Genetic Diversity and Core Collection for Potato (Solanum tuberosum L.) Cultivars from Cameroon as Revealed by SSR Markers

Anoumaa, Mariette; Yao, Nasser; Kouam, Eric Bertrand; Kanmegne, Gabriel; Machuka, Eunice; Osama, Sarah; Nzuki, Inosters; Kamga, Yanick Borel; Fonkou, Théophile; Omokolo, Dénis Ndoumou

doi:10.1007/s12230-017-9584-2

Cited by 20 publications

(17 citation statements)

References 34 publications

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“…In addition to providing further support and having confirmed some of the findings from previous genetic studies on potato (Rocha et al, 2010;Salimi et al, 2016;Song et al, 2016;Anoumaa et al, 2017;Hardigan et al, 2017) our study has also revealed several new findings or observations, providing significant insight into potato genetics and evolution:…”

Section: Discussionsupporting

confidence: 81%

Genomic Analyses Yield Markers for Identifying Agronomically Important Genes in Potato

Colleoni

Zhang

et al. 2018

Molecular Plant

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Wild potato species have substantial phenotypic and physiological diversity. Here, we report a comprehensive assessment of wild and cultivated potato species based on genomic analyses of 201 accessions of Solanum section Petota. We sequenced the genomes of these 201 accessions and identified 6 487 006 high-quality single nucleotide polymorphisms (SNPs) from 167 accessions in clade 4 of Solanum section Petota, including 146 wild and 21 cultivated diploid potato accessions with a broad geographic distribution. Genome-wide genetic variation analysis showed that the diversity of wild potatoes is higher than that of cultivated potatoes, and much higher genetic diversity in the agronomically important disease resistance genes was observed in wild potatoes. Furthermore, by exploiting information about known quantitative trait loci (QTL), we identified 609 genes under selection, including those correlated with the loss of bitterness in tubers and those involved in tuberization, two major domesticated traits of potato. Phylogenetic analyses revealed a north-south division of all species in clade 4, not just those in the S. brevicaule complex, and further supported S. candolleanum as the progenitor of cultivated potato and the monophyletic origin of cultivated potato in southern Peru. In addition, we analyzed the genome of S. candolleanum and identified 529 genes lost in cultivated potato. Collectively, the molecular markers generated in this study provide a valuable resource for the identification of agronomically important genes useful for potato breeding.

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Section: Discussionsupporting

confidence: 81%

Genomic Analyses Yield Markers for Identifying Agronomically Important Genes in Potato

Colleoni

Zhang

et al. 2018

Molecular Plant

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“…In earlier studies, a core set of 48 was defined for capturing the genetic diversity of a collection of 350 tetraploid cultivated potato varieties by using simple sequence repeats (SSR) data 56 . A core set of 27 genotypes was developed from 138 accessions of potato cultivars from the Western Highlands region of Cameroon using www.nature.com/scientificreports/ SSR markers 57 . Core Hunter software has been used for core set selection in earlier studies of different crops, including wheat 58 , Brazilian grapevine germplasm 59 , banana 60 , sweetpotato 61 , and common bean 62 .…”

Section: Discussionmentioning

confidence: 99%

Genetic diversity and population structure of advanced clones selected over forty years by a potato breeding program in the USA

Pandey

Scheuring

Koym³

et al. 2021

Sci Rep

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Knowledge regarding genetic diversity and population structure of breeding materials is essential for crop improvement. The Texas A&M University Potato Breeding Program has a collection of advanced clones selected and maintained in-vitro over a 40-year period. Little is known about its genetic makeup and usefulness for the current breeding program. In this study, 214 potato clones were genotyped with the Infinium Illumina 22 K V3 Potato Array. After filtering, a total of 10,106 single nucleotide polymorphic (SNP) markers were used for analysis. Heterozygosity varied by SNP, with an overall average of 0.59. Three groups of tetraploid clones primarily based on potato market classes, were detected using STRUCTURE software and confirmed by discriminant analysis of principal components. The highest coefficient of differentiation observed between the groups was 0.14. Signatures of selection were uncovered in genes controlling potato flesh and skin color, length of plant cycle and tuberization, and carbohydrate metabolism. A core set of 43 clones was obtained using Core Hunter 3 to develop a sub-collection that retains similar genetic diversity as the whole population, minimize redundancies, and facilitates long-term conservation of genetic resources. The comprehensive molecular characterization of our breeding clone bank collection contributes to understanding the genetic diversity of existing potato resources. This analysis could be applied to other breeding programs and assist in the selection of parents, fingerprinting, protection, and management of the breeding collections.

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“…Onamu & Legaria 30 , en estudio de diversidad genética entre variedades de papa (S. tuberosum L.) cultivadas en México, en el AMOVA indican que la mayor variación se debe a poblaciones dentro de grupos, lo que significa que entre variedades hay diferencias. Anoumaa et al 23 , al analizar la diversidad genética papa S. tuberosum L., en el AMOVA 97% de variación se debió a la diversidad dentro de grupos. Ghebreslassie et al 20 , en la diversidad genética en cultivares de patata (S. tuberosum) con SSR, el 92% de la variación fue observada dentro de la población.…”

Section: Discussionunclassified

“…Valores que corroboran los resultados obtenidos. Asi valores entre 0.112-0.179, ligeramente superiores a los descritos 23. …”

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Análisis de la diversidad de papas (Solanum spp.) con marcadores moleculares microsatélite de los distritos de Secclla y Santo Tomás de Pata (Huancavelica) y Santillana (Ayacucho)

Tenorio-Bautista¹,

Cruz-Marcos²

2019

J. Selva Andina Res. Soc.

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La investigación se realizó con los objetivos de estudiar los perfiles moleculares de la diversidad genética, comparar la variabilidad y distancias genéticas de los marcadores moleculares de papas (Solanum spp.) colectados en campo de cultivo de agricultores de 12 comunidades de los distritos de Secclla, Santo Tomás de Pata y Santillana. Las 128 accesiones fueron cultivadas en bolsas polietileno con dos repeticiones cada una. El muestreo de los foliolos jóvenes se realizó a los 48 días después de la siembra. La extracción del ADN se procedió por el método de CTAB, copias de fragmentos del ADN se obtuvo mediante PCR, que fueron separados por PAGE. En el análisis molecular se empleó 8 pares de marcadores microsatélites. Los resultados se analizaron por los estadísticos, coeficiente Simple Matching, NTSYS 2.10p, método de agrupamiento UPGMA para estimar el polimorfismo y el AMOVA se calculó usando el programa Arlequin (versión 3.0). El PIC promedio fue 0.238, señala la existencia de polimorfismo. La distancia y similitud genética, las poblaciones que exhiben mayor relación genética comprenden, Santillana y Santo Tomás de Pata, denotando que las accesiones de estas poblaciones presentan mayores características en común. El AMOVA muestra que la variabilidad se encuentra dentro de poblaciones (91.55%), y la diferenciación genética entre las tres poblaciones es moderada (FST = 0.08448). © 2019. Journal of the Selva Andina Research Society. Bolivia. Todos los derechos reservados. Palabras clave:Diversidad genética de Solanum spp. Microsatélites, Ayacucho-Huancavelica, polimorfismo de papa, marcadores SSR. Abstract J. Selva Andina Res. Soc.2019; 10(1):4-15.The research was carried out with the objectives of studying the molecular profiles of genetic diversity, comparing the variability and genetic distances of the molecular markers of potatoes (Solanum spp.) which were collected in farmers' field from 12 communities of the Secclla, Santo Tomás de Pata and Santillana districts. The 128 accessions were cultivated in polyethylene bags with two repetitions each. The sampling of the young leaflets was carried out 48 days after sowing. DNA extraction was performed by CTAB method, copies of DNA fragments were obtained by PCR, which were separated by PAGE. In the molecular analysis, 8 pairs of microsatellite markers were used. The results were analyzed by the statistics, Simple Matching coefficient, NTSYS 2.10p, UPGMA grouping method to estimate the polymorphism and the AMOVA was calculated using the Arlequin program (version 3.0). The average PIC was 0.238, indicating the existence of polymorphism. The distance and genetic similarity, the populations that exhibit the greatest genetic relationship include Santillana and Santo Tomás de Pata, denoting that the accessions of these populations have greater common characteristics. The AMOVA shows that the variability is within populations (91.55%), and the genetic differentiation between the three populations is moderate (FST = 0.08448).

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Genetic Diversity and Core Collection for Potato (Solanum tuberosum L.) Cultivars from Cameroon as Revealed by SSR Markers

Cited by 20 publications

References 34 publications

Genomic Analyses Yield Markers for Identifying Agronomically Important Genes in Potato

Genomic Analyses Yield Markers for Identifying Agronomically Important Genes in Potato

Genetic diversity and population structure of advanced clones selected over forty years by a potato breeding program in the USA

Análisis de la diversidad de papas (Solanum spp.) con marcadores moleculares microsatélite de los distritos de Secclla y Santo Tomás de Pata (Huancavelica) y Santillana (Ayacucho)

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