R K Varshney1,2,+,* , T C Marcel3,+, L Ramsay4, J Russell4, M Röder1, N Stein1, R Waugh4, P Langridge5, R E Niks3, A Graner1
1Leibniz-Institute
of Plant Genetics & Crop Plant Research (IPK), Corrensstrasse 3,
D-06466 Gatersleben, Germany
2Present address:
Applied Genomics Laboratory, International Crops Research Centre for
the Semi-Arid Tropics (ICRISAT), Patancheru-502 324, A.P., India
3Laboratory
of Plant Breeding, Graduate School for Experimental Plant Sciences,
Wageningen University, Droevendaalsesteeg 1, 6708 PB Wageningen, The
Netherlands
4Genetics, Scottish
Crop Research Institute (SCRI), Invergowrie, Dundee DD2 5DA,
Scotland, UK
5Australian
Centre for Plant Functional Genomics (ACPFG), University of Adelaide,
PMB1 Glen Osmond, South Australia
+Authors
contributed equally to this work
*Address
for correspondence: r.k.varshney@cgiar.org
Tel: 0091-40-3071 3305;
Fax: 0091-40-3071 3074/3075
Reference: Theor Appl Genet (resubmitted December 2006)
Abstract
A microsatellite
or SSR (simple sequence repeat) consensus map of barley was
constructed by joining six independent genetic maps based on the
mapping populations 'Igri x Franka', 'Steptoe x Morex', 'OWBRec
x OWBDom', 'Lina x Canada Park', 'L94 x Vada' and
'SusPtrit x 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 PIC 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.
Download the mapping information
Download the consensus SSR map