Development and characterisation of simple sequence repeat (SSR) markers for white clover (Trifolium repens L.)

Kölliker, Roland; Jones, E. S.; Drayton, Michelle C.; Dupal, M. P.; Forster, John W.

doi:10.1007/s001220051662

Cited by 78 publications

(64 citation statements)

References 37 publications

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“…Average number of alleles per locus was 4.37, ranging from three (SSR ats070) to six (SSR TRSSRAXX31) ( Table 2). A similar result, with an average of 4.8 alleles per locus was reported by Kölliker et al (2001) in T. repens. In T. pratense, Dias et al (2008), also using SSR found high intrapopulational variability in a core collection of red clover (T. pratense), number of alleles per locus ranging from seven to 12.…”

Section: Resultssupporting

confidence: 87%

Microsatellite diversity and chromosome number in natural populations of Trifolium riograndense Burkart

Conterato

Dall'Agnol

Schifino-Wittmann

et al. 2012

Sci. agric. (Piracicaba, Braz.)

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Section: Resultssupporting

confidence: 87%

Microsatellite diversity and chromosome number in natural populations of Trifolium riograndense Burkart

Conterato

Dall'Agnol

Schifino-Wittmann

et al. 2012

Sci. agric. (Piracicaba, Braz.)

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“…SSR markers can be transferred between related species and genera, which considerably reduces their costs (Ferreira & Grattaplaglia 1998). SSR transferability has been reported to many families of plants, including Fabaceaea (Peakall et al 1998, Kölliker et al 2001) Cucurbitaceae (Katzir et al 1996), Poaceae (Saghai Maroof et al 1994, Röder et al 1995, Thiel et al 2003, Solanaceae , Smulders et al 1997, Nagy et al 2007, Moon et al 2008; Euphorbiaceae (Yu et al 2011) and Bromeliaceae (Sarthou et al 2003, Paggi et al 2008. Thus, in this paper eight microsatellite markers previously developed for Pitcairnia albiflos and five markers developed for Pitcairnia geysksii were used in cross-amplification tests of five other neotropical Bromeliaceae species (Pitcairnia flammea, Aechmea nudicaulis, Aechmea ramosa, Billbergia horrida and Billbergia euphemiae).…”

Section: Introductionmentioning

confidence: 97%

Transferability and characterization of microsatellite markers in five Bromeliaceae species belonging to the subfamilies Pitcairnioideae and Bromelioideae

et al. 2012

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Microsatellite markers previously developed for Pitcairnia albiflos Herb. and Pitcairnia geysksii L.B.Sm. were used in cross-amplification tests of five other Bromeliaceae species. Ten (76.9%) out of the 13 evaluated pair of primers had positive results for some of the species tested. Leaf samples were collected from individuals of these species in natural populations occurring in fragments of the Atlantic Forests, in Burarama, Cachoeiro de Itapemirim, ES. DNA of plant samples were extracted and purified using the cetyltrimethylammonium bromide (CTAB) extraction method, as described by Doyle & Doyle (1990).In order to improve the PCR result, the optimal annealing temperatures of each pair of primers to be tested were determined (between 48 and 56 °C). In all cases, microsatellite loci were amplified in a 15 µL volume containing 0.4 µM of each primer, 1 U Taq DNA polymerase, 0.1 mM of each dNTP, 1 × MgCl 2 -free reaction buffer (10 mM Tris-HCl pH 8.3 and 50 mM KCl), 2 mM MgCl 2 and 30 ng of template DNA.Amplifications were performed using a Techne TC-412 thermal cycler under the following conditions: 5 minutes denaturation at 94 °C followed by 30 cycles of 1 minute of initial denaturation at 94 °C, 1 minute of annealing temperature at 54 °C and 1 minute of extension at 72 °C, and elongation at 72 °C for 7 minutes.Amplified fragments were separated by electrophoresis on 2.5% agarose gel containing 0.02 ug/mL ethidium bromide, 1x TBE buffer (0.89 M Tris-HCl pH 8.3, 0.89 M boric acid and 0.02 M EDTA), at 110 volts for approximately three hours. Afterwards, the gels were photo graphed under UV light, using the gel documentation system Biolocus L PIX (Loccus Biotecnologia ® ). Gel electrophoresis was used to assess the number and size of amplified fragments, as well as polymorphism detection.Analyses of genetic variability at the microsatellite loci were done using the genotypes obtained for all five species of bromeliads evaluated in this study. The number of alleles per locus and the observed and expected heterozygosities under Hardy-Weinberg equilibrium were estimated. These analyses and the test for deviation from Hardy-Weinberg expectations were performed with Genes program (Cruz 2008).

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“…Microsatellite (SSR) loci were amplified using 5 primer pairs: (Kölliker et al 2001) under the following conditions: 50 ng DNA template, 1 × buffer (10mM Tris-HCl, pH 8.3, 50mM KCl, 2mM MgCl 2 , 1% Triton X-100), 100µM dNTP, 10pM of primer, 1 U TaKaRa Taq DNA polymerase. 30 PCR cycles were performed, with 30 s of denaturation at 94°C, 30 s of annealing at 53°C, and 1 min of polymerisation at 72°C.…”

Section: Microsatellite (Ssr) Protocolmentioning

confidence: 99%

“…Molecular markers allow the selection of desired traits based on genotype and can therefore complete and accelerate plant breeding programs. They can be also used for the early selection of traits, which are not expressed during the juvenile phase such as persistence, competitive ability and seed yield (Kölliker et al 2001).…”

mentioning

confidence: 99%

Identification of white clover (Trifolium repens L.) cultivars using molecular markers

Dolanská¹,

Čurn²

2004

PLANT SOIL ENVIRON

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The different molecular analysis for specification of white clover (Trifolium repens L.) populations was studied between 2002 and 2003. RAPD, SSR (microsatellites), rDNA and PCR-RFLP markers were used for this study. The high genetic variation was detected among the cultivars but also within the cultivars by RAPD markers. For this reason RAPD markers were not found as a suitable marker system for determination of white clover cultivars. The distribution of low genetic variation of rDNA and PCR-RFLP markers was not able to differentiate cultivars. SSR and rDNA markers did not show variability of pa�erns within one cultivar. The different sizes of PCR fragments were obtained a�er amplification with microsatellite primers. SSR markers are therefore suggested as the suitable markers for the identification of different T. repens cultivars.

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Development and characterisation of simple sequence repeat (SSR) markers for white clover (Trifolium repens L.)

Cited by 78 publications

References 37 publications

Microsatellite diversity and chromosome number in natural populations of Trifolium riograndense Burkart

Microsatellite diversity and chromosome number in natural populations of Trifolium riograndense Burkart

Transferability and characterization of microsatellite markers in five Bromeliaceae species belonging to the subfamilies Pitcairnioideae and Bromelioideae

Identification of white clover (Trifolium repens L.) cultivars using molecular markers

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