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A wheat intervarietal genetic linkage map based on microsatellite and target region amplified polymorphism markers and its utility for detecting quantitative trait loci

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Abstract

Efficient user-friendly methods for mapping plant genomes are highly desirable for the identification of quantitative trait loci (QTLs), genotypic profiling, genomic studies, and marker-assisted selection. SSR (microsatellite) markers are user-friendly and efficient in detecting polymorphism, but they detect few loci. Target region amplification polymorphism (TRAP) is a relatively new PCR-based technique that detects a large number of loci from a single reaction without extensive pre-PCR processing of samples. In the investigation reported here, we used both SSRs and TRAPs to generate over 700 markers for the construction of a genetic linkage map in a hard red spring wheat intervarietal recombinant inbred population. A framework map consisting of 352 markers accounted for 3,045 cM with an average density of one marker per 8.7 cM. On average, SSRs detected 1.9 polymorphic loci per reaction, while TRAPs detected 24. Both marker systems were suitable for assigning linkage groups to chromosomes using wheat aneuploid stocks. We demonstrated the utility of the maps by identifying major QTLs for days to heading and reduced plant height on chromosomes 5A and 4B, respectively. Our results indicate that TRAPs are highly efficient for genetic mapping in wheat. The maps developed will be useful for the identification of quality and disease resistance QTLs that segregate in this population.

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Acknowledgements

We thank Erik Doehler and Zengcui Zhang for technical assistance. With the exception of W01 and W05, Dr. Steven S. Xu designed and provided all of the fixed primers. The original Grandin/BR34 cross was made by Dr. Carlos Riede. We thank Drs. Steven Xu and Lili Qi for helpful comments on this manuscript. This research was supported by USDA-ARS CRIS 5442-22000-030-00D.

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Authors and Affiliations

  1. Department of Plant Pathology, North Dakota State University, Fargo, ND, 58105, USA

    Z. H. Liu & J. B. Rasmussen

  2. Department of Agronomy and Plant Genetics, University of Minnesota, St. Paul, MN, 55108, USA

    J. A. Anderson

  3. Sunflower Research Unit, Northern Crop Science Laboratory, Red River Valley Agricultural Research Center, Fargo, ND, 58105, USA

    J. Hu

  4. USDA-ARS, Cereal Crops Research Unit, Northern Crop Science Laboratory, Red River Valley Agricultural Research Center, Fargo, ND, 58105, USA

    T. L. Friesen & J. D. Faris

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  1. Z. H. Liu
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  2. J. A. Anderson
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  3. J. Hu
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  4. T. L. Friesen
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  5. J. B. Rasmussen
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  6. J. D. Faris
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Correspondence to J. D. Faris.

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Communicated by P. Langridge

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Liu, Z.H., Anderson, J.A., Hu, J. et al. A wheat intervarietal genetic linkage map based on microsatellite and target region amplified polymorphism markers and its utility for detecting quantitative trait loci. Theor Appl Genet 111, 782–794 (2005). https://doi.org/10.1007/s00122-005-2064-y

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