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GrainGenes Reference Report: PBR-121-117

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Reference	PBR-121-117
Title	Clustering of amplified fragment length polymorphism markers in a linkage map of rye
Journal	Plant Breeding
Year	2002
Volume	121
Pages	117-123
Author	Saal B Wricke G
Abstract	Summary: Amplified fragment length polymorphisms (AFLPs) are now widely used in DNA fingerprinting and genetic diversity studies, the construction of dense genetic maps and in fine mapping of agronomically important traits. The AFLP markers have been chosen as a source to extend and saturate a linkage map of rye, which has previously been generated by means of restriction fragment length polymorphism, random amplified polymorphic DNA, simple sequence repeat and isozyme markers. Gaps between linkage groups, which were known to be part of chromosome 2R, have been closed, thus allowing the determination of their correct order. Eighteen EcoRI-MseI primer combinations were screened for polymorphism and yielded 148 polymorphic bands out of a total of 1180. The level of polymorphism among the different primer combinations varied from 5.7% to 33.3%. Eight primer combinations, which revealed most polymorphisms, were further analysed in all individuals of the F2 mapping population. Seventy-one out of 80 polymorphic loci could be integrated into the linkage map, thereby increasing the total number of markers to 182. However, 46% of the mapped AFLP markers constituted four major clusters located on chromosomes 2R, 5R and 7R, predominantly in proximity to the centromere. The integration of AFLP markers caused an increase of 215 cM, which resulted in a total map length of almost 1100 cM
Keyword	[ Hide all but 1 of 43 ] 80 aflp amplified fragment length polymorphism amplified polymorphic dna barley centromere cluster combinations diversity dna dna fingerprinting fine mapping fingerprinting genetic diversity genetic map genetic-linkage genome integration isozyme isozyme markers linkage linkage group linkage map map mapping microsatellite order polymorphic polymorphic dna polymorphic loci population primer random amplified polymorphic dna repeat restriction restriction fragment length rflp rye secale cereale sequence simple sequence repeat source trait

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