Genetic diversity and population structure of maize landraces from Cte dIvoire

Annicet, Nâ€TMDA Hugues; Akanvou, L.; Desire, Pokou Nâ€TMda; Paul, Amrit Kumar; Konan, Kouakou Charles; Arsène, Zoro Bi Irié

doi:10.5897/ajb2016.15678

Cited by 7 publications

(4 citation statements)

References 36 publications

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“…This observation was consistent with the AMOVA results ( Table 2 ), which indicated that 14% of the total variation was accounted for by gene pool variations. This result is consistent with the findings of previous studies [ 42 ]. According to the F ST values, the Burkinabe gene pool was the most differentiated ( Table 3 ), in agreement with its divergence as revealed by the clustering methods (STRUCTURE, PCoA, DAPC, and NJ analyses).…”

Section: Discussionsupporting

confidence: 94%

Genomic Analysis of Selected Maize Landraces from Sahel and Coastal West Africa Reveals Their Variability and Potential for Genetic Enhancement

Nelimor

Badu‐Apraku

Garcia‐Oliveira

et al. 2020

Genes

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Genetic adaptation of maize to the increasingly unpredictable climatic conditions is an essential prerequisite for achievement of food security and sustainable development goals in sub-Saharan Africa. The landraces of maize; which have not served as sources of improved germplasm; are invaluable sources of novel genetic variability crucial for achieving this objective. The overall goal of this study was to assess the genetic diversity and population structure of a maize panel of 208 accessions; comprising landrace gene pools from Burkina Faso (58), Ghana (43), and Togo (89), together with reference populations (18) from the maize improvement program of the International Institute of Tropical Agriculture (IITA). Genotyping the maize panel with 5974 DArTseq-SNP markers revealed immense genetic diversity indicated by average expected heterozygosity (0.36), observed heterozygosity (0.5), and polymorphic information content (0.29). Model-based population structure; neighbor-joining tree; discriminant analysis of principal component; and principal coordinate analyses all separated the maize panel into three major sub-populations; each capable of providing a wide range of allelic variation. Analysis of molecular variance (AMOVA) showed that 86% of the variation was within individuals; while 14% was attributable to differences among gene pools. The Burkinabe gene pool was strongly differentiated from all the others (genetic differentiation values >0.20), with no gene flow (Nm) to the reference populations (Nm = 0.98). Thus; this gene pool could be a target for novel genetic variation for maize improvement. The results of the present study confirmed the potential of this maize panel as an invaluable genetic resource for future design of association mapping studies to speed-up the introgression of this novel variation into the existing breeding pipelines.

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Section: Discussionsupporting

confidence: 94%

Genomic Analysis of Selected Maize Landraces from Sahel and Coastal West Africa Reveals Their Variability and Potential for Genetic Enhancement

Nelimor

Badu‐Apraku

Garcia‐Oliveira

et al. 2020

Genes

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“…In our study, the mean coefficient of genetic differentiation between accessions was identified as F = 0.16 ( Table 3 ). This result is in accordance with the result found in maize landraces from Mexico by Pineda-Hidalgo et al (2013) [ 42 ] as well as that recorded in maize landrace accessions of the Ivory Coast in 2016 [ 43 ]. Furthermore, the F index mean within the groups of populations from the three regions of South Sudan (southern region, central region, and northern region) was F = 0.37 ( Table 4 ).…”

Section: Discussionsupporting

confidence: 93%

Genetic Diversity and Population Structure of Normal Maize Germplasm Collected in South Sudan Revealed by SSR Markers

Mathiang

Jin

Park

et al. 2022

Plants

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Maize is one of the leading global cereals, and in South Sudan maize cultivation occurs in nearly all of the country’s agro-ecological zones. Despite its widespread cultivation, farmers in South Sudan depend on undeveloped varieties, which results in very low yields in the field. In the current study, 27 simple sequence repeat (SSR) markers were used to investigate genetic diversity and population structures among 37 landrace maize accessions collected from farmers’ fields in South Sudan. In total, 200 alleles were revealed with an average of 7.4 alleles per locus and a range from 3.0 to 13.0 alleles per locus. The observed heterozygosity values ranged from 0.06 to 0.91 with an average of 0.35. High polymorphic information content (PIC) values were identified with a mean of 0.69, which indicates the informativeness of the chosen SSR loci. Genetic structure analysis revealed a moderate genetic differentiation among the maize populations with a fixation index of 0.16, while there was very high genetic differentiation within the groups of populations of three regions with a mean fixation index (F) of 0.37. An unweighted pair group method with an arithmetic mean (UPGMA) dendrogram clustered the 37 maize accessions into three groups with 43% genetic similarity. The clustering pattern of the maize accessions was moderately consistent with their collection area. The findings of this study will provide maize breeders with a better understanding of maize diversification as well as a reserve of genetic resources for use in the selection of advantageous and useful resources for the development of maize varieties in South Sudan.

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“…Allelic patterns across these three populations show the presence of private alleles and implication for breeding is that the private alleles are an indication of new genes that could be crucial in stress tolerance. It was therefore prudent to do an analysis between the standard lines and the J lines in order to illustrate where the unique genes might be, the AMOVA observed greater variation within (90%) accessions than between (10%) them and this was similar to the findings reported by Nda et al (2016). Allelic patterns of the populations revealed that the J lines had private alleles meaning they have unique genes.…”

Section: Discussionsupporting

confidence: 74%

Molecular characterization of a farmer-preferred maize landrace population from a multiple-stress-prone subtropical lowland environment

Makore

Gasura

Souta³

et al. 2021

Biodiversitas

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Abstract. Makore F, Gasura E, Souta C, Mazamura U, Derera J, Zikhali M, Kamutando CN, Magorokosho C, Dari S. 2021. Molecular characterization of a farmer-preferred maize landrace population from a multiple-stress-prone subtropical lowland environment. Biodiversitas 22: 769-777. The study was conducted to assess genetic diversity of 372 maize lines using 116 single nucleotide polymorphism (SNP) markers. Three hundred and forty-seven lines were S1 lines (coded J lines) from a local maize landrace population and twenty-five were the widely used standard lines. The number of alleles per marker ranged from two to four and the average was three alleles. The average polymorphic information content (PIC) value of 0.405 indicates high genetic diversity for maize lines evaluated in this study. Population structure revealed three distinct sub-populations. Sub-population 1 contained two J lines; sub-population 2 contained five J lines and sub-population 3 contained the rest of the J lines and all the standard lines. Analysis of molecular variance (AMOVA) identified 22% variance among and 78% variance within the three subpopulations, indicating high gene exchange and low genetic differentiation. Hierarchical cluster analysis further divided the lines into nine subgroups placing some of the J lines into known heterotic groups', i.e., J30_3, J393_4, J393_3, and J393_1 in CIMMYT heterotic group B. Allelic variation observed can be a source of allele combination for breeding programs interested in widening their genetic base. The private alleles that were present in the J lines suggest availability of stress-tolerant genes that breeders can incorporate in new hybrids.

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Genetic diversity and population structure of maize landraces from Cte dIvoire

Cited by 7 publications

References 36 publications

Genomic Analysis of Selected Maize Landraces from Sahel and Coastal West Africa Reveals Their Variability and Potential for Genetic Enhancement

Genomic Analysis of Selected Maize Landraces from Sahel and Coastal West Africa Reveals Their Variability and Potential for Genetic Enhancement

Genetic Diversity and Population Structure of Normal Maize Germplasm Collected in South Sudan Revealed by SSR Markers

Molecular characterization of a farmer-preferred maize landrace population from a multiple-stress-prone subtropical lowland environment

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