Molecular Analysis of Potatoes from the Pacific Northwest Tri-State Variety Development Program and Selection of Markers for Practical DNA Fingerprinting Applications

Karaagac, E.; Yilma, S.; Cuesta‐Marcos, Alfonso; Vales, M. I.

doi:10.1007/s12230-013-9338-8

Cited by 19 publications

(19 citation statements)

References 43 publications

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“…The SSR marker STM0019 has been previously reported to be possibly multilocus because multiple bands were detected with ranges of 83–124 bp (STM0019a) and 155–241 bp (STM0019b) (Ghislain, Andrade, Rodríguez, Hijmans, & Spooner, ; Ghislain et al., ; Karaagac et al., ). In this study, we detected bands only between 186 and 206 bp, which correspond to STM0019b.…”

Section: Resultsmentioning

confidence: 99%

“…() and Karaagac et al. (), may also allow the detection of more DNA fragments. Although the studies using SSR markers are considered reproducible, the results may vary with different protocols and techniques used.…”

Section: Resultsmentioning

confidence: 99%

“…Simple sequence repeat markers were selected based on the high levels of polymorphism, discrimination ability, and the quality of band scoring from previous studies (Bali et al, 2017;Ghislain et al, 2004Ghislain et al, , 2009Karaagac, Yilma, Cuesta-Marcos, & Vales, 2014). In total, 10 markers were chosen, of which nine were developed by Milbourne et al (1998) and one was developed by Ghislain et al (2004).…”

Section: Simple Sequence Repeat Amplificationmentioning

confidence: 99%

“…to the second locus. Moreover, IRDye-labeled M13 forward primer and a LI-COR DNA Analyzer system, used by Ghislain et al (2009) and Karaagac et al (2014), may also allow the detection of more DNA fragments. Although the studies using SSR markers are considered reproducible, the results may vary with different protocols and techniques used.…”

Section: Allelic Informationmentioning

confidence: 99%

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Simple sequence repeat analysis of new potato varieties developed in Alberta, Canada

Tillault

Yevtushenko

2019

Plant Direct

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The worldwide demand for potato production requires the constant development of new potato varieties with improved yield, quality, disease resistance, and abiotic tolerance. However, cultivar registration is preceded by a long process to morphologically and physiologically characterize the plants. Notably, this process can be expedited by DNA marker analysis. Simple sequence repeats ( SSR s), also known as microsatellites, are the most common reliable DNA markers used to discriminate between genotypes. In this study, 20 potato varieties, including five new genotypes developed in Alberta, Canada, were fingerprinted using 10 SSR markers selected for their high discriminatory power. Different SSR s were amplified from potato DNA using specific primers, and the DNA fragment sizes were analyzed by denaturing polyacrylamide gel electrophoresis. The number of alleles per locus ranged from two for the SSR marker STP oAc58 to six for STM 0030 and STM 0037 with an average of 4.4. In addition, a total of 77 unique patterns were observed for the 10 SSR markers. The polymorphic information content ranged from 0.477 to 0.802 with an average of 0.675 per locus. In this study, STM 0037, STM 1016, and STM 1104 were found to be the best SSR markers to detect genetic differences between potato varieties. A minimum of two markers was required to distinguish between all 20 genotypes. Most importantly, this highly informative molecular tool confirmed that the developed potato varieties were genetically different from their respective maternal lines and potentially constituted new cultivars.

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Section: Resultsmentioning

confidence: 99%

Section: Resultsmentioning

confidence: 99%

Section: Simple Sequence Repeat Amplificationmentioning

confidence: 99%

Section: Allelic Informationmentioning

confidence: 99%

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Simple sequence repeat analysis of new potato varieties developed in Alberta, Canada

Tillault

Yevtushenko

2019

Plant Direct

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“…Isozyme markers developed in the 1970s were widely used to directly detect the gene products, and have proved to be useful in identification of different potato cultivars (Stegemann and Schnick 1985;Oliver and Martinez-Zapater 1985;Douches and Ludlam 1991). However, isozyme analysis is reported to be affected by plant developmental stage (Hahn and Grifo 1996), and is also limited by the number of loci that can be used (Karaagac et al 2014).…”

Section: Introductionmentioning

confidence: 99%

DNA Fingerprinting and Genetic Diversity Analysis with Simple Sequence Repeat Markers of 217 Potato Cultivars (Solanum tuberosum L.) in China

Duan

Liu

et al. 2018

Am. J. Potato Res.

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Since 1950, more than 620 potato cultivars have been released from Chinese breeding programs, some of which have similar genetic background and phenotype. In this study, 16 parental cultivars widely used in breeding were used to screen 138 simple sequence repeat (SSR) markers. Out of 138 SSR markers, 20 were polymorphic that were used to analyze the genetic diversity of 217 potato cultivars grown in China. In total, 249 alleles were detected with these 20 markers and 244 of them (97.99%) showed polymorphism. The number of alleles ranged from 7 to 22 with an average of 12.45 alleles per primer and polymorphic information content (PIC) ranged from 0.64-0.93 with an average of 0.83. Fragment sizes varied from 80 to 380 bp. Based on PIC values and the clarity of PCR amplification bands, 11 SSR markers were selected and able to differentiate all of the 217 cultivars. The estimated similarity using these polymorphic SSR markers between the cultivars ranged from 0.63 to 0.99, indicating a narrow genetic base. Fingerprinting and genetic diversity analysis in this study provides useful information for the protection of intellectual property, as well as the exploration and utilization of these potato cultivars. Resumen Desde 1950, se han liberado más de 620 variedades de papa de los programas chinos de mejoramiento, algunos de los cuales tienen antecedentes genéticos y fenotipo similares. En este estudio, se usaron 16 variedades parentales utilizadas ampliamente en mejoramiento, para hacer un estudio de 138 marcadores de repeticiones simples de secuencia (SSR). De los 138 marcadores SSR, 20 fueron polimórficos que fueron usados para analizar la diversidad genética de 217 variedades de papa cultivadas en China. En total, se detectaron 249 alelos con estos 20 marcadores y 244 de ellos (97.99%) mostraron polimorfismo. El número de alelos tuvo un rango de 7-22 con un promedio de 12.45 alelos por iniciador, y el contenido de la información polimórfica (PIC) varió de 0.64-0.93 con un promedio de 0.83. Los tamaños de los fragmentos variaron de 80-380 pb. Con base en los valores PIC y la claridad de las bandas de amplificación, se seleccionaron 11 marcadores SSR y fue posible diferenciar a la totalidad de las 217 variedades. La similitud estimada usando estos marcadores polimórficos SSR entre las variedades varió de 0.63 a 0.99, indicando una base genética angosta. Los análisis de huellas y diversidad genética en este estudio proporcionan información útil para la protección de propiedad intelectual, así como para la exploración y utilización de estas variedades de papa.

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Over time variation in microsatellite patterns in a natural wild potato population from northwest Argentina

2021

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The common potato, Solanum tuberosum L. (2n = 4x = 48), has 100-200 related wild taxonomic species endemic to the Americas, which constitute invaluable sources of genetic diversity. They form a polyploid series with 2n = 2x -6x (x = 12) and can reproduce asexually by tubers and stolons and/or sexually by seeds. Information is scarce on their preponderant mode of reproduction and its consequences on the genetic population structure over time. In previous work, a morphologically variable wild potato population from northwestern Argentina was sampled in two consecutive years. Two populations were ex situ regenerated from the sampled propagules (seeds in 2013 and tubers in 2014) for morphological and reproductive studies; these populations exhibited differences in reproductive behavior that could not be related to morphological phenotypes. To ascertain if the observed differences could be related to the captured genetic diversity in each year, a molecular analysis was carried out with seven microsatellite primer pairs located in seven chromosomes of the basic set. The captured genetic diversity, based on the proportion of individuals with a unique pattern of amplified fragments, varied significantly (χ 2 α = .05) between sampling years. This could be due to changes in the preponderant mode of reproduction, differential genotype fitness resulting from genotype × environment interactions, or both.Wild potato accessions at germplasm banks are one-time collection samples; thus, they may not be representative of the genetic diversity of the sampled population.To properly ex situ conserve the available genetic diversity, it is advisable to resample the sites whenever possible and to conform each accession with the successive samples.

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Molecular Analysis of Potatoes from the Pacific Northwest Tri-State Variety Development Program and Selection of Markers for Practical DNA Fingerprinting Applications

Cited by 19 publications

References 43 publications

Simple sequence repeat analysis of new potato varieties developed in Alberta, Canada

Simple sequence repeat analysis of new potato varieties developed in Alberta, Canada

DNA Fingerprinting and Genetic Diversity Analysis with Simple Sequence Repeat Markers of 217 Potato Cultivars (Solanum tuberosum L.) in China

Over time variation in microsatellite patterns in a natural wild potato population from northwest Argentina

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