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A high density barley microsatellite consensus map with 775 SSR loci

OAR@ICRISAT

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Relation http://oar.icrisat.org/3000/
http://dx.doi.org/10.1007/s00122-007-0503-7
 
Title A high density barley microsatellite consensus map with 775 SSR loci
 
Creator Varshney, R K
Marcel, T C
Ramsay, L
Russell, J
Roder, M S
Stein, N
Waugh, R
Langridge, P
Niks, R E
Graner, A
 
Subject Genetics and Genomics
Agriculture-Farming, Production, Technology, Economics
 
Description A microsatellite or simple sequence repeat (SSR) consensus map of barley was constructed by joining six independent genetic maps based on the mapping populations ‘Igri × Franka’, ‘Steptoe × Morex’, ‘OWBRec × OWBDom’, ‘Lina × Canada Park’, ‘L94 × Vada’ and ‘SusPtrit × Vada’. Segregation data for microsatellite markers from different research groups including SCRI (Bmac, Bmag, EBmac, EBmag, HVGeneName, scsssr), IPK (GBM, GBMS), WUR (GBM), Virginia Polytechnic Institute (HVM), and MPI for Plant Breeding (HVGeneName), generated in above mapping populations, were used in the computer program RECORD to order the markers of the individual linkage data sets. Subsequently, a framework map was constructed for each chromosome by integrating the 496 “bridge markers” common to two or more individual maps with the help of the computer programme JoinMap® 3.0. The final map was calculated by following a “neighbours” map approach. The integrated map contained 775 unique microsatellite loci, from 688 primer pairs, ranging from 93 (6H) to 132 (2H) and with an average of 111 markers per linkage group. The genomic DNA-derived SSR marker loci had a higher polymorphism information content value (average 0.61) as compared to the EST/gene-derived SSR loci (average 0.48). The consensus map spans 1,068 cM providing an average density of one SSR marker every 1.38 cM. Such a high-density consensus SSR map provides barley molecular breeding programmes with a better choice regarding the quality of markers and a higher probability of polymorphic markers in an important chromosomal interval. This map also offers the possibilities of thorough alignment for the (future) physical map and implementation in haplotype diversity studies of barley.
 
Publisher Springer Verlag
 
Date 2007
 
Type Article
PeerReviewed
 
Format application/pdf
 
Language en
 
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Identifier http://oar.icrisat.org/3000/1/A_high_density_barley_microsatellite_consensus_map_with_775_SSR_loci.pdf
Varshney, R K and Marcel, T C and Ramsay, L and Russell, J and Roder, M S and Stein, N and Waugh, R and Langridge, P and Niks, R E and Graner, A (2007) A high density barley microsatellite consensus map with 775 SSR loci. TAG Theoretical and Applied Genetics, 114 (6). pp. 1091-1103. ISSN 1432-2242