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Single Nucleotide Polymorphism (SNP) Markers Discovery within Musa spp (Plantain Landraces, AAB Genome) for Use in Beta Carotene (Provitamin A) Trait Mapping
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Volume 1, 2013
Issue 1 (December)
Pages: 11-19   |   Vol. 1, No. 1, December 2013   |   Follow on         
Paper in PDF Downloads: 23   Since Aug. 28, 2015 Views: 1661   Since Aug. 28, 2015
Authors
[1]
MMEKA, Ebelechukwu C, Department of Botany, university of Ibadan, Ibadan, Nigeria; Bioscience Centre, International Institute of Tropical Agriculture, IITA, Ibadan, Nigeria; Department of Botany, Nnamdi Azikiwe University, Awka, Anambra State, Nigeria.
[2]
ADESOYE, Adenubi I, Department of Botany, university of Ibadan, Ibadan, Nigeria.
[3]
VROH, Bi I, Bioscience Centre, International Institute of Tropical Agriculture, IITA, Ibadan, Nigeria.
[4]
UBAOJI, Kingsley I, Department of Biochemistry, Nnamdi Azikiwe University, Awka, Anambra State, Nigeria.
Abstract
The need for biofortification of staple crops has become the concern of Modern Nutritional Genomics in producing staple crops with the ability of accumulating high micronutrients. Beta-carotene (Provitamin A) biosynthesis pathway is a stepwise process which is coded by two main genes; phytoene synthase (PSY) and lycopene beta-cyclase (LYB). These two important genes LYB 7 and PSY 1 1 were amplified, sequenced and analyzed within various diploid and triploid plantain landraces to identify SNPs present and to study their potentials for mapping the quantitative trait loci in those genes brought about by climatic variation within plantain landraces over time and also reveal their phylogenetic relationship. A total of 7 SNPs were found in the two genes from 68 genotypes used for PSY 11 and 35 plantain genotypes for LYB 7 gene. A frequency of 1 SNP per 80bp was detected in LYB 7 and I SNP per 32bp in PSY 11 gene of 160 bp sequences each. The allelic diversity was 0.0286 in LYB 7 and 0.0147 to 0.0294 in PSY 11. The phylogenetic relationship revealed that the genotypes for LYB 7 gene follow two distinct lines of evolution whereas in PSY 11 gene, the genotypes are similar with Zue and Sel advancing a bit. From the research, the high frequency of SNPs detected showed that it is sufficient in mapping the quantitative trait loci associated with high beta-carotene synthesis and could be incorporated in plantain breeding program.
Keywords
LYB 7, PSY 11, Indels, Musa Species, ORF, Quantitative Trait, SNPs, Transition, Transversion
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