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https://hdl.handle.net/2440/23890
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Type: | Journal article |
Title: | Genetic mapping and BAC assignment of EST-derived SSR markers shows non-uniform distribution of genes in the barley genome |
Author: | Varshney, R. Grosse, I. Hahnel, U. Siefken, R. Prasad, M. Stein, N. Langridge, P. Altschmied, L. Graner, A. |
Citation: | Theoretical and Applied Genetics: international journal of plant breeding research, 2006; 113(2):239-250 |
Publisher: | Springer |
Issue Date: | 2006 |
ISSN: | 0040-5752 1432-2242 |
Statement of Responsibility: | R. K. Varshney, I. Grosse, U. Hähnel, R. Siefken, M. Prasad, N. Stein, P. Langridge, L. Altschmied, A. Graner |
Abstract: | A set of 111,090 barley expressed sequence tags (ESTs) was searched for the presence of microsatellite motifs [simple sequence repeat (SSRs)] and yielded 2,823 non-redundant SSR-containing ESTs (SSR–ESTs). From this, a set of 754 primer pairs was designed of which 525 primer pairs yielded an amplicon and as a result, 185 EST-derived microsatellite loci (EST–SSRs) were placed onto a genetic map of barley. The markers show a uniform distribution along all seven linkage groups ranging from 21 (7H) to 35 (3H) markers. Polymorphism information content values ranged from of 0.24 to 0.78 (average 0.48). To further investigate the physical distribution of the EST–SSRs in the barley genome, a bacterial artificial chromosomes (BAC) library was screened. Out of 129 markers tested, BAC addresses were obtained for 127 EST–SSR markers. Twenty-seven BACs, forming eight contigs, were hit by two or three EST–SSRs each. This unexpectedly high incidence of EST–SSRs physically linked at the sub-megabase level provides additional evidence of an uneven distribution of genes and the segmentation of the barley genome in gene-rich and gene-poor regions. |
Keywords: | Chromosomes, Artificial, Bacterial Hordeum Genetic Markers Polymerase Chain Reaction Microsatellite Repeats Polymorphism, Genetic Genome, Plant Expressed Sequence Tags |
Description: | The original publication can be found at www.springerlink.com |
DOI: | 10.1007/s00122-006-0289-z |
Published version: | http://dx.doi.org/10.1007/s00122-006-0289-z |
Appears in Collections: | Agriculture, Food and Wine publications Aurora harvest 2 |
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