SSR

Characterization of Anatolian traditional quince cultivars, based on microsatellite markers

C. Yüksel, Mutaf, F., Demirtaş, İ., Öztürk, G., Pektaş, M., and Ergül, A., “Characterization of Anatolian traditional quince cultivars, based on microsatellite markers”, vol. 12, pp. 5880-5888, 2013.

We conducted simple sequence repeat (SSR) analyses of 15 traditional quince (Cydonia oblonga) cultivars from Anatolian gene sources for molecular characterization and investigation of genetic relationships. Three pear and two apple cultivars were used as references for SSR locus data analysis and to determine allele profiles between species. Eight SSR loci that were developed from apple and pear were used, and a total of 44 alleles were found among quince cultivars.

Genetic studies of “noble cane” for identification and exploitation of genetic markers

S. Nawaz, Khan, F. A., Tabasum, S., Iqbal, M. Z., and Saeed, A., “Genetic studies of “noble cane” for identification and exploitation of genetic markers”, vol. 9, pp. 1011-1022, 2010.

Forty genotypes (clones) of sugarcane, including elite lines, commercial cultivars of Saccharum officinarum and clones of S. barberi were fingerprinted with 50 SSR markers using a PCR-based marker assay. Nei’s genetic distances for SSR data were determined and relationships between accessions were portrayed graphically in the form of a dendrogram. Genetic distance values ranging from 0.60 to 1.11 were observed among the 40 sugarcane accessions. The shortest genetic distance of 0.60 was seen between genotypes US-804 and US-130.

Genetic diversity of eggplant (Solanum melongena) germplasm from Turkey assessed by SSR and RAPD markers

K. Demir, Bakır, M., Bakır, M., Sarıkamış, G., and Acunalp, S., “Genetic diversity of eggplant (Solanum melongena) germplasm from Turkey assessed by SSR and RAPD markers”, vol. 9, pp. 1568-1576, 2010.

Eggplant is a major crop in Turkey, which produces more of this crop than all of Europe; consequently, germplasm resources are of concern for the country. Molecular characterization of eggplant genotypes collected from different geographical regions of Turkey was carried out using SSR and RAPD markers. With amplification of five SSR loci, the number of alleles per microsatellite locus ranged from 2 to 10, with a total of 24 alleles.

Molecular identification of Greek olive (Olea europaea) cultivars based on microsatellite loci

K. Roubos, Moustakas, M., and Aravanopoulos, F. A., “Molecular identification of Greek olive (Olea europaea) cultivars based on microsatellite loci”, vol. 9, pp. 1865-1876, 2010.

Olea europaea is one of the oldest species of domesticated trees. We used microsatellite markers for fingerprinting and for evaluation of genetic similarity and structure of 26 Greek olive cultivars, which cover most of the olive cultivation regions of Greece, including previously undescribed denominations from northern Greece. Eighty-one alleles were revealed with six SSR loci that were selected as most informative of 10 SSR primers that were initially investigated. The number of alleles per locus varied from 7 to 20 (mean, 13.5).

Simple sequence repeat-based assessment of genetic relationships among Prunus rootstocks

Z. Turkoglu, Bilgener, S., Ercisli, S., Bakır, M., Bakır, M., Koc, A., Akbulut, M., Gercekcioglu, R., Gunes, M., and Esitken, A., “Simple sequence repeat-based assessment of genetic relationships among Prunus rootstocks”, vol. 9, pp. 2156-2165, 2010.

Ten SSR loci, previously developed for Prunus, were analyzed to examine genetic relationships among 23 rootstock candidates for sweet and sour cherries, of the species P. avium, P. cerasus, P. mahaleb, and P. angustifolia. Five genotypes of P. laurocerasus, not used as rootstock, were included in the molecular analysis. The number of alleles per locus ranged from 8 to 12, with a mean of 9, while the number of microsatellite genotypes varied from 8 to 17, indicating that the SSRs were highly informative.

Development of microsatellite markers for the endangered Neotropical tree species Tibouchina papyrus (Melastomataceae)

M. P. C. Telles, Peixoto, F. P., Lima, J. S., Resende, L. V., Vianello, R. P., Walter, M. E. M. T., and Collevatti, R. G., “Development of microsatellite markers for the endangered Neotropical tree species Tibouchina papyrus (Melastomataceae)”, vol. 10, pp. 321-325, 2011.

We isolated and characterized 12 microsatellite loci for Tibouchina papyrus (Melastomataceae), an endangered species with narrow and disjunct range, endemics to a few localities in “cerrado rupestre” from Central Brazil. These microsatellites were obtained by sequencing of a genomic shotgun library for primer design. Leaves from 96 individuals collected in the three known local populations were genotyped using the 12 primers designed to analyze the polymorphisms at each locus. The number of alleles per locus ranged from one to six; two loci were monomorphic.

Agronomic characterization, genetic diversity and association analysis of cotton cultivars using simple sequence repeat molecular markers

A. Kalivas, Xanthopoulos, F., Kehagia, O., and Tsaftaris, A. S., “Agronomic characterization, genetic diversity and association analysis of cotton cultivars using simple sequence repeat molecular markers”, vol. 10, pp. 208-217, 2011.

Cotton is the most important textile plant in the world and is one of the most important crops for the production of oilseed. Because of its worldwide economic importance, new cultivars are constantly being released in the world and consequently in the Greek market, as Greece is the largest producer in Europe. We used simple sequence repeat (SSR) markers for the identification and the phylogenetic analysis of the most widely cultivated cotton cultivars in Greece.

Genetic relationships of the Japanese persimmon Diospyros kaki (Ebenaceae) and related species revealed by SSR analysis

D. L. Guo and Luo, Z. R., “Genetic relationships of the Japanese persimmon Diospyros kaki (Ebenaceae) and related species revealed by SSR analysis”, vol. 10, pp. 1060-1068, 2011.

Simple sequence repeat (SSR) molecular markers based on 18 primers were employed to study the genetic relationship of Japanese persimmon (Diospyros kaki) specimens. Two hundred and sixty-two bands were detected in 30 Japanese persimmon samples, including 14 Japanese and 10 Chinese genotypes of Japanese persimmon (Diospyros kaki) and six related species, D. lotus, D. glaucifolia, D. oleifera, D. rhombifolia, D. virginiana, and Jinzaoshi (unclassified - previously indicated to be D. kaki).

Heterologous amplification and characterization of microsatellite markers in the Neotropical fish Leporinus friderici

A. M. Olivatti, Boni, T. A., Silva-Júnior, N. J., Resende, L. V., Gouveia, F. O., and Telles, M. P. C., “Heterologous amplification and characterization of microsatellite markers in the Neotropical fish Leporinus friderici”, vol. 10. pp. 1403-1408, 2011.

Leporinus friderici, native to the Amazon Basin and popularly known as “piau-três-pintas”, has great ecological and economic importance; it is widely fished and consumed throughout much of tropical South America. Knowledge of the genetic diversity of this native species is important to support management and conservation programs. We evaluated microsatellite loci amplification, using heterologous primers, in 31 individuals of L. friderici.

Variability of red rot-resistant somaclones of sugarcane genotype S97US297 assessed by RAPD and SSR

M. T. H. Shahid, Khan, F. A., Saeed, A., and Fareed, I., “Variability of red rot-resistant somaclones of sugarcane genotype S97US297 assessed by RAPD and SSR”, vol. 10, pp. 1831-1849, 2011.

Sugarcane breeding under climatic conditions of Pakistan is very difficult due to unavailability of viable fuzz (seed). Somaclonal variation can provide an alternative for improvement of existing genotypes. Six hundred and twenty-seven somaclones were developed from sugarcane genotype S97US297, and protocols for callogenesis and organogenesis were developed using Murashige and Skoog medium. Two types of explants, leaf and pith, and two auxins, 2,4-dichlorophenoxy acetic acid and indole-3-acetic acid, were tested to optimize callogenesis for root establishment.