Dataset Information

The complete chloroplast genome of Ixora chinensis and phylogenetic relationships.

ABSTRACT: In this study, the complete chloroplast (cp) genome of Ixora chinensis was sequenced by next-generation sequencing for the first time. The complete cp genome is 154,787 in length and contained 131 genes, consisting of 86 protein-coding genes, eight ribosomal RNA genes, and 37 transfer RNA genes. The phylogenetic position based on chloroplast genomes suggests that I. chinensis was closely related to I. chinensis (MN850660.1) within the Ixora clade, which may provide useful information for further understanding the evolution of I. chinensis.

SUBMITTER: Bian A

PROVIDER: S-EPMC8526029 | biostudies-literature | 2021

REPOSITORIES: biostudies-literature

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The complete chloroplast genome of Ixora chinensis and phylogenetic relationships.

Bian Ana A Lu Luanmei L

Mitochondrial DNA. Part B, Resources 20211015 11

In this study, the complete chloroplast (cp) genome of Ixora chinensis was sequenced by next-generation sequencing for the first time. The complete cp genome is 154,787 in length and contained 131 genes, consisting of 86 protein-coding genes, eight ribosomal RNA genes, and 37 transfer RNA genes. The phylogenetic position based on chloroplast genomes suggests that I. chinensis was closely related to I. chinensis (MN850660.1) within the Ixora clade, which may provide useful in ...[more]

PMID: 34676293

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Project description:BackgroundThe plastome of medicinal and endangered species in Kingdom of Saudi Arabia, Barleria prionitis was sequenced. The plastome was compared with that of seven Acanthoideae species in order to describe the plastome, spot the microsatellite, assess the dissimilarities within the sampled plastomes and to infer their phylogenetic relationships.ResultsThe plastome of B. prionitis was 152,217 bp in length with Guanine-Cytosine and Adenine-Thymine content of 38.3 and 61.7% respectively. It is circular and quadripartite in structure and constitute of a large single copy (LSC, 83, 772 bp), small single copy (SSC, 17, 803 bp) and a pair of inverted repeat (IRa and IRb 25, 321 bp each). 131 genes were identified in the plastome out of which 113 are unique and 18 were repeated in IR region. The genome consists of 4 rRNA, 30 tRNA and 80 protein-coding genes. The analysis of long repeat showed all types of repeats were present in the plastome and palindromic has the highest frequency. A total number of 98 SSR were also identified of which mostly were mononucleotide Adenine-Thymine and are located at the non coding regions. Comparative genomic analysis among the plastomes revealed that the pair of the inverted repeat is more conserved than the single copy region. In addition high variation is observed in the intergenic spacer region than the coding region. The genes, ycf1and ndhF and are located at the border junction of the small single copy region and IRb region of all the plastome. The analysis of sequence divergence in the protein coding genes indicates that the following genes undergo positive selection (atpF, petD, psbZ, rpl20, petB, rpl16, rps16, rpoC, rps7, rpl32 and ycf3). Phylogenetic analysis indicated sister relationship between Ruellieae and Justcieae. In addition, Barleria, Justicia and Ruellia are paraphyletic, suggesting that Justiceae, Ruellieae, Andrographideae and Barlerieae should be treated as tribes.ConclusionsThis study sequenced and assembled the first plastome of the taxon Barleria and reported the basics resources for evolutionary studies of B. prionitis and tools for phylogenetic relationship studies within the core Acanthaceae.

Dataset Information

The complete chloroplast genome of Ixora chinensis and phylogenetic relationships.

Publications

The complete chloroplast genome of <i>Ixora chinensis</i> and phylogenetic relationships.

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