Čeština
EnglishDevelopment of SSR markers for the short arm of rye chromosome 1
Kofler, R.; Stift, G.; Gong, L.; Suchánková, Pavla; Šimková, Hana; Doležel, Jaroslav; Lelley, T.
VORTRÄGE FÜR PFLANZENZÜCHTUNG 71: 279-281, 2007
Keywords: SSR markers; rye chromosome 1
Abstract: Simple sequence repeats (SSR) are DNA sequence stretches in which a short motif (1-6 bp) is tandemly repeated. SSR gain and lose repeat units at high rates through a mutational mechanism called "DNA replication slippage" (Ellegren 2004). Primer pairs used for PCR reaction are designed for the highly conserved regions flanking the SSR, which may amplify fragments of varying length in different individuals, even within populations. Due to their ease of application, codominance and hypervariability, microsatellites have become the marker of choice in such diverse fields like genotype-identification, construction of genetic maps, QTL analysis, population-genetic studies, marker assisted selection (MAS). The main disadvantage of SSR-markers is the required amount of labor and the high cost for their development. A recent review from Squirell et al. (2003) estimated the necessary effort to develop ten polymorphic SSR-markers: one hundred sequenced clones and thirty tested primer pairs. These values might even be higher for polyploid species with a large amount of repetitive DNA like wheat. We attempt to develop 100 SSR markers specific for the short arm of rye chromosome 1R, which is present in hundreds of wheat varieties world wide as a 1BL.1RS translocation. They will be mapped physically (bin) as well as genetically. Plant genomes are notorious for their low SSR frequency, therefore enrichment procedures are widely used for plant SSR-marker development (Zane et al. 2002). We present a nebulizer based SSR enrichment procedure.
DOI:
IEB authors: Jaroslav Doležel, Hana Šimková, Pavla Suchánková
VORTRÄGE FÜR PFLANZENZÜCHTUNG 71: 279-281, 2007
Keywords: SSR markers; rye chromosome 1
Abstract: Simple sequence repeats (SSR) are DNA sequence stretches in which a short motif (1-6 bp) is tandemly repeated. SSR gain and lose repeat units at high rates through a mutational mechanism called "DNA replication slippage" (Ellegren 2004). Primer pairs used for PCR reaction are designed for the highly conserved regions flanking the SSR, which may amplify fragments of varying length in different individuals, even within populations. Due to their ease of application, codominance and hypervariability, microsatellites have become the marker of choice in such diverse fields like genotype-identification, construction of genetic maps, QTL analysis, population-genetic studies, marker assisted selection (MAS). The main disadvantage of SSR-markers is the required amount of labor and the high cost for their development. A recent review from Squirell et al. (2003) estimated the necessary effort to develop ten polymorphic SSR-markers: one hundred sequenced clones and thirty tested primer pairs. These values might even be higher for polyploid species with a large amount of repetitive DNA like wheat. We attempt to develop 100 SSR markers specific for the short arm of rye chromosome 1R, which is present in hundreds of wheat varieties world wide as a 1BL.1RS translocation. They will be mapped physically (bin) as well as genetically. Plant genomes are notorious for their low SSR frequency, therefore enrichment procedures are widely used for plant SSR-marker development (Zane et al. 2002). We present a nebulizer based SSR enrichment procedure.
DOI:
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