A comparative genetic diversity assessment of industrial and household Brazilian cassava varieties using SSR markers

Siqueira, Marcos Vinícius Bohrer Monteiro; Borges, Aline; Valle, Teresa Losada; Veasey, Elizabeth Ann

doi:10.1590/s0006-87052011000400003

Cited by 5 publications

(9 citation statements)

References 19 publications

(17 reference statements)

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“…Previous genetic studies found high genetic diversity into cultivated M. esculenta in different regions of Brazil (Elias et al, 2004;Peroni et al, 2007;Siqueira et al, 2011;Mühlen et al, 2013). High genetic heterozygosity values have been confirmed even in countries outside of the area of domestication of manioc, such as in Puerto Rico (Montero-Rojas et al, 2011), Uganda (Turyagyenda et al, 2012), and Thailand (Fu et al, 2014).…”

Section: Discussionmentioning

confidence: 96%

“…The geographic pattern was considered a minor cause of genetic structure in earlier studies on genetic diversity of traditional manioc varieties (Elias et al, 2004;Siqueira et al, 2011). However, Mühlen et al (2013) identified some geographic structure at K = 3 and K = 4, although these were less significant than the K = 2 sweet-bitter dichotomy, which was also observed by Elias et al (2004).…”

Section: Discussionmentioning

confidence: 99%

“…However, no such structure was observed, possibly due to lack of geographical barriers in the network of interchange of genetic material among manioc farmers in the Amazon basin. The migration of human populations is one among the possible reasons for closer resemblance among varieties across regions (Siqueira et al, 2011). Moreover, manioc farmers enjoy diversity and eagerly acquire new landraces (Elias et al, 2004).…”

Section: Discussionmentioning

confidence: 99%

“…They also concluded that these markers were informative for variety discrimination in manioc. However, simple sequence repeats (SSRs) have the additional advantage of being a very informative codominant marker for genetic population analyses (Kalia et al, 2011), and have been used in numerous studies of genetic diversity and structure in Brazilian manioc varieties (Alves-Pereira et al, 2011;Siqueira et al, 2011;Mühlen et al, 2013;Costa et al, 2013). Advances in genotyping with microsatellites or SSRs have facilitated the quantification of genetic diversity and the identification of genotypes with specific loci in many GenBanks (Aiemnaka et al, 2012;Paiva, 2013).…”

Section: Introductionmentioning

confidence: 99%

See 3 more Smart Citations

Farmer variety exchange along Amazonian rivers influences the genetic structure of manioc maintained in a regional Brazilian GeneBank

Sousa¹,

Silva²,

Dias³

et al. 2017

Genet. Mol. Res.

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Section: Discussionmentioning

confidence: 96%

Section: Discussionmentioning

confidence: 99%

Section: Discussionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

See 2 more Smart Citations

Farmer variety exchange along Amazonian rivers influences the genetic structure of manioc maintained in a regional Brazilian GeneBank

Sousa¹,

Silva²,

Dias³

et al. 2017

Genet. Mol. Res.

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“…Marcadores moleculares, como RAPD (Random Amplified Polymorphic DNA), AFLP (Amplified Fragment Length Polymorphism) e microssatélites têm sido utilizados com sucesso no estudo da variabilidade genética da mandioca (BREECHING et al, 1993;COLOMBO et al, 1998COLOMBO et al, , 2000CARVALHO et al, 2000;ELIAS et al, 2000;SCHAAL, 2001;SCHAAL, 2001;ASSANTE;OFDEI, 2003;FREGENE et al, 2003;ELIAS et al, 2004;LOKKO, et al, 2006;KIZITO et al, 2007;MOYIB et al, 2007;RIMOLDI et al, 2010;SIQUEIRA et al, 2009SIQUEIRA et al, , 2010SIQUEIRA et al, e 2011LEKHA et al, 2011;VIEIRA et al, 2011;ALVES-PEREIRA et al, 2012 SCHAAL et al, 2001;FARALDO et al, 2002;FREGENE et al, 2003;MKUMBIRA et al, 2003;BRESSAN et al, 2004;ELIAS et al, 2004;PERONI et al, 2007;MOYB et al, 2007;ROCHA et al, 2008;PEREIRA, 2008;SIQUEIRA et al, 2009SIQUEIRA et al, , 2010SIQUEIRA et al, , 2011LEKHA et al,. 2011;OLIVEIRA et al, 2012;ALVES-PEREIRA et al, 2012).…”

Section: Marcadores Molecularesunclassified

Diversidade agronômica, bioquímica e molecular de acessos de mandioca (Manihot esculenta Crantz) coletados em diferentes regiões do Brasil

Mezette¹

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Agronomic, biochemical and molecular diversity among cassava accessions (Manihot esculenta Crantz) collected in different regions in BrazilA relevant species as food source for the world population, especially for the underdeveloped and emerging countries, is cassava (Manihot esculenta Crantz). Primarily, cassava is a provider of energy from starch accumulated in its roots, but the presence of carotenoids with pro-vitamin A activity is also important. In this context, the objective of this study was to characterize the agronomic, biochemical and molecular diversity of cassava accessions selected for the color of their roots, collected in the Amazon, Central-West, Southeast and South regions in Brazil. The characterization was performed from 81 genotypes (33 from the Amazon region, 24 from Central-West, 18 from Southeast, four from the South and two commercial varieties) using 16 agronomic traits, five biochemical characters and 17 microsatellite loci. For biochemical and agronomic traits analyses of variance, Tukey test and Mahalanobis distances were obtained considering the region of origin of the genotypes. For microsatellite markers, indices of genetic diversity were estimated, such as number of alleles per locus (A), percentage of polymorphic loci (P), observed (H o ) and expected (H e ) heterozygosities, as well as the structuring of diversity between and within groups (H S , H T , D ST and G ST ). Also, a cluster analysis was obtained using the Neighbor-Joining method and Nei´s genetic distance, as well as a Bayesian analysis. Moreover, the distances obtained for all characters were correlated using the Mantel test. Results indicate high variability for all characters evaluated. For most of agronomic traits there was significant variation between and within regions. All biochemical characters showed highly significant variation between and within regions. Taking into account the agronomic characters, there was a tendency for the Amazon genotypes to be grouped together, where the characteristics total plant height, height of the first branch, relationship between these characteristics and harvest index were those that mostly determined the genotypes distribution. For the biochemical characters, the Amazon genotypes were also grouped due to the high concentration of cyanogenic compounds and total carotenoids. Molecular markers indicated high genetic variability (A = 3.58; P = 100%; H o = 0.535; H e = 0.642), while most of total diversity (H T = 0.651) was found within regions (H S = 0.643). In the cluster analysis a tendency was observed towards a structured genetic variability, with the grouping of most genotypes collected in the Amazon region. The Bayesian analysis separated the genotypes in two groups, with one of the groups including most of the Amazon genotypes, in accordance with the cluster analysis. The correlations between the distances obtained for all characters were not significant. Considering the genotypes content of cyanogenic compounds and the distance between them from the microsate...

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DArTSNPbased genetic diversity analyses in cassava (Manihot esculenta) genotypes sourced from different regions revealed high level of diversity within population

NeimSemman,

Abush Tesfaye,

Ismael Rabbi

et al. 2024

Preprint

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Understanding the extent of genetic diversity is a pre requisite in cassava breeding program due to its, available broad genetic base of the crop and have great opportunity for its genetic improvement. This study was designed to assess the genetic diversity of 184 cassava germplasm sourced from International Institute of Tropical Agriculture (IITA) and previous collection of Jimma Agricultural Research Center (JARC) by using DArTSNPs markers. The data were subjected to imputation and filtering for minor allele frequency of 0.01, 0.95 major allele frequency using TASSEL and Beagle. The resultants 9,310 informative SNPs were retained and used to perform analysis of molecular variance (AMOVA), genetic diversity, population structure, and dissimilarity-based clustering of the tested cassava germplasm. The results of AMOVA revealed higher variation within (91.3%) than between (8.7%) the study populations. The high average PIC (0.44), He (0.50), major allele (0.61) and minor allele (0.28) frequency showed the existence of high variation in the study populations. Population structure analysis grouped the panels into six structures with the existence of admixtures. Similarly, principal component analysis, factor analysis and cluster analysis apparently divided the panels into six clusters. Both the introduced and locally collected germplasm formed three clusters, each creating some mixes of genotypes, indicating that alleles sharing common ancestral background. The overall results, the studied genotypes showed significant variations, which can render opportunity for association mapping and technical conservation purposes.

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A comparative genetic diversity assessment of industrial and household Brazilian cassava varieties using SSR markers

Cited by 5 publications

References 19 publications

Farmer variety exchange along Amazonian rivers influences the genetic structure of manioc maintained in a regional Brazilian GeneBank

Farmer variety exchange along Amazonian rivers influences the genetic structure of manioc maintained in a regional Brazilian GeneBank

Diversidade agronômica, bioquímica e molecular de acessos de mandioca (Manihot esculenta Crantz) coletados em diferentes regiões do Brasil

DArTSNPbased genetic diversity analyses in cassava (Manihot esculenta) genotypes sourced from different regions revealed high level of diversity within population

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