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Key message <p>BSA-seq and fine mapping revealed a 294&#xa0;kb deletion on chromosome 9 regulating leaflet size and biomass in pigeonpea.</p> Abstract <p>Leaf size critically influences photosynthetic capacity, impacting organic matter production and biomass yield. This study reports the identification and characterization of a small leaflet mutant (<i>sl1</i>) in pigeonpea (<i>Cajanus cajan</i>) generated via aerial mutagenesis. Compared to the wild-type <i>Qiongzhong</i>, <i>sl1</i> displayed significantly reduced leaf area, plant height, stem diameter, and biomass, characteristic of a dwarf phenotype. Genetic analysis confirmed a single recessive locus controlling the <i>sl1</i> phenotype. Bulked segregant analysis sequencing (BSA-seq) and fine mapping identified the causal mutation as a 294&#xa0;kb deletion encompassing 21 genes on&#xa0;chromosome 9. Transcriptomic analysis identified 1,039 differentially expressed genes (DEGs), indicating disruptions in, among others, plant hormone signaling pathways. Analysis of 28 target plant hormone metabolites revealed significant shifts in <i>sl1</i> mutant compared to wild-type, including increased levels of strigolactone, methyl indole-3-acetate, and trans-zeatin-riboside, and decreases in gibberellin A3, N6-isopentenyladenine, and methyl jasmonate. Cytological analysis revealed a decreased cell number in <i>sl1</i> leaves, contributing to the reduced leaflet size. Three candidate genes, <i>CC09g01700</i>, <i>CC09g01705</i>, and <i>CC09g01707</i>, within the deleted region were prioritized based on their altered expression patterns and their putative roles in leaf development. These findings elucidate the genetic regulation of leaf morphology and biomass in pigeonpea, offering potential targets for marker-assisted selection to enhance pigeonpea yield.</p>

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A 294 kb deletion causes reduced leaflet size and biomass in pigeonpea

  • 期刊论文

  • 发表日期：

    2025年4月16日

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  • Xipeng Ding,
  • Shangzhi Wang,
  • Jiajia Luo,
  • Pandao Liu,
  • Yongwei He,
  • Xinyong Li,
  • Xiaoyan Luo,
  • Wei Hu

摘要

Key message

BSA-seq and fine mapping revealed a 294 kb deletion on chromosome 9 regulating leaflet size and biomass in pigeonpea.

Abstract

Leaf size critically influences photosynthetic capacity, impacting organic matter production and biomass yield. This study reports the identification and characterization of a small leaflet mutant (sl1) in pigeonpea (Cajanus cajan) generated via aerial mutagenesis. Compared to the wild-type Qiongzhong, sl1 displayed significantly reduced leaf area, plant height, stem diameter, and biomass, characteristic of a dwarf phenotype. Genetic analysis confirmed a single recessive locus controlling the sl1 phenotype. Bulked segregant analysis sequencing (BSA-seq) and fine mapping identified the causal mutation as a 294 kb deletion encompassing 21 genes on chromosome 9. Transcriptomic analysis identified 1,039 differentially expressed genes (DEGs), indicating disruptions in, among others, plant hormone signaling pathways. Analysis of 28 target plant hormone metabolites revealed significant shifts in sl1 mutant compared to wild-type, including increased levels of strigolactone, methyl indole-3-acetate, and trans-zeatin-riboside, and decreases in gibberellin A3, N6-isopentenyladenine, and methyl jasmonate. Cytological analysis revealed a decreased cell number in sl1 leaves, contributing to the reduced leaflet size. Three candidate genes, CC09g01700, CC09g01705, and CC09g01707, within the deleted region were prioritized based on their altered expression patterns and their putative roles in leaf development. These findings elucidate the genetic regulation of leaf morphology and biomass in pigeonpea, offering potential targets for marker-assisted selection to enhance pigeonpea yield.