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<p>To access genetic diversity and strategize germplasm conservation for posterity, a total of 478 oil palm (<i>Elaeis guineensis</i>) accessions from 11 origins in Africa were analysed via genotype-by-sequencing (GBS). The GBS revealed 7048 high-quality single nucleotide polymorphism (SNP) markers distributed across the 16 oil palm chromosomes. Polymorphic information content (PIC) and the genetic diversity parameters estimated using the SNPs revealed higher diversity for palms from the Nigerian collection, compared to other origins. Furthermore, only the Nigerian population possess private allele with the frequency of 0.016. Analysis of molecular variance (AMOVA) showed major variation occurred within the populations (74%). We also found a high geneflow and low Fst between Angola and Zaire populations. Population structure analysis revealed that the germplasm palms were stratified into six subpopulations with admixture in palms from Nigeria, Cameroon, Ghana, Sierra Leone and Guinea Conakry. Rapid linkage disequilibrium decay was observed, at 1.69&#xa0;kb for r<sup>2</sup> = 0.1. A core collection could be established by conserving 96 palms, which together preserved all the alleles present in the germplasm collection.</p>

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Exploring diversity in African oil palm (Elaeis guineensis Jacq.) germplasm populations via genotyping-by-sequencing

  • 期刊论文

  • 发表日期：

    2025年1月10日

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  • Siti Hazirah Zolkafli,
  • Marhalil Marjuni,
  • Norziha Abdullah,
  • Rajinder Singh,
  • Maizura Ithnin

摘要

To access genetic diversity and strategize germplasm conservation for posterity, a total of 478 oil palm (Elaeis guineensis) accessions from 11 origins in Africa were analysed via genotype-by-sequencing (GBS). The GBS revealed 7048 high-quality single nucleotide polymorphism (SNP) markers distributed across the 16 oil palm chromosomes. Polymorphic information content (PIC) and the genetic diversity parameters estimated using the SNPs revealed higher diversity for palms from the Nigerian collection, compared to other origins. Furthermore, only the Nigerian population possess private allele with the frequency of 0.016. Analysis of molecular variance (AMOVA) showed major variation occurred within the populations (74%). We also found a high geneflow and low Fst between Angola and Zaire populations. Population structure analysis revealed that the germplasm palms were stratified into six subpopulations with admixture in palms from Nigeria, Cameroon, Ghana, Sierra Leone and Guinea Conakry. Rapid linkage disequilibrium decay was observed, at 1.69 kb for r2 = 0.1. A core collection could be established by conserving 96 palms, which together preserved all the alleles present in the germplasm collection.