Affiliation:
1. College of Agronomy, Gansu Agricultural University, Lanzhou 730070, China
2. State Key Laboratory of Aridland Crop Science, Gansu Agricultural University, Lanzhou 730070, China
3. South Subtropical Crop Research Institution, Chinese Academy of Tropical Agricultural Sciences, Zhanjiang 524091, China
4. College of Life Science and Technology, Gansu Agricultural University, Lanzhou 730070, China
Abstract
The autotetraploid potato (Solanum tuberosum L.) is an important crop in China, and it is widely cultivated from Northeast China to South China. Thousands of varieties are bred by breeding institutions or companies, and distinguishing the different varieties based on morphological characteristics is difficult. Using DNA fingerprints is an efficient method to identify varieties that plays an increasingly important role in germplasm identification and property rights protection. In this study, the genetic diversity and population structure of 135 autotetraploid potatoes were evaluated using specific-locus amplified fragment sequencing (SLAF-seq) methods. A total of 3,397,137 high-quality single-nucleotide polymorphisms (SNPs), which were distributed across 12 chromosomes, were obtained. Principal component analysis (PCA), neighbour-joining genetic trees, and model-based structure analysis showed that these autotetraploid potato subpopulations, classified by their SNPs, were not consistent with their geographical origins. On the basis of the obtained 3,397,137 SNPs, 160 perfect SNPs were selected, and 71 SNPs were successfully converted to penta-primer amplification refractory mutation (PARMS-SNP) markers. Additionally, 190 autotetraploid potato varieties were analysed using these 71 PARMS-SNP markers. The PCA results show that the accessions were not completely classified on the basis of their geographical origins. The SNP DNA fingerprints of the 190 autotetraploid potato varieties were also constructed. The SNP fingerprint results show that both synonyms and homonyms were present amongst the 190 autotetraploid potatoes. Above all, these novel SNP markers can lay a good foundation for the analysis of potato genetic diversity, DUS (distinctness, uniformity, and stability) testing, and plant variety protection.
Funder
Guangdong Sweet Potato and Potato Industry Technology System Innovation Team
National Natural Science Foundation of China
Central Public-interest Scientific Institution Basal Research Fund
Science and Technology Partnership Program of the Ministry of Science and Technology of China
Gansu Major Science and Technology Project
Subject
Plant Science,Ecology,Ecology, Evolution, Behavior and Systematics
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