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<p>Allelic variations in the gene pool of rice germplasm consisting of cultivated rice cultivars and wild species accessions were subjected to molecular characterization to detect allelic variations for major reported yield genes, namely <i>Gn1a</i>, <i>SCM2</i>, <i>OsSPL14</i>, <i>GS5</i>, <i>GhD7</i> and <i>TGW6</i>. Yield-positive alleles of <i>Gn1a</i>, <i>SCM2</i>, <i>GS5</i> and <i>GhD7</i> are frequent in <i>indica</i> rice cultivars under study; whereas <i>OsSPL14</i> and <i>TGW6</i> are rare, as their yield-positive alleles were not detected for majority of the germplasm studied. <i>O. glaberrima</i> accessions lacked all the yield-enhancing genes studied except <i>Gn1a</i>. In most of the wild accessions, the genes <i>SCM2</i>, <i>GS5</i> and <i>Ghd7</i> showed heterozygous allelic combination. Among 74 genotypes studied, 72.2% genotypes were pure and 27.8% rice accessions were observed to have admixture. Population structure analysis using the Bayesian clustering model approach, using genotypic data, grouped the germplasm into three subpopulations. The genetic differentiation among subpopulations was very high and genotypes were moderately structured based on FST value estimates. Among the subpopulations, the P1 was highly differentiated, followed by the P3 and P2. Pairwise FST values showed significant differentiation among all the pairs of the subpopulations. All of the eight <i>O. sativa </i>ssp.<i> indica</i> cultivars were in the same group P2, indicating the narrow genetic base among the <i>indica</i> cultivars.</p>

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Unraveling allelic variations and population structure in wild species and cultivars of rice (Oryza spp.) for yield-related genes

  • 期刊论文

  • 发表日期：

    2025年6月10日

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  • Musku Sridhar,
  • Divya Balakrishnan,
  • M. S. Anantha,
  • P. Senguttuvel,
  • R. M. Sundaram,
  • L. V. Subbarao,
  • D. Aleena,
  • Ch. Raveendra,
  • S. Rathod,
  • S. R. Chimmli,
  • G. Padmavathi,
  • M. Sujatha,
  • D. S. Chary,
  • Channappa Gireesh

摘要

Allelic variations in the gene pool of rice germplasm consisting of cultivated rice cultivars and wild species accessions were subjected to molecular characterization to detect allelic variations for major reported yield genes, namely Gn1a, SCM2, OsSPL14, GS5, GhD7 and TGW6. Yield-positive alleles of Gn1a, SCM2, GS5 and GhD7 are frequent in indica rice cultivars under study; whereas OsSPL14 and TGW6 are rare, as their yield-positive alleles were not detected for majority of the germplasm studied. O. glaberrima accessions lacked all the yield-enhancing genes studied except Gn1a. In most of the wild accessions, the genes SCM2, GS5 and Ghd7 showed heterozygous allelic combination. Among 74 genotypes studied, 72.2% genotypes were pure and 27.8% rice accessions were observed to have admixture. Population structure analysis using the Bayesian clustering model approach, using genotypic data, grouped the germplasm into three subpopulations. The genetic differentiation among subpopulations was very high and genotypes were moderately structured based on FST value estimates. Among the subpopulations, the P1 was highly differentiated, followed by the P3 and P2. Pairwise FST values showed significant differentiation among all the pairs of the subpopulations. All of the eight O. sativa ssp. indica cultivars were in the same group P2, indicating the narrow genetic base among the indica cultivars.