Development of microsatellite markers in potato and their use in phylogenetic and fingerprinting analyses

Ashkenazi, Varda; Chani, Eduard; Lavi, Uri; Levy, David; Hillel, J.; Veilleux, Richard E.

doi:10.1139/g00-096

Cited by 69 publications

(63 citation statements)

References 56 publications

(58 reference statements)

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“…Several other studies have also reported the high incidence of AT-based repeats in tomato (Smulders et al 1997;Areshchenkova and Ganal 2002;Suliman-Pollatschek et al 2002;He et al 2003), potato (Ashkenazi et al 2001), and other plants (Morgante and Olivieri 1993;Wang et al 1994). In addition, the present study identified a considerable proportion (25%) of compound or mixed repeats.…”

Section: Survey Of Ssrs For Polymorphism Across Tomato Varieties and mentioning

confidence: 88%

Development of a set of PCR-based anchor markers encompassing the tomato genome and evaluation of their usefulness for genetics and breeding experiments

et al. 2005

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Tomato and potato expressed sequence tag (EST) sequences contained in the solanaceae genomics network (SGN) database were screened for simple sequence repeat (SSR) motifs. A total of 609 SSRs were identified and assayed on Solanum lycopersicum LA925 (formerly Lycopersicon esculentum) and S. pennellii LA716 (formerly L. pennellii). The SSRs that did not amplify, gave multiple band products, or did not exhibit a polymorphism that could be readily detected on standard agarose gels in either of these species were eliminated. A set of 76 SSRs meeting these criteria was then placed on the S. lycopersicum (LA925) · S. pennellii (LA716) high-density map. A set of 76 selected cleaved amplified polymorphism (CAP) markers was also developed and mapped onto the same population. These 152 PCR-based anchor markers are uniformly distributed and encompass 95% of the genome with an average spacing of 10.0 cM. These PCRbased markers were further used to characterize S. pennellii introgression lines (Eshed and Zamir, Genetics 141:1147-1162 and should prove helpful in utilizing these stocks for high-resolution mapping experiments. The majority of these anchor markers also exhibit polymorphism between S. lycopersicum and two wild species commonly used as parents for mapping experiments, S. pimpinellifolium (formerly L. pimpinellifolium) and S. habrochaites (formerly L. hirsutum), indicating that they will be useful for mapping in other interspecific populations. Sixty of the mapped SSRs plus another 49 microsatellites were tested for polymorphism in seven tomato cultivars, four S. lycopersicum var. cerasiforme accessions and eight accessions of five different wild tomato species. Polymorphism information content values were highest among the wild accessions, with as many as 13 alleles detected per locus over all accessions. Most of the SSRs (90%) had accession-specific alleles, with the most unique alleles and heterozygotes usually found in accessions of selfincompatible species. The markers should be a useful resource for qualitative and quantitative trait mapping, marker-assisted selection, germplasm identification, and genetic diversity studies in tomato. The genetic map and marker information can be found on SGN (http:// www.sgn.cornell.edu).

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Section: Survey Of Ssrs For Polymorphism Across Tomato Varieties and mentioning

confidence: 88%

Development of a set of PCR-based anchor markers encompassing the tomato genome and evaluation of their usefulness for genetics and breeding experiments

et al. 2005

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“…Sin embargo, los más utilizados y aceptados han sido los SSRs (Single Sequence Repeat) o microsatélites (Schneider y Douches, 1997;Ashkenazi et al, 2001;Ghislain et al, 2001b;Norero et al, 2003). Los SSRs presentan mayor simplicidad tecnológica en relación a RFLP y AFLP, y no requieren alta concentración y calidad de ADN.…”

Section: Introductionunclassified

Uso de Marcadores SSR para Identificación de Germoplasma de Papa en el Programa de Mejoramiento de INIA de Chile

2007

Agric. Téc.

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A B S T R A C TMolecular markers based on Simple Sequence Repeats (SSR) are a very efficient tool for potato (Solanum tuberosum L.) genotype identification and can be very useful for germplasm conservation and management. With the purpose of incorporate this technology into the potato breeding program of the National Institute of Agricultural Research (INIA) Chile, a set of 26 SSR markers was evaluated on a sample of 71 potato genotypes. Each marker was characterized for number and combinations of alleles, scoring quality, polymorphic information content (PIC) and discrimination power (D). From the total, only 21 SSR markers showed up scoreable products and the allele number ranged between 2 and 17. The observed allelic combinations among the different potato genotypes ranged from 2 to 47; however, unique genotypes detected by each SSR marker ranged from 0 to 38. The observed (Do) and expected (Dj) discriminatory power ranged from 0.23 to 0.98 and from 0.43 to 0.92, respectively. The seven SSR markers which showed the highest Do scores were STM1009 (0.98), STM1020 (0.97), STM0031 (0.97), STM2013 (0.96), STM1008 (0.94), STM1052 (0.93) and STM0019 (0.91). The STM1009, STM1020 and STM1008 markers are multi-loci SSR, where each one amplifies more than one locus of the potato genome. The utilization of the multi-loci type of marker, or combinations of several SSR markers in either PCR-multiplex or pseudo-multiplex reactions, are good options to increase the speed and reduce the cost of SSR markers application.

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“…Another important point is that the DNA sequences flanking the SSRs are conserved within the same species, allowing the selection of specific primers that amplify via PCR. The amplification using a pair of primers complementary to unique sequences that flank, resulting in an enormous fragment length polymorphism This size variation of PCR products is a consequence of the occurrence of different numbers of repeating units within structure of microsatellites (Ashkenazi et al, 2001;Cregan et al, 1999a;McCouch et al, 1997;Morgante & Olivieri, 1993). Thus, alleles may be determined for a given population.…”

Section: Microsatellites -Ssr (Simple Sequence Repeat)mentioning

confidence: 99%

Molecular Markers: Assisted Selection in Soybeans

Gavioli¹

2011

Soybean - Genetics and Novel Techniques for Yield Enhancement

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Development of microsatellite markers in potato and their use in phylogenetic and fingerprinting analyses

Cited by 69 publications

References 56 publications

Development of a set of PCR-based anchor markers encompassing the tomato genome and evaluation of their usefulness for genetics and breeding experiments

Development of a set of PCR-based anchor markers encompassing the tomato genome and evaluation of their usefulness for genetics and breeding experiments

Uso de Marcadores SSR para Identificación de Germoplasma de Papa en el Programa de Mejoramiento de INIA de Chile

Molecular Markers: Assisted Selection in Soybeans

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