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The complete plastome of Echium plantagineum L. (Boraginaceae), the first chloroplast genome belonging to the Echium genus.

ABSTRACT: Besides being a common weed, the presence of Echium plantagineum L. in food and feed commodities can represent a safety hazard due to their content in pyrrolizidine alkaloids. In this study, the complete chloroplast of E. plantagineum isolate BPTPS251 is described, being the first available plastome from an isolate belonging to the Echium genus. The chloroplast genome is 149,776 bp in length with 37.5% GC content, displaying a quadripartite structure that contains a pair of inverted repeats regions (25,754 bp each), separated by a large single-copy (80,978 bp) and a small single-copy (17,290 bp) regions. A total of 131 genes were predicted, including 37 tRNA genes, 8 rRNA genes, and 86 protein-coding genes. The phylogenetic analysis confirmed the placement of E. plantagineum under the Boraginaceae family, belonging to the Boraginales order. This study will contribute to conservation, phylogenetic, and evolutionary studies, as well as DNA barcoding applications for food and feed safety purposes.

SUBMITTER: Carvalho Leonardo I

PROVIDER: S-EPMC9245987 | biostudies-literature |

REPOSITORIES: biostudies-literature

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Project description:Bignoniaceae is a Pantropical plant family that is especially abundant in the Neotropics. Members of the Bignoniaceae are diverse in many ecosystems and represent key components of the Tropical flora. Despite the ecological importance of the Bignoniaceae and all the efforts to reconstruct the phylogeny of this group, whole chloroplast genome information has not yet been reported for any members of the family. Here, we report the complete chloroplast genome sequence of Tanaecium tetragonolobum (Jacq.) L.G. Lohmann, which was reconstructed using de novo and referenced-based assembly of single-end reads generated by shotgun sequencing of total genomic DNA in an Illumina platform. The gene order and organization of the chloroplast genome of T. tetragonolobum exhibits the general structure of flowering plants, and is similar to other Lamiales chloroplast genomes. The chloroplast genome of T. tetragonolobum is a circular molecule of 153,776 base pairs (bp) with a quadripartite structure containing two single copy regions, a large single copy region (LSC, 84,612 bp) and a small single copy region (SSC, 17,586 bp) separated by inverted repeat regions (IRs, 25,789 bp). In addition, the chloroplast genome of T. tetragonolobum has 38.3% GC content and includes 121 genes, of which 86 are protein-coding, 31 are transfer RNA, and four are ribosomal RNA. The chloroplast genome of T. tetragonolobum presents a total of 47 tandem repeats and 347 simple sequence repeats (SSRs) with mononucleotides being the most common and di-, tri-, tetra-, and hexanucleotides occurring with less frequency. The results obtained here were compared to other chloroplast genomes of Lamiales available to date, providing new insight into the evolution of chloroplast genomes within Lamiales. Overall, the evolutionary rates of genes in Lamiales are lineage-, locus-, and region-specific, indicating that the evolutionary pattern of nucleotide substitution in chloroplast genomes of flowering plants is complex. The discovery of tandem repeats within T. tetragonolobum and the presence of divergent regions between chloroplast genomes of Lamiales provides the basis for the development of markers at various taxonomic levels. The newly developed markers have the potential to greatly improve the resolution of molecular phylogenies.

Dataset Information

The complete plastome of Echium plantagineum L. (Boraginaceae), the first chloroplast genome belonging to the Echium genus.

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