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GrainGenes Reference Report: TAG-102-801

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Reference	TAG-102-801
Title	A representative, highly informative 'genotyping set' of barley SSRs
Journal	Theoretical and Applied Genetics
Year	2001
Volume	102
Pages	801-809
Author	Macaulay M Ramsay L Powell W Waugh R
Abstract	Summary: We have developed a 'genotyping set' of 48 SSR-based genetic markers for application in genetical studies of barley. The SSRs are a subset of a collection of approximately 600 SSRs available to the barley research community. They have been specifically chosen according to the following criteria: (1) they are single locus; (2) their product quality is good under standard assay conditions; (3) they are distributed across the barley genome; and (4) they exhibit reasonably high polymorphic information content (PIC) values in the cultivated barley gene-pool. To maximise genotyping throughput, one of each SSR primer pair was 5' end-labelled with either fam, hex or tet fluorochromes to allow automated data capture after running the samples on a DNA sequencer. SSR product sizes were assembled from a reference set of 24 barley genotypes which allowed the construction of 'graphical genotypes' of each of the individual lines. The graphical genotypes provide a convenient tool for interrogating genetic similarity in the individuals surveyed. The product sizes were compared to those obtained from end-labelling one of the primers with 33P and separating the products by denaturing PAGE followed by autoradiography. Although inconsistencies in size were common, they could generally be easily resolved. A reference manual for use of the 'genotyping set' has been produced and is available as a PDF download file at http://www.scri.sari.ac.uk/ssr/pdf. These well-characterised barley SSRs, for the first time, provide a common set of robust PCR-based tools which can be used to integrate and compare information collected from fundamental and/or applied genetic studies on barley in different laboratories across the world
External Databases	http://link.springer-ny.com/link/service/journals/00122/bibs/1102006/11020801.htm
Probe	HVHVA1
Keyword	[ Hide all but 1 of 39 ] assay automation barley barley genome barley genotypes capture collection communities community cultivated barley dna gene pool genetic genetic markers genetic similarity genome genotype genotyping line linkage map loci locus mapping marker microsatellite marker page pic plant science polymorphic polymorphism primer products quality repeats single ssr system tool world

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