Abstract
Potato starch is an essential nutrient for humans and is widely used worldwide. Locating relevant genomic regions, mining stable genes and developing candidate gene markers can promote the breeding of new high-starch potato varieties. A total of 106 F1 individuals and their parents (YSP-4 × MIN-021) were used as test materials, from which 20 plants with high starch content and 20 with low starch content were selected to construct DNA pools for site-specific amplified fragment sequencing (SLAF-seq) and bulked segregation analysis (BSA). A genomic region related to the starch traits was first identified in the 0–5.62 Mb of chromosome 2 in tetraploid potato. In this section, a total of 41 non-synonymous genes, which were considered as candidate genes related to the starch trait, were annotated through a basic local alignment search tool (BLAST) search of multiple databases. Six candidate genes for starch (PGSC0003DMG400017793, PGSC0003DMG400035245, PGSC0003DMG400036713, PGSC0003DMG400040452, PGSC0003DMG400006636 and PGSC0003DMG400044547) were further explored. In addition, cleaved amplified polymorphic sequence (CAPS) markers were developed based on single nucleotide polymorphism (SNP) sites associated with the starch candidate genes. SNP-CAPS markers chr2-CAPS6 and chr2-CAPS21 were successfully developed and validated with the F2 population and 24 tetraploid potato varieties (lines). Functional analysis and cloning of the candidate genes associated with potato starch will be performed in further research, and the SNP-CAPS markers chr2-CAPS6 and chr2-CAPS21 can be further used in marker-assisted selection breeding of tetraploid potato varieties with high starch content.
Highlights
Potato (Solanum tuberosum L.) belongs to the solanaceae solanum family and is the fourth major food crop in the world after rice, wheat and maize
Some F1 individuals showed transgressive segregation, indicating that there was abundant heritable variation in the starch trait in F1, which was beneficial to the selection of extreme phenotypes and ensured the efficiency of the bulked segregation analysis (BSA) strategy
SLAF-seq combined with BSA strategy was used for the first time to map a genomic region related to starch traits at 0–5.62 Mb on chromosome 2 of tetraploid potato
Summary
Potato (Solanum tuberosum L.) belongs to the solanaceae solanum family and is the fourth major food crop in the world after rice, wheat and maize. It can be used as a vegetable and feed crop. Potato tubers are rich in starch, protein, amino acids and minerals that can maintain human life, and are widely planted in China, America, Netherlands and other countries [1, 2]. Candidate genes and SNP-CAPS markers for starch in tetraploid potato innovation for Graduate students (DC2000002122), and the project of Inner Mongolia potato seed industry and technology innovation centre. The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript
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