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Constructing DNA fingerprinting of Hemarthria cultivars using EST-SSR and SCoT markers

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Abstract

DNA fingerprinting of known cultivars may provide much-needed data to assist with the identification of such cultivars. From 86 pairs of expressed sequence tag SSRs (EST-SSR) and 45 start-codon targeted polymorphism (SCoT) primers, eight pairs of EST-SSR primers and seven SCoT primers were chosen to construct the DNA fingerprinting of six Hemarthria cultivars in this study. Using genomic DNA from six cultivars, a total of eight pairs of EST-SSR primers were able to amplify 193 bands, producing an average of 24.1 bands per primer pair. The percentage of polymorphic bands (PPB) was 83.4 %, and the polymorphism information content (PIC) ranged from 0.480 to 0.695, with an average of 0.602. A total of seven SCoT primers amplified 105 bands with an average of 15 bands per sample. The PPB was 84.8 %, and the PIC ranged from 0.471 to 0.758, with an average of 0.612. The unweighted pair-group method with arithmetic mean dendrogram from EST-SSR and SCoT markers grouped the six Hemarthria cultivars into two major groups of the same. These clusters are in accordance with their known species and origin. Our results indicate a rich genetic diversity in these six Hemarthria cultivars. The six cultivars we assayed could be easily identified using these eight pairs of EST-SSR and seven pairs of SCoT primers.

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Acknowledgments

This research was supported by the Sichuan Province breeding research (2011NZ0098-11), the fund for Modern Agro-industry Technology Research System (CARS-35-05) and Ministry of Education, “Chunhui Plan”.

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Authors and Affiliations

  1. Department of Grassland Science, College of Animal Science and Technology, Sichuan Agricultural University, Ya’an, 625014, Sichuan, China

    Linkai Huang, Xiu Huang, Haidong Yan, Xinquan Zhang, Ye Tian, Yu Zhang, Xiaomei Jiang, Yanhong Yan, Xiao Ma, Yan Peng, Jiangning Zhou & Gang Nie

  2. College of Agriculture Life Science, The University of Arizona, Tucson, AZ, 85721, USA

    Guohua Yin

Authors
  1. Linkai Huang
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  2. Xiu Huang
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  3. Haidong Yan
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  4. Guohua Yin
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  5. Xinquan Zhang
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  6. Ye Tian
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  7. Yu Zhang
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  8. Xiaomei Jiang
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  9. Yanhong Yan
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  10. Xiao Ma
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  11. Yan Peng
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  12. Jiangning Zhou
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  13. Gang Nie
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Corresponding author

Correspondence to Xinquan Zhang.

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Linkai Huang and Xiu Huang have contributed equally to this work.

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Huang, L., Huang, X., Yan, H. et al. Constructing DNA fingerprinting of Hemarthria cultivars using EST-SSR and SCoT markers. Genet Resour Crop Evol 61, 1047–1055 (2014). https://doi.org/10.1007/s10722-014-0107-4

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  • DOI: https://doi.org/10.1007/s10722-014-0107-4

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