A single-nucleotide polymorphism in <i>PvPW1</i> encoding β-1,3-glucanase 9 is associated with pod width in <i>Phaseolus vulgaris</i> L.

Kun Xu; Jinlong Zhu; Hong Zhai; Qiang Yang; Keqin Zhou; Qijian Song; Jing Wu; Dajun Liu; Yanhua Li; Zhengjun Xia

doi:10.1016/j.jgg.2024.09.020

Volume 51 Issue 12

Dec. 2024

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Article Navigation > Journal of Genetics and Genomics > 2024 > 51(12): 1413-1422

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A single-nucleotide polymorphism in PvPW1 encoding β-1,3-glucanase 9 is associated with pod width in Phaseolus vulgaris L.

doi: 10.1016/j.jgg.2024.09.020

a. State Key Laboratory of Black Soils Conservation and Utilization, Key Laboratory of Soybean Molecular Design Breeding, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Harbin, Heilongjiang 150081, China;
b. USDA ARS, Soybean Genome & Improvement Lab, Beltsville 20705, USA;
c. Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing 10081, China;
d. Horticulture Department, College of Advanced Agriculture and Ecological Environment, Heilongjiang University, Harbin, Heilongjiang 150000, China

Funds:

This study was supported by the Strategic Priority Research Program of the Chinese Academy of Sciences (XDA28070000), the Natural Science Foundation of Heilongjiang Province (TD 2023C005), and the National Natural Science Foundation of China (32372029 and 32001506).

Received Date: 2024-08-08
Accepted Date: 2024-09-26
Rev Recd Date: 2024-09-25

Available Online: 2025-06-05

Publish Date: 2024-10-09

Abstract

Abstract

Pod width influences pod size, shape, yield, and consumer preference in snap beans (Phaseolus vulgaris L.). In this study, we map PvPW1, a quantitative trait locus associated with pod width in snap beans, through genotyping and phenotyping of recombinant plants. We identify Phvul.006G072800, encoding the β-1,3-glucanase 9 protein, as the causal gene for PvPW1. The PvPW1^G3555 allele is found to positively regulate pod width, as revealed by an association analysis between pod width phenotype and the PvPW1^G3555C genotype across 17 bi-parental F₂ populations. In total, 97.7% of the 133 wide pod accessions carry PvPW1^G3555, while 82.1% of the 78 narrow pod accessions carry PvPW1^C3555, indicating strong selection pressure on PvPW1 during common bean breeding. Re-sequencing data from 59 common bean cultivars identify an 8-bp deletion in the intron linked to PvPW1^C3555, leading to the development of the InDel marker of PvM436. Genotyping 317 common bean accessions with PvM436 demonstrated that accessions with PvM436²⁴⁷ and PvM436²²⁷ alleles have wider pods compared to those with PvM436²¹⁹ allele, establishing PvM436 as a reliable marker for molecular breeding in snap beans. These findings highlight PvPW1 as a critical gene regulating pod width and underscore the utility of PvM436 in marker-assisted selection for snap bean breeding.
- Common bean,
- Pod width,
- Fine-mapping,
- β-1,3-glucanase 9,
- Marker-assisted selection

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References(43)

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