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<p>Bambara groundnut is an indigenous drought tolerant legume cultivated in Africa. In Kenya, the crop is grown by women and the diversity of the accessions grown is unknown. Lack of information on the crop’s diversity and population structure make genetic improvement of the crop difficult. The objectives of this study were to: (i) determine the genetic diversity and population structure of 86 Bambara groundnut accessions from Kenya using 4,399 SNP markers and, (ii) identify SNPs associated with the seed weight of the Bambara groundnut collection. The DArT complexity reduction approach in combination with Illumina short-read sequencing (HiSeq 2000) was applied. Population structure analysis suggested three genetic clusters. Accessions from the same county grouped into different clusters with exception of accessions from Kilifi that distinctly fell into the same cluster. Analysis of molecular variance indicated that 0.16% of the variance was due to genetic differentiation among the populations, 19% of the variance was as a result of differentiation among individuals within populations, and 81% variation was within individuals in a population. The study suggested significant DArTseq derived SNP markers (<i>p</i> &lt; 0.05) distributed across Bambara groundnut contigs 1, 2, 3, and 5 associated with hundred seed weight, though the identified SNPs were not validated. This study provided an important foundation by offering valuable insights into the genetic diversity of Bambara groundnut in traditional cultivation areas in Kenya. These findings can serve as a starting point for further validation and application in Bambara groundnut breeding programs.</p>

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Diversity analysis and genome-wide association studies of seed weight trait in Bambara groundnut (Vigna subterranea (L.) Verdc.) using diversity array technology sequence derived single nucleotide polymorphism markers

  • 期刊论文

  • 发表日期：

    2025年3月10日

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  • Phyllis Muturi,
  • Martina Kyallo,
  • Edmore Gasura,
  • Nasser Yao

摘要

Bambara groundnut is an indigenous drought tolerant legume cultivated in Africa. In Kenya, the crop is grown by women and the diversity of the accessions grown is unknown. Lack of information on the crop’s diversity and population structure make genetic improvement of the crop difficult. The objectives of this study were to: (i) determine the genetic diversity and population structure of 86 Bambara groundnut accessions from Kenya using 4,399 SNP markers and, (ii) identify SNPs associated with the seed weight of the Bambara groundnut collection. The DArT complexity reduction approach in combination with Illumina short-read sequencing (HiSeq 2000) was applied. Population structure analysis suggested three genetic clusters. Accessions from the same county grouped into different clusters with exception of accessions from Kilifi that distinctly fell into the same cluster. Analysis of molecular variance indicated that 0.16% of the variance was due to genetic differentiation among the populations, 19% of the variance was as a result of differentiation among individuals within populations, and 81% variation was within individuals in a population. The study suggested significant DArTseq derived SNP markers (p < 0.05) distributed across Bambara groundnut contigs 1, 2, 3, and 5 associated with hundred seed weight, though the identified SNPs were not validated. This study provided an important foundation by offering valuable insights into the genetic diversity of Bambara groundnut in traditional cultivation areas in Kenya. These findings can serve as a starting point for further validation and application in Bambara groundnut breeding programs.