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Patterns on nucleotide diversity in Meisa1 and G3PHD in wild and cultivated cassava

dc.contributor.authorBeyene, D.
dc.contributor.authorMukasa, S.B.
dc.contributor.authorJansson, C.
dc.contributor.authorVilliers, Etienne P. de
dc.contributor.authorFerguson, M.
dc.contributor.authorRabbi, Ismail Y
dc.contributor.authorKyamanywa, S.
dc.contributor.authorSebuliba, J.
dc.contributor.authorBaguma, Yona K.
dc.date.accessioned2019-12-04T11:04:16Z
dc.date.available2019-12-04T11:04:16Z
dc.date.issued2013
dc.identifier.citationBeyene, D., Mukasa, S.B., Jansson, C., de Villiers, E., Ferguson, M., Rabbi, I.Y., ... & Baguma, Y. (2013). Patterns of nucleotide diversity in Meisa1 and G3pdh in wild and cultivated cassava. SINET: Ethiopian Journal of Science, 36(2), 65-72.
dc.identifier.issn0379-2897
dc.identifier.urihttps://hdl.handle.net/20.500.12478/1385
dc.description.abstractThe distribution and frequency of single nucleotide polymorphisms (SNPs) is an excellent tool for discerning evolutionary relatedness between cultivated and wild plant genomes. This type of information is scanty for the genus Manihot, and thus limiting systematic approaches in the genetic improvement of cassava. Here, we present a detailed description of the comparative patterns of SNPs in Isoamylase1 (Meisa1) and Glyceraldehyde-3-phosphate dehydrogenase (G3pdh) in 10 accessions of wild (Manihot esculenta subsp. flabellifolia) and 12 accessions of cultivated cassava (M. esculenta). The results show that Meisa1 is more variable in cultivated cassava than that in subspecies flabellifolia, where the 954 bp sequence region differs at 1 in 111 and 250 nucleotides of cultivated and wild species, respectively. Frequency analysis shows that SNP occurs once every 42 bp in cultivated and every 70 bp in wild. Tajima’s D test statistics showed that Meisa1 has been evolving under different selection pressures, diversifying in cultivated and purifying in wild. G3pdh is under diversifying selection in both populations. This may indicate the importance for isoamylase1 in starch quality traits in cassava, a trait that is likely to have been the target for artificial selection by farmers and breeders, in addition to natural selection. This study also suggests that G3pdh may be a good marker for phylogeny study while Meisa1 may be useful for intra and inter-cultivar diversity studies. The non-synonymous SNPs that changed the amino acid property were identified and the potential implication of the change in protein function was analyzed and discussed.
dc.description.sponsorshipSwedish International Development Cooperation Agency
dc.format.extent65-72
dc.language.isoen
dc.subjectCassava
dc.subjectStarch
dc.subjectGenetic Improvement
dc.subjectHybrids
dc.subjectGenotypes
dc.subjectEnzymes
dc.subjectIsoamylase
dc.subjectNucleotides
dc.titlePatterns on nucleotide diversity in Meisa1 and G3PHD in wild and cultivated cassava
dc.typeJournal Article
dc.description.versionPeer Review
cg.contributor.crpRoots, Tubers and Bananas
cg.contributor.affiliationAddis Ababa University
cg.contributor.affiliationMakerere University
cg.contributor.affiliationInternational Livestock Research Institute
cg.contributor.affiliationInternational Institute of Tropical Agriculture
cg.contributor.affiliationNational Crops Resources Research Institute, Uganda
cg.coverage.regionAfrica
cg.coverage.regionWest Africa
cg.coverage.regionEast Africa
cg.coverage.countryNigeria
cg.coverage.countryRwanda
cg.coverage.countryUganda
cg.coverage.countryKenya
cg.authorship.typesCGIAR and developing country institute
cg.iitasubjectCassava
cg.iitasubjectGenetic Improvement
cg.journalEthiopian Journal of Science
cg.howpublishedFormally Published
cg.accessibilitystatusLimited Access
local.dspaceid79526


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