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Journal of Integrative Agriculture  2017, Vol. 16 Issue (11): 2434-2443    DOI: 10.1016/S2095-3119(16)61619-2
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Genetic diversity and population structure of 288 potato (Solanum tuberosum L.) germplasms revealed by SSR and AFLP markers
WANG Jian1, 2, HOU Lu3, WANG Ruo-yu4, HE Miao-miao2, LIU Qing-chang1
1 Beijing Key Laboratory of Crop Genetic Improvement/Laboratory of Crop Heterosis and Utilization, Ministry of Education, China
Agricultural University, Beijing 100193, P.R.China
2 Institute of Biotechnology, Qinghai Academy of Agriculture and Forestry Science, Xining 810016, P.R.China
3 Scientific Observing and Experimental Station of Crop Pest in Xining, Ministry of Agriculture/Key Laboratory of Agricultural Integrated Pest Management, Qinghai Academy of Agriculture and Forestry Science, Xining 810016, P.R.China
4 Department of Statistics, University of Connecticut, Storrs 06269, USA
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Abstract  Potato (Solanum tuberosum L.) is an important staple food and economic crop in many countries.  China has led world potato production in recent years.  To understand the genetic diversity of potato germplasms and to enrich the current gene pool for potato improvement, we made a global collection consisted of 288 potato germplasms from eight countries and the International Potato Center (CIP).  Using SSR and AFLP techniques, we evaluated the genetic diversity and population structure of these 288 potato accessions.  A total of 190 alleles on 20 SSR loci were detected and all of the SSR alleles were polymorphic among these potato germplasms with an average of 9.5 alleles per SSR locus ranging from 2 to 23.  The effective number of alleles per locus (Ne*), Nei’s genetic diversity (H*), and Shannon’s information index (I*) was from (0.1709±0.3698) to (1.6166±0.3414), (0.076±0.1388) to (0.3812±0.1886), and (0.1324±0.1970) to (0.5347±0.1440), respectively, and the mean polymorphic information content (PIC) value was 0.7312.  A total of 988 AFLP alleles were detected by 10 AFLP primer combinations with 983 polymorphic alleles, and 99.49% alleles was polymorphic with an average of 98.3 polymorphic alleles per primer combination ranging from 91 to 116.  The values of Ne*, H* and I* were from (1.5162±0.311) to (1.6423±0.3278), (0.3114±0.145) to (0.3675±0.1121), and (0.4761±0.1792) to (0.547±0.1322), respectively, and the average PIC value was 0.9871.  Bayesian analysis discriminated the accessions into seven subgroup and an admix group.  The majority of accessions from CIP and China were assigned into SG1, SG5, SG6, SG7 and admix group.  Accessions in SG3 were mainly from CIP and two small groups SG2 and SG4 were mainly from northeastern China.  In general, the results obtained from Bayesian statistical analysis, cluster analysis and principal coordinate analysis consistently revealed the lack of geographical differentiation among country-wide collections, indicating germplasm introduction was common for the countries out of potato origin center.  The polymorphic markers and the differentiate genetic lineages found in this study provide useful information for potato improvement and conservation programs.  
Keywords:  potato germplasms        genetic diversity        population structure        SSR        AFLP  
Received: 28 November 2016   Accepted:

This work was supported by the earmarked fund for China Agriculture Research System (CARS-10).

Corresponding Authors:  Correspondence LIU Qing-chang, Tel: +86-10-62733710, E-mail:    
About author:  WANG Jian, E-mail:

Cite this article: 

WANG Jian, HOU Lu, WANG Ruo-yu, HE Miao-miao, LIU Qing-chang. 2017. Genetic diversity and population structure of 288 potato (Solanum tuberosum L.) germplasms revealed by SSR and AFLP markers. Journal of Integrative Agriculture, 16(11): 2434-2443.

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