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Orchardgrass (Dactylis glomerata L.) EST and SSR marker development, annotation, and transferability

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Abstract

Orchardgrass, or cocksfoot [Dactylis glomerata (L.)], has been naturalized on nearly every continent and is a commonly used species for forage and hay production. All major cultivated varieties of orchardgrass are autotetraploid, and few tools or information are available for functional and comparative genetic analyses and improvement of the species. To improve the genetic resources for orchardgrass, we have developed an EST library and SSR markers from salt, drought, and cold stressed tissues. The ESTs were bi-directionally sequenced from clones and combined into 17,373 unigenes. Unigenes were annotated based on putative orthology to genes from rice, Triticeae grasses, other Poaceae, Arabidopsis, and the non-redundant database of the NCBI. Of 1,162 SSR markers developed, approximately 80% showed amplification products across a set of orchardgrass germplasm, and 40% across related Festuca and Lolium species. When orchardgrass subspecies were genotyped using 33 SSR markers their within-accession similarity values ranged from 0.44 to 0.71, with Mediterranean accessions having a higher similarity. The total number of genotyped bands was greater for tetraploid accessions compared to diploid accessions. Clustering analysis indicated grouping of Mediterranean subspecies and central Asian subspecies, while the D. glomerata ssp. aschersoniana was closest related to three cultivated varieties.

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Authors and Affiliations

  1. USDA-ARS Forage and Range Research Lab, 695 N 1100 E, Logan, UT, 84322-6300, USA

    B. Shaun Bushman, Steve R. Larson, Joseph G. Robins & Kevin B. Jensen

  2. USDA-ARS, 2150 Centre Avenue, Fort Collins, CO, 80526-8119, USA

    Mark S. West

  3. Roy J. Carver Biotechnology Center, University of Illinois at Urbana-Champaign, Urbana, IL, 61801, USA

    Alvaro G. Hernandez, Deepika Vullaganti, George Gong & Jyothi Thimmapuram

  4. Faculty of Agriculture, Department of Field Crops, Namik Kemal University, 59100, Tekirdag, Turkey

    Metin Tuna

Authors
  1. B. Shaun Bushman
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  2. Steve R. Larson
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  3. Metin Tuna
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  4. Mark S. West
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  5. Alvaro G. Hernandez
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  6. Deepika Vullaganti
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  7. George Gong
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  8. Joseph G. Robins
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  10. Jyothi Thimmapuram
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Corresponding author

Correspondence to B. Shaun Bushman.

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Communicated by E. Guiderdoni.

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Bushman, B.S., Larson, S.R., Tuna, M. et al. Orchardgrass (Dactylis glomerata L.) EST and SSR marker development, annotation, and transferability. Theor Appl Genet 123, 119–129 (2011). https://doi.org/10.1007/s00122-011-1571-2

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  • DOI: https://doi.org/10.1007/s00122-011-1571-2

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