New eSSR and gSSR markers added to Australian barley maps
Kerrie L. Willsmore A , Paul Eckermann B , Rajeev K. Varshney E , Andreas Graner C , Peter Langridge D , Margaret Pallotta D , Judy Cheong A and Kevin J. Williams A FA Molecular Plant Breeding CRC, South Australian Research & Development Institute, GPO Box 397, Adelaide, SA 5001, Australia.
B University of Adelaide, PMB 1, Glen Osmond, SA 5064, Australia.
C International Crops Research Institute for the Semi-Arid Tropics (ICRISAT), Patancheru, AP - 502 324, India.
D Institute of Plant Genetics and Crop Plant Research (IPK), Corrensstrasse 3, D-06466 Gatersleben, Germany.
E Australian Centre for Plant Functional Genomics, PMB 1, Glen Osmond, SA 5064, Australia.
F Corresponding author. Email:williams.kevin@saugov.sa.gov.au
Australian Journal of Agricultural Research 57(9) 953-959 https://doi.org/10.1071/AR05384
Submitted: 8 November 2005 Accepted: 13 April 2006 Published: 30 August 2006
Abstract
To enhance genetic maps of barley previously developed in Australia for identifying markers useable in molecular breeding, a new set of simple sequence repeat (SSR) and indel markers was added to the maps. These markers were developed through (i) database mining of barley expressed sequence tag (EST) sequences, (ii) comparative barley-rice genome analysis, and (iii) screening of a genomic library with SSR probes. The primer set selected for this study comprised 216 EST-SSR (eSSR) and 25 genomic SSR (gSSR) markers, which were screened for polymorphism on 4 doubled haploid (DH) or recombinant inbred line (RIL) populations. In total, 81 new markers were added to the maps, with good coverage on all 7 chromosomes, except 6H, which only had 2 new markers added. The marker order of previously published maps was re-evaluated by comparing recombination fractions calculated by 2 methods to discover the best position for each marker. The new SSR markers were then added to the updated maps. Several of these new markers are linked to important barley disease resistance genes such as those for cereal cyst nematode, spot form of net blotch, and leaf scald resistance, and are readily useable for marker-assisted barley breeding. The new maps are available on-line at www.genica.net.au.
Additional keywords: microsatellite, Hordeum vulgare, genetic mapping, marker-assisted selection.
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