African Journal of
Agricultural Research

  • Abbreviation: Afr. J. Agric. Res.
  • Language: English
  • ISSN: 1991-637X
  • DOI: 10.5897/AJAR
  • Start Year: 2006
  • Published Articles: 5836

Full Length Research Paper

Single nucleotide polymorphism (SNP)-based genetic diversity in a set of Burkina Faso cowpea germplasm

Teyioué Benoit Joseph Batieno
  • Teyioué Benoit Joseph Batieno
  • Institut de l’Environnement et de Recherches Agricoles (INERA) Burkina Faso.
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Oumarou Souleymane
  • Oumarou Souleymane
  • National Institute for Agronomic Research of Niger (INRAN), Niger.
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Jean-Baptiste, Tignegre
  • Jean-Baptiste, Tignegre
  • World Vegetable Centre (AVRDC), Mali.
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Bao-Lam, Huynh
  • Bao-Lam, Huynh
  • Department of Botany and Plant Sciences, University of California Riverside, (UCR), USA.
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Francis Kusi
  • Francis Kusi
  • Council for Scientific and Industrial Research-Savanna Agricultural Research Institute (CSIR-SARI), Ghana.
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S. Leandre Poda
  • S. Leandre Poda
  • Institut de l’Environnement et de Recherches Agricoles (INERA) Burkina Faso.
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Timothy J, Close
  • Timothy J, Close
  • Department of Botany and Plant Sciences, University of California Riverside, (UCR), USA.
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Philip, Roberts
  • Philip, Roberts
  • Department of Botany and Plant Sciences, University of California Riverside, (UCR), USA.
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Eric Danquah
  • Eric Danquah
  • West Africa Centre for Crop Improvement/ University of Ghana (WACCI/UG), Ghana.
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Kwadwo Ofori
  • Kwadwo Ofori
  • West Africa Centre for Crop Improvement/ University of Ghana (WACCI/UG), Ghana.
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Tinga Jeremy, Ouedraogo
  • Tinga Jeremy, Ouedraogo
  • African Union, NEPAD Biosafety, Senegal.
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  •  Received: 14 March 2018
  •  Accepted: 10 April 2018
  •  Published: 10 May 2018

Abstract

The potential of cowpea to address food security in Burkina Faso in particular is well established as it is a nutritious, cash and cover crop. However, there is limited information on existing germplasm diversity in Burkina Faso. This study was designed to gather some information on the genetic diversity in a set of cowpea lines introduced from different breeding programs. The diversity was therefore assessed using 181 single nucleotide polymorphism (SNP) markers on 50 cowpea lines. Leaf samples of young plants were collected using LGC genomics genotyping platform protocols for DNA extraction and genotyping. Data were then analyzed using 3 software for pair-wise distance, phylogenetic pattern by UPGMA and for the descriptive statistics determination. The phylogenetic pattern of this germplasm revealed seven clusters. The lines were almost grouped based on their geographical origin, and the breeding background. Thus, materials which originated from Burkina Faso were clustered in the same group while those from IITA/Nigeria were also almost all clustered in the same group. The genetic distance was low (≤0.29) suggesting a narrow genetic base in the cowpea germplasm used in this study. SNPs were efficient in the study of the diversity and a core collection of 20 lines was generated for further use in the breeding program.

Key words: Cowpea, single nucleotide polymorphisms (SNPs), genetic diversity, germplasm, Burkina Faso.