Interspecific transferability and comparative mapping of barley EST-SSR markers in wheat, rye and rice

Rajeev K. Varshney; Ralf Sigmund; Andreas Börner; Viktor Korzun; Nils Stein; Mark E. Sorrells; Peter Langridge; Andreas Graner

doi:10.1016/j.plantsci.2004.08.001

Back

Interspecific transferability and comparative mapping of barley EST-SSR markers in wheat, rye and rice

Journal article

Peer reviewed

Interspecific transferability and comparative mapping of barley EST-SSR markers in wheat, rye and rice

Rajeev K. Varshney, Ralf Sigmund, Andreas Börner, Viktor Korzun, Nils Stein, Mark E. Sorrells, Peter Langridge and Andreas Graner

Plant science (Limerick), Vol.168(1), pp.195-202

2005

DOI: https://doi.org/10.1016/j.plantsci.2004.08.001

Files and links (1)

url

Published View

Published (Version of Record)

Abstract

EST-SSRs

SSR-ESTs

Microsatellites

Transferability

Comparative mapping

Barley

Recent increase in the availability of expressed sequence tag (EST) data has facilitated the development of microsatellite or simple sequence repeat (SSR) markers in a number of plant species groups, including cereals. As these SSRs are derived from ESTs/genes (EST-SSRs), they exhibit a higher potential for transfer through cross-amplification in related species than SSR markers generated from genomic DNA libraries. In this study, a sub-set of 165 EST-SSR markers from a total of 185 assigned to the genetic map of barley was examined for transferability to wheat, rye and rice. A higher proportion, i.e., 78.2% of barley markers showed amplification in wheat followed by 75.2% in rye and 42.4% in rice. Furthermore, in silico comparison of SSR-ESTs (ESTs containing SSRs) corresponding to 185 mapped barley EST-SSR loci against 1,369,182 publicly available cereal ESTs showed significant homology with ESTs of wheat (93.5%), rye (37.3%), rice (57.3%), sorghum (51.9%) and maize (51.9%). Sequence similarity of the barley ESTs with 379,944 ESTs of the two model dicot species, Arabidopsis and Medicago suggested theoretical transferability of barley markers into dicot species although at low frequency (9.7% in Arabidopsis and 8.6% in Medicago). In silico comparative mapping (sequence comparison) of mapped barley SSR-ESTs against the mapping data of rye, wheat and rice indicated the presence of orthologues of the barley SSR-ESTs in the respective species. Furthermore, nine barley EST-SSRs were experimentally mapped to a rye genetic linkage map and all could be located in the expected orthologous region compared to their position in barley.

Details

Title: Interspecific transferability and comparative mapping of barley EST-SSR markers in wheat, rye and rice
Authors/Creators: Rajeev K. Varshney - Leibniz-Institut für Pflanzengenetik und Kulturpflanzenforschung (IPK)
Ralf Sigmund - Leibniz-Institut für Pflanzengenetik und Kulturpflanzenforschung (IPK)
Andreas Börner - Leibniz-Institut für Pflanzengenetik und Kulturpflanzenforschung (IPK)
Viktor Korzun - Petkus (Germany)
Nils Stein - Leibniz-Institut für Pflanzengenetik und Kulturpflanzenforschung (IPK)
Mark E. Sorrells - Cornell University
Peter Langridge - The University of Adelaide
Andreas Graner - Leibniz-Institut für Pflanzengenetik und Kulturpflanzenforschung (IPK)
Publication Details: Plant science (Limerick), Vol.168(1), pp.195-202
Publisher: Elsevier Ireland Ltd
Identifiers: 991005609296807891
Murdoch Affiliation: Food Futures Institute
Language: English
Resource Type: Journal article

UN Sustainable Development Goals (SDGs)

This output has contributed to the advancement of the following goals:

Source: InCites

Metrics

24 Record Views

235 Times Cited - Web of Science

InCites Highlights

These are selected metrics from InCites Benchmarking & Analytics tool, related to this output

Collaboration types: Domestic collaboration; International collaboration
Citation topics: 3 Agriculture, Environment & Ecology; 3.4 Crop Science; 3.4.96 QTL
Web Of Science research areas: Biochemistry & Molecular Biology; Plant Sciences
ESI research areas: Plant & Animal Science