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Genetic analysis of litchi (Litchi chinensis Sonn.) in southern China by improved random amplified polymorphic DNA (RAPD) and inter-simple sequence repeat (ISSR)

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Abstract

Litchi (Litchi chinensis Sonn., L. chinensis), a type of tree growing in most areas of southern China, produces an edible fruit that is also a source of traditional medicine. Genetic identification of litchi species or cultivars using molecular markers is very important. In this study, a total of six litchi samples from Fujian, Hainan, Guangdong, Guangxi and Sichuan province, as well as one wild Dimocarpus confinis (D. confinis) sample from Guangxi province were collected for genetic analysis. The cluster dendrograms were constructed for genetic analysis on the basis of DNA amplification results by RAPD and ISSR. The improved RAPD amplified DNA with consistent and clear banding patterns. A total of 176 bands were found, indicating a 72.7 % polymorphism in L. chinensis DNA samples. Significant genetic distances were found among the different species or cultivars, with an index of similarity coefficient ranging from 0.59 to 0.87. Similar to RAPD results, ISSR analysis of the L. chinensis DNA samples showed a range of 0.70–0.93 similarity coefficients. The genetic distance between Hainan sample and Sichuan samples was the farthest, which is consistent with their geographic distance. Furthermore, the index of similarity coefficient between D. confinis and L. chinensis was 0.35–0.41 by RAPD and 0.38–0.48 by ISSR, indicating that these two species have significant genetic difference. This study reveals the high level of genetic differences between different litchi species or cultivars, and confirms the significance of the improved RAPD method in genetic characterization of organisms. Taken together, the improved RAPD combined with ISSR analysis can be used frequently for the genetic diversity, germplasm resources preservation, molecular-assisted breeding, and genetic characterization of various organisms.

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Acknowledgments

This work was supported in part by the National Natural Science Foundation of China (81172049), Science and Technology Innovation Team of Colleges and Universities of Sichuan Province (13TD0032), Applied Basic Research Program of Science and Technology Department of Sichuan Province (14JC0797) and Luzhou City Special Foundation (2013LZLY-J10). The authors thank all individuals who provided plant leaves or DNAs.

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Authors and Affiliations

  1. The Research Center for Preclinical Medicine, Luzhou Medical College, 3-319 Zhongshan Road, Luzhou, 646000, Sichuan, China

    Yan Long, Jingliang Cheng, Zhiqiang Mei, Chunli Wei, Md. Asaduzzaman Khan & Junjiang Fu

  2. The Department of Pharmacy, Luzhou Medical College, Luzhou, 646000, Sichuan, China

    Ling Zhao

  3. Michael E. DeBakey High School for Health Professions, Houston, TX, USA

    Shelly Fu

  4. Forensic Center, Luzhou Medical College, Luzhou, 646000, Sichuan, China

    Junjiang Fu

Authors
  1. Yan Long
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  2. Jingliang Cheng
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  3. Zhiqiang Mei
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  4. Ling Zhao
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  5. Chunli Wei
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  6. Shelly Fu
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  7. Md. Asaduzzaman Khan
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  8. Junjiang Fu
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Corresponding author

Correspondence to Junjiang Fu.

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Yan Long and Jingliang Cheng are co-first authors.

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Long, Y., Cheng, J., Mei, Z. et al. Genetic analysis of litchi (Litchi chinensis Sonn.) in southern China by improved random amplified polymorphic DNA (RAPD) and inter-simple sequence repeat (ISSR). Mol Biol Rep 42, 159–166 (2015). https://doi.org/10.1007/s11033-014-3755-8

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  • DOI: https://doi.org/10.1007/s11033-014-3755-8

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