Dataset Information

The first complete plastome sequence from the family Sapotaceae, Pouteria campechiana (Kunth) Baehni.

ABSTRACT: In this study, we determined the complete plastome sequence of Pouteria campechiana (Kunth) Baehni (Sapotaceae) (NCBI acc. no. KX426215). This is the first time a plastome from the Sapotaceae has been sequenced. The gene order and structure of the P. campechiana plastome are collinear with those of the typical plastome of land plants. The complete plastome size is 157,922?bp in length and consists of a large single-copy region of 87,122?bp and a small single-copy region of 18,559?bp, which are separated by a pair of 26,120?bp-long inverted repeat regions. The overall A-T content of the plastome sequence is 63.2%. The plastome contains 113 genes, of which 79 are protein-coding genes, 30 are tRNA genes, and 4 are rRNA genes. Sixteen genes contain one intron and two genes have two introns. A total of 91 simple sequence repeat loci were identified within the genome. Phylogenetic analysis revealed that P. campechiana is a sister group of the Primulaceae-Ebenaceae clade with 100% bootstrap support.

SUBMITTER: Jo S

PROVIDER: S-EPMC7800956 | biostudies-literature | 2016 Oct

REPOSITORIES: biostudies-literature

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The first complete plastome sequence from the family Sapotaceae, Pouteria campechiana (Kunth) Baehni.

Jo Sangjin S Kim Hoe-Won HW Kim Young-Kee YK Cheon Se-Hwan SH Kim Ki-Joong KJ

Mitochondrial DNA. Part B, Resources 20161029 1

In this study, we determined the complete plastome sequence of Pouteria campechiana (Kunth) Baehni (Sapotaceae) (NCBI acc. no. KX426215). This is the first time a plastome from the Sapotaceae has been sequenced. The gene order and structure of the P. campechiana plastome are collinear with those of the typical plastome of land plants. The complete plastome size is 157,922 bp in length and consists of a large single-copy region of 87,122 bp and a small single-copy region of 18,559 b ...[more]

PMID: 33473609

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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 first complete plastome sequence from the family Sapotaceae, Pouteria campechiana (Kunth) Baehni.

Publications

The first complete plastome sequence from the family Sapotaceae, <i>Pouteria campechiana</i> (Kunth) Baehni.

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