Simple sequence repeat (SSR) markers survey of the cassava (Manihot esculenta Crantz) genome: towards an SSR-based molecular genetic map of cassava

Stephenson, Pauline; Edwards, Keith J.; Melzer, Siegbert; Nkumbira, J.; Gullberg, Urban; Apel, Klaus; Gale, M. D.; Tohmé, Joe; Fregene, Martin A.

doi:10.1007/s001220051614

Cited by 191 publications

(177 citation statements)

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“…DNA markers and statistical methods for mapping quantitative trait loci (QTLs) represent powerful tools for understanding the inheritance of quantitative traits (Rami et al 1998). The genetic map of cassava (Fregene et al, 1997;Mba et al 2001) provides DNA markers on genome wide basis to study the genetics of productivity and the plant architecture of cassava. Molecular information on the inheritance of traits will permit the design of appropriate breeding schemes to more efficiently produce improved genotypes and good parents.…”

Section: Introductionmentioning

confidence: 99%

Genetic mapping of QTLs affecting productivity and plant architecture in a full-sib cross from non-inbred parents in Cassava (Manihot esculenta Crantz)

Okogbenin

Fregene

2003

Theor Appl Genet

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Section: Introductionmentioning

confidence: 99%

Genetic mapping of QTLs affecting productivity and plant architecture in a full-sib cross from non-inbred parents in Cassava (Manihot esculenta Crantz)

Okogbenin

Fregene

2003

Theor Appl Genet

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“…These results can be explained by a low number of loci evaluated here. The use of a higher number of SSR loci, available at Mba et al (2001) and Raji et al (2009), might contribute for the increase in the consistency of these groups. But still, we can conclude that a tendency for separation of the two types of varieties exists.…”

Section: Resultsmentioning

confidence: 99%

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

et al. 2011

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This study was carried out in order to assess the genetic diversity of 20 cassava (Manihot esculenta Crantz) genotypes with high phenotypic performance using microsatellite markers. Two groups were considered for this study: eleven varieties for industrial uses and nine for household consumption. By using nine microsatellite primers, high polymorphism was identified in all the loci analyzed, with values reaching 100%. On average, 3.4 alleles per locus were found, with 0.371 the value estimated for the observed heterozygosity and 0.555 for gene diversity for the entire set of varieties. The genetic variability found in both varieties, cultivated on a large-scale in the South Center region of Brazil, is wide enough to allow the choice of divergent parental genotypes to be used in crosses to obtain new recombinant genotypes. Furthermore, the analyses indicated a high genetic variability within the two groups (I: varieties for industrial uses; II: varieties for household consumption). However, varieties for household consumption attain higher genetic variability, probably due to high priority placed on selection of different sensorial traits. In the cluster analysis, a tendency for separation of varieties for industrial use and household consumption was verified. Our results represent an important source of information to the cassava breeding program in Brazil.Key words: Manihot esculenta, genetic diversity, germplasm, microsatellites. Avaliação comparativa da diversidade genética de variedades brasileiras de mandioca industriais e de mesa usando marcadores SSR ResumoEste estudo teve como objetivo avaliar a diversidade genética de 20 genótipos de mandioca (Manihot esculenta Crantz) com alto desempenho fenotípico, utilizando marcadores microssatélites. Foram considerados dois grupos: onze variedades para fins industriais e nove variedades de mesa. A partir de nove iniciadores foi identificado alto polimorfismo para todos os locos analisados, atingindo valores de 100%. Em média, foram encontrados 3,4 alelos por loco, sendo 0,371 o valor estimado para a heterozigosidade observada e 0,555 para a diversidade gênica, no conjunto total de variedades comerciais avaliadas. A variabilidade genética observada em ambos os grupos de variedades, cultivadas em larga escala na Região Centro-Sul do Brasil, é ampla o suficiente para permitir a escolha de genótipos parentais divergentes para serem utilizados em cruzamentos para obter novos genótipos recombinantes. Além disso, as análises revelaram alta variabilidade genética dentro dos dois grupos (I: variedades industriais; II variedades de mesa). Contudo, nas variedades de mesa houve maior diversidade genética, provavelmente devido à alta prioridade dada às características sensoriais. Pela análise de agrupamento, verificamos uma tendência para a separação das variedades industriais das de mesa. Os resultados representam importante fonte de informação para programas de melhoramento de mandioca no Brasil.

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“…The molecular markers that were used in MAS to identify potential resistance sources included an RME1 marker (Fregene et al, 2006), SCAR (Sequence-Characterized Amplified Region) and the four microsatellites NS158 (Fregene et al, 2006), NS169 (Okogbenin et al, 2012), SSRY28 (Akano et al, 2002) and SSRY40 (Mba et al, 2001) (Table 1), while the linkage map for the markers that were associated with CMD2 is presented in Figure 1.…”

Section: Assisted Molecular Markermentioning

confidence: 99%

Molecular-assisted selection for resistance to cassava mosaic disease in Manihot esculenta Crantz

Carmo

Silva

Oliveira

et al. 2015

Sci. agric. (Piracicaba, Braz.)

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The geminivirus complex known as cassava mosaic disease (CMD) is one of the most devastating viruses for cassava (Manihot esculenta Crantz). The aim of this study was to use molecular-assisted selection (MAS) to identify CMD-resistant accessions and ascertain promising crosses with elite Brazilian varieties. One thousand two hundred twenty-four accessions were genotyped using five molecular markers (NS169, NS158, SSRY028, SSRY040 and RME1) that were associated with resistance to CMD, along with 402 SNPs (single-nucleotide polymorphism). The promising crosses were identified using a discriminant analysis of main component (DAPC), and the matrix of genomic relationship was estimated with SNP markers. The CMD1 gene, previously described in M. glaziovii, was not found in M. esculenta. In contrast, the CMD2 gene was found in 5, 4 and 5 % of cassava accessions, with flanking markers NS169+RME1, NS158+RME1 and SSRY28+RME1, respectively. Only seven accessions presented all markers linked to the CMD resistance. The DAPC of the seven accessions along with 17 elite cassava varieties led to the formation of three divergent clusters. Potential sources of resistance to CMD were divided into two groups, while the elite varieties were distributed into three groups. The low estimates of the genomic relationship (ranging from -0.167 to 0.681 with an average of 0.076) contributed to the success in identifying contrasting genotypes. The use of MAS in countries where CMD is a quarantine disease constitutes a successful strategy not only for identifying the resistant accessions but also for determining the promising crosses.

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Simple sequence repeat (SSR) markers survey of the cassava (Manihot esculenta Crantz) genome: towards an SSR-based molecular genetic map of cassava

Cited by 191 publications

References 20 publications

Genetic mapping of QTLs affecting productivity and plant architecture in a full-sib cross from non-inbred parents in Cassava (Manihot esculenta Crantz)

Genetic mapping of QTLs affecting productivity and plant architecture in a full-sib cross from non-inbred parents in Cassava (Manihot esculenta Crantz)

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

Molecular-assisted selection for resistance to cassava mosaic disease in Manihot esculenta Crantz

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