Characterization of the complete chloroplast genome of Scorpiothyrsus erythrotrichus (Melastomataceae), an endemic to Hainan

Abstract Scorpiothyrsus erythrotrichus belongs to Melastomataceae. Here, we present its complete plastome. To our knowledge, this is the first reported complete chloroplast genome of S. erythrotrichus. The complete plastome of S. erythrotrichus is 160,731 bp in length with a typical quadripartite structure, consisting of four regions: large single-copy (LSC) region (85,483 bp), small single-copy (SSC) region (17,007 bp), and two inverted repeat regions (IRs, 26,780 bp). It contains 128 genes (79 coding genes, four rRNAs, and 30 tRNAs). The overall GC content is 36.9% and in the LSC, SSC, and IR regions are 34.70%, 30.40%, and 42.50%, respectively. Our study contributes to the molecular phylogenetic studies of Scorpiothyrsus and Melastomataceae.

[1]  C. dePamphilis,et al.  GetOrganelle: a fast and versatile toolkit for accurate de novo assembly of organelle genomes , 2019, bioRxiv.

[2]  Michael J. Moore,et al.  PGA: a software package for rapid, accurate, and flexible batch annotation of plastomes , 2019, Plant Methods.

[3]  Daron M. Standley,et al.  MAFFT-DASH: integrated protein sequence and structural alignment , 2019, Nucleic Acids Res..

[4]  Alli L. Gombolay,et al.  Ribose-Map: a bioinformatics toolkit to map ribonucleotides embedded in genomic DNA , 2018, Nucleic acids research.

[5]  Y. Liu,et al.  Exploring the generic delimitation of Phyllagathis and Bredia (Melastomataceae): A combined nuclear and chloroplast DNA analysis , 2018, Journal of Systematics and Evolution.

[6]  Axel Fischer,et al.  GeSeq – versatile and accurate annotation of organelle genomes , 2017, Nucleic Acids Res..

[7]  Olga Chernomor,et al.  Terrace Aware Data Structure for Phylogenomic Inference from Supermatrices , 2016, Systematic biology.

[8]  Shane S. Sturrock,et al.  Geneious Basic: An integrated and extendable desktop software platform for the organization and analysis of sequence data , 2012, Bioinform..

[9]  C. Hansen.  The genus Phyllagathis (Melastomataceae): characteristics; delimitation; the species in Indo-China and China , 1992 .

[10]  E. Pahlich,et al.  A rapid DNA isolation procedure for small quantities of fresh leaf tissue , 1980 .

[11]  Hui-lin Li.  Studies in the Melastomataceae of China , 1944, Journal of the Arnold Arboretum.

[12]  E. Merrill,et al.  Additions to our knowledge of the Hainan Flora (2) , 1935 .