phenotypic evaluation of 438 rice accessions for traits including internode length, bending resistance, plant height, and their ratios.
  • Cross-validation and independent prediction using GBLUP, BayesLASSO, and LightGBM models.
  • Application of trained GBLUP models to predict breeding values in the 3000 Rice Genomes Project (3kRG) dataset.

Main Results:

  • GBLUP and BayesLASSO models demonstrated superior prediction accuracies compared to LightGBM across all traits and seasons.
  • Prediction accuracies for lodging-related traits ranged from 0.28 to 0.78, with bending resistance showing lower accuracy due to reduced genomic heritability.
  • Plant height was found to be genetically independent of culm bending resistance.
  • Genomic selection successfully increased the proportion of lodging-resistant accessions from 31.40% to 83.00% in the selected 3kRG population.
  • Indirect selection for internode length and its ratio to plant height proved more effective for identifying lodging-resistant cultivars than direct selection for bending resistance.

Conclusions:

  • Genomic selection is a feasible and effective strategy for breeding lodging-resistant double-cropping rice varieties.
  • Indirect selection based on heritable traits can enhance breeding efficiency for lodging resistance.
  • The study provides a foundation for implementing GS in rice breeding programs to accelerate genetic improvement for lodging resistance.