Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

The complete chloroplast genome of the multipurpose and traditional herb, Ruta graveolens L.

ABSTRACT: Ruta graveolens L. is a perennial plant belonging to the family Rutaceae and has been used for traditional medicines for a long time. In this study, the complete chloroplast (cp) genome sequence of R. graveolens was first reported and characterized. The cp genome is 157,434?bp in length and contains a pair of inverted repeats (IRs, 26,868?bp) separated by a large (85,387?bp) and small (18,311?bp) single-copy regions. A total of 132 genes were predicted, including 87 protein-coding genes, 37 tRNA genes and 8 rRNA genes. The phylogenetic analysis suggested that R. graveolens is more closely related to the monophyletic subfam. Aurantioideae.

SUBMITTER: Ling LZ

PROVIDER: S-EPMC7707451 | biostudies-literature | 2019 Oct

REPOSITORIES: biostudies-literature

ACCESS DATA

Json Xml

Publications

The complete chloroplast genome of the multipurpose and traditional herb, Ruta graveolens L.

Ling Li-Zhen LZ Zhang Shu-Dong SD

Mitochondrial DNA. Part B, Resources 20191018 2

Ruta graveolens L. is a perennial plant belonging to the family Rutaceae and has been used for traditional medicines for a long time. In this study, the complete chloroplast (cp) genome sequence of R. graveolens was first reported and characterized. The cp genome is 157,434 bp in length and contains a pair of inverted repeats (IRs, 26,868 bp) separated by a large (85,387 bp) and small (18,311 bp) single-copy regions. A total of 132 genes were predicted, including 87 protein-coding ...[more]

PMID: 33366131

Similar Datasets

The complete chloroplast genome of Isodon rubescens, a traditional Chinese herb.

Project description:Isodon rubescens (Hemsley) H. Hara is a kind of traditional medical herb which can be used for cancer treatment. In this study, the complete chloroplast genome sequence of I. rubescens was assembled. Its complete circular chloroplast DNA length was 152,761 bp. The genome was made up of a large single-copy region of 83,655 bp, a small single-copy region of 17,660 bp, and a pair of inverted repeat regions of 25,723 bp. The genome totally encoded 129 genes, containing 85 protein-coding genes, 36 tRNA genes, and eight rRNA genes. Phylogenetic analysis indicated that I. rubescens had a close relationship with basil (Ocimum basilicum).

| S-EPMC7872541 | biostudies-literature

The complete chloroplast genome of the traditional Chinese herb, Uncaria rhynchophylla (Rubiaceae).

Project description:Uncaria rhynchophylla is a vine plant belonging to the family Rubiaceae and has been used as medicine for a long time in China. In this study, the complete chloroplast (cp) genome sequence of U. rhynchophylla was first reported and characterized. The cp genome was 154,605 bp in length and contains a pair of inverted repeats (IRs, 34,165 bp each) separated by a large (84,327 bp) and small (12,966 bp) single-copy regions. A total of 113 unique genes were predicted, including 79 protein-coding genes, 30 tRNA genes and 4 rRNA genes. The phylogenetic analysis suggested that U. rhynchophylla was closer to Neolamarckia cadamba.

| S-EPMC7748432 | biostudies-literature

The complete chloroplast genome of Epimedium brevicornu (Berberidaceae), a traditional Chinese medicinal herb.

Project description:Epimedii Folium has been used as a common traditional Chinese medicine for more than 2000 years in China. In this study, we assembled the complete chloroplast (cp) genome of Epimedium brevicornu. The whole cp genome of E. brevicornu is 158,658 bp in length, comprising a pair of inverted repeat (IR) regions (27,699 bp) separated by a large single copy (LSC) region (86,558 bp) and a small single copy (SSC) region (16,702bp). The E. brevicornu cp genome contains 129 genes, of which 84 protein-coding genes, 37 tRNA genes, and eight rRNA genes. Phylogenetic analysis shows that E. brevicornu is closely clustered with E. wushanense, E. lishihchenii, and E. sagittatum. The published E. brevicornu chloroplast genome will provide useful information for the phylogenetic and evolutionary study on Epimedium family of Berberidaceae.

| S-EPMC7748714 | biostudies-literature

The complete chloroplast genome of Akebia trifoliata (Lardizabalaceae), a traditional herb in China.

Project description:Akebia trifoliata, commonly known as 'Bayuezha' in China, has been widely used as traditional Chinese medicinal herbs with a long history. In the present study, the complete chloroplast genome of A. trifoliata was sequenced using Illumina high-throughput sequencing approach. The length of the complete chloroplast genome is 157,952 bp with 38.7% GC content. It contains 131 genes, including 86 protein-coding genes, 37 tRNA genes, and 8 rRNA genes. Phylogenetic analysis indicated that A. trifoliata was closely related to another Lardizabalaceae species, Akebia quinata, which further confirms traditional species classification.

| S-EPMC7782334 | biostudies-literature

The complete chloroplast genome of Phlomoides younghushandii (Lamiaceae), a traditional Tibetan medicinal herb.

Project description:The species Phlomoides younghushandii is a medicinal herb mainly distributed in southwest China. The first complete plastid genome sequence of P. younghushandii reported here was 151,747 bp long, with the large single copy (LSC) region of 83,181 bp, the small single copy (SSC) region of 17,372 bp and two inverted repeats (IRa and IRb) of 25,597 bp. The plastome contained 114 genes, including 80 protein-coding genes, four encoding rRNAs, and 30 encoding tRNAs. The overall GC content was 38.5%. Phylogenetic analysis of Lamiaceae based on a whole plastome matrix suggested that Phlomoides is closely related to the genus Phlomis as members of subfamily Lamioideae.

| S-EPMC7995819 | biostudies-literature

The complete chloroplast genome of Phlomoides betonicoides (Lamiaceae), a traditional Tibetan medicinal herb.

Project description:The species Phlomoides betonicoides is used medicinally and mainly distributed in southwest China. The first complete plastid genome sequence of P. betonicoides reported here was 151,777 bp long, with the large single copy (LSC) region of 83,205 bp, the small single copy (SSC) region of 17,370 bp and two inverted repeats (IRa and IRb) of 25,601 bp. The plastome contained 114 genes, including 80 protein-coding genes, four ribosomal RNA genes, and 30 transfer RNA genes. The overall GC content was 38.5%. Result from phylogenetic analysis suggests that tribe Phlomideae (Phlomoides) is closely related to tribe Lamieae and tribe Leonureae in present study.

| S-EPMC7721044 | biostudies-literature

The complete chloroplast genome of Plagiorhegma dubia Maxim., a traditional Chinese medicinal herb.

Project description:Plagiorhegma dubia Maxim. is a traditional Chinese medicinal herb from Plagiorhegma, Berberidaceae, which is distributed in the northeast of China, Korea, Russia. The complete chloroplast genome is 152,468 bp in length, with large single copy (LSC 82,257 bp) and small single copy (SSC 16,599 bp) regions separated by a pair of inverted repeats (IR 26 805 bp). The genome has a total of 113 genes including 79 protein-coding genes, 30 tRNA genes, and 4 rRNA genes. Phylogenetic analysis shows that P. dubia is closely related with Sinopodophyllum hexandrum and Epimedium species. The results are of great implication for the development and utilization of P. dubia and the phylogenetic researches on Berberidaceae.

| S-EPMC7800371 | biostudies-literature

The complete chloroplast genome of Schizonepeta tenuifolia (Benth.) Briq., a traditional Chinese herb.

Project description:Schizonepeta tenuifolia (Benth.) Briq. is a traditional Chinese medicinal herb. The complete chloroplast genome sequence of S. tenuifolia was obtained by high-throughput sequencing platform. The chloroplast genome of S. tenuifolia is a circular form of 151,254 bp in length, with an average GC content of 37.85%. The genome contains a set of 132 genes, including 87 protein-coding genes, 37 tRNA genes, and eight rRNA genes. Phylogenetic analysis based on complete chloroplast genome sequences indicates that S. tenuifolia has a close relationship with Dracocephalum palmatum. This study provides a molecular basis for the classification of S. tenuifolia.

| S-EPMC7971225 | biostudies-literature

The first complete chloroplast genome of a traditional Chinese medicinal herb Odontosoria chinensis (Lindsaeaceae).

Project description:It is the first report on complete chloroplast genome of Odontosoria chinensis, a traditional Chinese medicinal herb. The genome size is 156,293?bp, containing a pair of inverted repeats (IRs) (25,198?bp) separated by a small single-copy (SSC) region (20,649?bp) and a large single-copy (LSC) region (85,248?bp), respectively. The plastome has 128 genes, including 87 protein-coding genes, 32 tRNA genes, eight rRNA genes, and one pseudogene. The overall GC content is 40.43%. Maximum likelihood tree reveals that O. chinensis is basal lineages of polypods. The study will provide powerful molecular information for further phylogenetic analysis.

| S-EPMC7799563 | biostudies-literature

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

Project description:Epimedium brevicornu Maxim. is a traditional Chinese medicine herb with good effects on many diseases. In the present paper, the complete chloroplast genome of E. brevicornu was sequenced. The complete chloroplast genome of E. brevicornu was 159572 bp in length with 38.83% GC content, including four distinct regions: large single-copy region (86535 bp), small single-copy region (17641 bp), and a pair of inverted repeat regions (27698 bp). The chloroplast genome encoded 112 unique genes, which included 78 protein-coding genes, 30 tRNA genes, and 4 rRNA genes. Phylogenetic analysis with the previously reported chloroplast genomes of Epimedium showed that E. brevicornu with small flowers at first clustered with large-flowered E. acuminatum into a strongly supported branch, but not with Epimedium species having similar floral characters.

| S-EPMC7748679 | biostudies-literature