Complete plastome assemblies from a panel of 13 diverse potato taxa

• Published in: PloS one Vol. 15; no. 10; p. e0240124
• Main Authors: Achakkagari, Sai Reddy, Kyriakidou, Maria, Tai, Helen H, Anglin, Noelle L, Ellis, David, Strömvik, Martina V
• Format: Journal Article
• Language: English
• Published: United States Public Library of Science 08.10.2020; Public Library of Science (PLoS)
• Subjects: Biology and Life Sciences; Chloroplasts; Computer and Information Sciences; Deoxyribonucleic acid; Divergence; DNA; DNA, Plant - genetics; Evolution, Molecular; Gene order; Genes, Plant; Genetic aspects; Genomes; Genomics; Hybridization; Identification and classification; INDEL Mutation; Maternal inheritance; Mitochondrial DNA; Phylogenetics; Phylogeny; Physiological aspects; Plant cells; Plant sciences; Plastids; Plastids - genetics; Plastomes; Polymorphism, Single Nucleotide; Potatoes; Single-nucleotide polymorphism; Solanum - classification; Solanum - genetics; Solanum bukasovii; Solanum tuberosum; Solanum tuberosum - classification; Solanum tuberosum - genetics; Taxa; Taxonomy; Vegetables; Canada
• ISSN: 1932-6203; 1932-6203
• DOI: 10.1371/journal.pone.0240124

The chloroplasts are a crucial part of photosynthesizing plant cells and are extensively utilized in phylogenetic studies mainly due to their maternal inheritance. Characterization and analysis of complete plastome sequences is necessary to understand their diversity and evolutionary relationships. Here, a panel of thirteen plastomes from various potato taxa are presented. Though they are highly similar with respect to gene order and content, there is also a great extent of SNPs and InDels between them, with one of the Solanum bukasovii plastomes (BUK2) having the highest number of SNPs and InDels. Five different potato plastome types (C, S, A, W, W2) are present in the panel. Interestingly, the S. tuberosum subsp. tuberosum (TBR) accession has a W-type plastome, which is not commonly found in this species. The S-type plastome has a conserved 48 bp deletion not found in other types, which is responsible for the divergence of the S-type from the C-type plastome. Finally, a phylogenetic analysis shows that these plastomes cluster according to their types. Congruence between the nuclear genome and the plastome phylogeny of these accessions was seen, however with considerable differences, supporting the hypothesis of introgression and hybridization between potato species.