Pathway-based analysis of anthocyanin diversity in diploid potato
| Autor: | Teresa Mosquera-Vásquez, Federico Roda, Johana Carolina Soto-Sedano, Maria Angelica Parra-Galindo |
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| Jazyk: | angličtina |
| Rok vydání: | 2021 |
| Předmět: |
Candidate gene
Single Nucleotide Polymorphisms Gene Expression Plant Science Biochemistry Anthocyanins chemistry.chemical_compound Methionine Gene Expression Regulation Plant Vegetables MYB Enzyme Chemistry Plant Proteins Genetics Multidisciplinary Phenylpropanoid Plant Anatomy food and beverages Eukaryota Genomics Plants Medicine Ploidy Potato Research Article Coumaric Acids Science Quantitative Trait Loci Single-nucleotide polymorphism Biology Solanum Biosynthesis Polymorphism Single Nucleotide Enzyme Regulation DNA-binding proteins Genome-Wide Association Studies Gene Regulation Gene Transcription factor Phenylalanine Ammonia-Lyase Solanum tuberosum Tubers fungi Organisms Biology and Life Sciences Computational Biology Proteins Human Genetics Genome Analysis Diploidy Regulatory Proteins Biosynthetic Pathways carbohydrates (lipids) chemistry Anthocyanin Enzymology Transcription Factors Genome-Wide Association Study |
| Zdroj: | PLoS ONE PLoS ONE, Vol 16, Iss 4, p e0250861 (2021) |
| ISSN: | 1932-6203 |
| Popis: | Anthocyanin biosynthesis is one of the most studied pathways in plants due to the important ecological role played by these compounds and the potential health benefits of anthocyanin consumption. Given the interest in identifying new genetic factors underlying anthocyanin content we studied a diverse collection of diploid potatoes by combining a genome-wide association study and pathway-based analyses. By using an expanded SNP dataset, we identified candidate genes that had not been associated with anthocyanin variation in potatoes, namely a Myb transcription factor, a Leucoanthocyanidin dioxygenase gene and a vacuolar membrane protein. Importantly, a genomic region in chromosome 10 harbored the SNPs with strongest associations with anthocyanin content in GWAS. Some of these SNPs were associated with multiple anthocyanin compounds and therefore could underline the existence of pleiotropic genes or anthocyanin biosynthetic clusters. We identified multiple anthocyanin homologs in this genomic region, including four transcription factors and five enzymes that could be governing anthocyanin variation. For instance, a SNP linked to the phenylalanine ammonia-lyase gene, encoding the first enzyme in the phenylpropanoid biosynthetic pathway, was associated with all of the five anthocyanins measured. Finally, we combined a pathway analysis and GWAS of other agronomic traits to identify pathways related to anthocyanin biosynthesis in potatoes. We found that methionine metabolism and the production of sugars and hydroxycinnamic acids are genetically correlated to anthocyanin biosynthesis. The results contribute to the understanding of anthocyanins regulation in potatoes and can be used in future breeding programs focused on nutraceutical food. |
| Databáze: | OpenAIRE |
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