Literature DB >> 33457996

The complete chloroplast genome of Berchemia lineata, an important medicinal plant from China.

Xiaohong Xie1, Detuan Liu2,3, Hafiz Muhammad Wariss2,3.   

Abstract

Brechemia lineata is a well-known medicinal plant in the Rhamnaceae family and widely used in traditional Chinese medicine. Here, we sequenced the complete chloroplast genome using Illumina pair-end sequencing data. The chloroplast genome was 154,962 bp in length, consisting of a large single-copy (LSC) region of 82,928 bp, a small single-copy (SSC) region of 17,376 bp, and a pair of inverted repeat (IR) regions of 27,329 bp. The chloroplast genome consists of 112 unique genes, including 78 protein-coding genes, 30 transfer RNA, and 4 ribosomal RNA genes. The overall GC content of the chloroplast genome was 37.0%. The phylogenetic analysis suggests close relationship of B. lineata with other Berchemia species. These genomic resources will be valuable resource for systematic and phylogenetic studies of Berchemia genus.
© 2020 The Author(s). Published by Informa UK Limited, trading as Taylor & Francis Group.

Entities:  

Keywords:  Berchemia lineata; chloroplast genome; medicinal plant; phylogenetic analysis

Year:  2020        PMID: 33457996      PMCID: PMC7782211          DOI: 10.1080/23802359.2020.1791749

Source DB:  PubMed          Journal:  Mitochondrial DNA B Resour        ISSN: 2380-2359            Impact factor:   0.658


  10 in total

1.  MEGA7: Molecular Evolutionary Genetics Analysis Version 7.0 for Bigger Datasets.

Authors:  Sudhir Kumar; Glen Stecher; Koichiro Tamura
Journal:  Mol Biol Evol       Date:  2016-03-22       Impact factor: 16.240

2.  MAFFT multiple sequence alignment software version 7: improvements in performance and usability.

Authors:  Kazutaka Katoh; Daron M Standley
Journal:  Mol Biol Evol       Date:  2013-01-16       Impact factor: 16.240

3.  Analysis of 81 genes from 64 plastid genomes resolves relationships in angiosperms and identifies genome-scale evolutionary patterns.

Authors:  Robert K Jansen; Zhengqiu Cai; Linda A Raubeson; Henry Daniell; Claude W Depamphilis; James Leebens-Mack; Kai F Müller; Mary Guisinger-Bellian; Rosemarie C Haberle; Anne K Hansen; Timothy W Chumley; Seung-Bum Lee; Rhiannon Peery; Joel R McNeal; Jennifer V Kuehl; Jeffrey L Boore
Journal:  Proc Natl Acad Sci U S A       Date:  2007-11-28       Impact factor: 11.205

4.  Geneious Basic: an integrated and extendable desktop software platform for the organization and analysis of sequence data.

Authors:  Matthew Kearse; Richard Moir; Amy Wilson; Steven Stones-Havas; Matthew Cheung; Shane Sturrock; Simon Buxton; Alex Cooper; Sidney Markowitz; Chris Duran; Tobias Thierer; Bruce Ashton; Peter Meintjes; Alexei Drummond
Journal:  Bioinformatics       Date:  2012-04-27       Impact factor: 6.937

5.  GeSeq - versatile and accurate annotation of organelle genomes.

Authors:  Michael Tillich; Pascal Lehwark; Tommaso Pellizzer; Elena S Ulbricht-Jones; Axel Fischer; Ralph Bock; Stephan Greiner
Journal:  Nucleic Acids Res       Date:  2017-07-03       Impact factor: 16.971

6.  The complete chloroplast genome of Epimedium pubescens Maxim. (Berberidaceae), a traditional Chinese medicine herb.

Authors:  Ruoqi Huang; Qiong Liang; Ying Wang; Tae-Jin Yang; Yanjun Zhang
Journal:  Mitochondrial DNA B Resour       Date:  2020-05-12       Impact factor: 0.658

7.  The complete chloroplast genome sequence of Berchemia berchemiifolia (Rhamnaceae).

Authors:  Kyeong-Sik Cheon; Kyung-Ah Kim; Ki-Oug Yoo
Journal:  Mitochondrial DNA B Resour       Date:  2018-01-22       Impact factor: 0.658

8.  OrganellarGenomeDRAW--a suite of tools for generating physical maps of plastid and mitochondrial genomes and visualizing expression data sets.

Authors:  Marc Lohse; Oliver Drechsel; Sabine Kahlau; Ralph Bock
Journal:  Nucleic Acids Res       Date:  2013-04-22       Impact factor: 16.971

9.  Differentiation of the Chinese minority medicinal plant genus Berchemia spp. by evaluating three candidate barcodes.

Authors:  Li-Cheng Guo; Ming-Ming Zhao; Wei Sun; Hong-Li Teng; Bi-Sheng Huang; Xiang-Pei Zhao
Journal:  Springerplus       Date:  2016-06-03

10.  GetOrganelle: a fast and versatile toolkit for accurate de novo assembly of organelle genomes.

Authors:  Jian-Jun Jin; Wen-Bin Yu; Jun-Bo Yang; Yu Song; Claude W dePamphilis; Ting-Shuang Yi; De-Zhu Li
Journal:  Genome Biol       Date:  2020-09-10       Impact factor: 13.583

  10 in total

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