Development of highly polymorphic EST-SSR markers and segregation in F1 hybrid population of Vitis vinifera L.

Abstract

ABSTRACT. The objectives of this investigation were to develop and validate the expressed sequence tag (EST)-simple sequence repeat (SSR) markers from large EST sequences, and to study the segregation and distribution of SSRs within two grapevine parental lines. In total, 94 F 1 lines crossed between "Early Rose" and "Red Globe" were studied. Approximately 2100 EST-SSR sequences of Vitis vinifera L. were searched for SSRs and analyzed for the design of polymerase chain reaction (PCR) primers amplifying the SSR-rich regions. Trinucleotide repeats were found to be the most abundant, followed by other nucleotide repeats. A total of 182 SSR primer pairs were first developed for the study on the parental polymorphism. Among the 182 SSR primers, 142 primer pairs (78%) could amplify the anticipated PCR products, among which only 52 primer pairs (36.62%) showed polymorphism between the two parents. These polymorphic bands were further surveyed among the 94 F 1 lines, and the results showed that a total of 162 bands were amplified, and 98 of them were polymorphic in both parents (60.86% polymorphism), with an average of 1.88 polymorphic DNA bands for each primer pair. After testing with the chi-square test, 33 of the clearly amplified polymorphic bands followed a 3:1 ratio, and 37 followed a 1:1 ratio. The rest showed distorted segregation ratios.

Breeding and Growth Performance of ‘Ningzhi 4’, a New Blackberry Cultivar with High Yield Potential and Good Quality in China

“…In recent years, the application of molecular marker technology in fruit tree germplasm identification, genetic relationship analysis, and early selection of breeding materials has developed rapidly [23,24]. SSR markers have the advantages of good repeatability, rich polymorphism, and strong reliability and have obvious advantages in identifying the purity and authenticity of fruit tree hybrids [25]. Because SSR markers are codominant and the genetic background of blackberry is relatively complex, 78 pairs of SSR molecular marker primers reported in the literature [15,16] were used to screen the two parents 'Kiowa' and 'Hull Thornless' of the hybrid line 'Ningzhi 4', of which 7 pairs of primers did not amplify clear bands, and the remaining 71 pairs of primers could amplify bands.…”

“…It was speculated that its characteristics were between those of the parents or close to those of the male parent. SSR analysis technology will identify differences among different varieties at the DNA level, thereby scientifically and accurately determining the specificity, consistency, and stability of specific varieties [24,25]. SSR markers can provide objective, scientific, and accurate technical support for protecting breeding property rights, registering new varieties, and identifying and detecting the authenticity and purity of fruit tree varieties and seedlings.…”

“…ability, rich polymorphism, and strong reliability and have obvious advantages in iden fying the purity and authenticity of fruit tree hybrids [25]. Because SSR markers are dominant and the genetic background of blackberry is relatively complex, 78 pairs of S molecular marker primers reported in the literature [15,16] were used to screen the t parents 'Kiowa' and 'Hull Thornless' of the hybrid line 'Ningzhi 4′, of which 7 pairs primers did not amplify clear bands, and the remaining 71 pairs of primers could amp bands.…”

A Comprehensive Plant microRNA Simple Sequence Repeat Marker Database to Accelerate Genetic Improvements in Crops

“…For these reasons, SSRs are used as informative molecular markers in population genetic [13][14][15] and phylogenetic [16][17][18] studies. Furthermore, SSR markers are used extensively in studies on mapping [19,20], as well as linkage associations [21].…”