Browse
Submit Data
Databases
API
Help

Dataset Information

20 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

The complete chloroplast genome of Callicarpa integerrima var. chinensis (Lamiaceae) from Guilin, China, a potential medicinal plant.

ABSTRACT: Callicarpa integerrima var. chinensis is one of the traditional medical herbs which has the potential for multiple diseases' treatment. In this study, the complete chloroplast genome sequence of C. integerrima var. chinensis was sequenced and assembled. A typical quadripartite structure was observed in the chloroplast genome of C. integerrima var. chinensis which was 154179 bp in length, including a pair of inverted repeat (IR) regions (each 51396 bp) separated by a large single-copy region (LSC) of 84927 bp and a small single-copy region (SSC) of 17856 bp, and the overall GC contents of the chloroplast genome was 38.08%. Additionally, we annotated 132 genes, including 86 protein-coding genes, 38 tRNA genes, and 8 rRNA genes. Phylogenetic analysis was adopted which confirmed the position of C. integerrima var. chinensis was close to the congeneric C. formosana and C. siongsaiensis.

SUBMITTER: Gu C

PROVIDER: S-EPMC8425756 | biostudies-literature |

REPOSITORIES: biostudies-literature

ACCESS DATA

Json Xml

Similar Datasets

The complete chloroplast genome of Callicarpa bodinieri (Lamiales, Lamiaceae), an ornamental and medicinal plant from Chongqing, China.

Project description:Plants classified to the genus Callicarpa L. have important medicinal and ornamental value. Here, we report and characterize the complete chloroplast (cp) genome of C. bodinieri to provide molecular basis for the further studies on the phylogeny analysis of this genus. The cp genome is 154,183 bp in length and is organized with a typical quadripartite structure, containing two inverted repeats of 25,701 bp separated by a large single-copy region of 84,956 bp and a small single-copy region of 17,825 bp. The cp genome of C. bodinieri contains 112 distinct genes, including 78 protein-coding, 30 tRNAs and 4 rRNAs genes. The phylogenetic analysis showed that C. bodinieri is fully resolved in a clade with C. nudiflora, sister to the clade of C. formosana and C. longifolia var. floccosa.

| S-EPMC7995876 | biostudies-literature

The complete chloroplast genome of Callicarpa longifolia Lamk. var. floccosa Schauer (Lamiaceae).

Project description:Callicarpa longifolia Lamk. var. floccosa Schauer is a species with medicinal and ornamental values. In this study, the complete chloroplast genome of C. longifolia var. floccose is reported. The chloroplast genome of this species is 154,285 bp in length and contains a typical circular quadripartite structure. There are two inverted repeats of 25,700 bp, which is separated by a large single-copy region of 85,008 bp and a small single-copy region of 17,877 bp. The complete chloroplast contains 112 distinct genes, including 78 protein-coding, 30 tRNAs and 4 rRNAs genes. Phylogenetic analysis suggests that C. longifolia var. floccose is closely associated with C. formosana.

| S-EPMC8635532 | biostudies-literature

The complete chloroplast genome sequence of the medicinal plant, Dracocephalum rupestre (Lamiaceae)

Project description:Abstract Dracocephalum rupestre (tribe Mentheae; Lamiaceae) is a perennial herb from Korea and China with high ornamental and medicinal value. Here, we report its complete chloroplast genome to provide insight into the phylogenetic relationships of Dracocephalum. The genome is 151,230 bp long, with two inverted repeat regions (25,643 bp each) that separate a large single-copy region (82,536 bp) and a small single-copy region (17,408 bp). It contains 133 genes that encode 88 proteins, eight rRNAs, and 37 tRNAs. The maximum-likelihood phylogenetic analysis strongly supported Dracocephalum monophyly, showing that the genus forms a sister group with the subtribe Menthinae in the tribe Mentheae.

| S-EPMC9902028 | biostudies-literature

The complete chloroplast genome sequence of medicinal plant: Dianthus chinensis (Caryophyllaceae).

Project description:Dianthus chinensis is a medicinal plant. Its complete chloroplast genome sequence is 149,570 bp in length, containing 126 complete genes, including 84 protein-coding genes (84 PCGs), 8 ribosomal RNA genes (8 rRNAs), and 34 tRNA genes (34 tRNAs). The overall GC content of cp DNA is 34.1%, the corresponding values of the LSC, SSC, and IR regions are 34.0%, 29.8%, and 42.5%, respectively. Phylogenetic tree shows that D. chinensis is a sister to D. longicalyx.

| S-EPMC7872571 | biostudies-literature

Complete chloroplast genome of Callicarpa formosana Rolfe, a famous ornamental plant and traditional medicinal herb.

Project description:Callicarpa formosana is a species of beauty-berry with large medicinal value belonging to the family Verbenaceae. In this study, the complete chloroplast genome of C. formosana was sequenced using Illumina Hiseq X Ten platform. The chloroplast genome was 1,54,210 bp in length, containing two short inverted repeat (IRa and IRb) regions of 25,701 bp, which was separated by a large single copy (LSC) region of 84,938 bp and a small single copy (SSC) region of 17,870 bp. The GC content of the whole chloroplast genome was 38.1%. The chloroplast DNA of C. formosana comprised 113 genes, including 79 protein-coding genes, 4 ribosomal RNA genes, and 30 transfer RNA genes. Phylogenetic analysis indicated that the genus Callicarpa L. was located in the basal position within the family Verbenaceae. The chloroplast genome (cpDNA) of C. formosana was closely related to Callicarpa nudiflora.

| S-EPMC7781935 | biostudies-literature

The complete chloroplast genome sequence of the medicinal plant Cercis chinensis and phylogenetic analysis

Project description:Abstract Cercis chinensis is a deciduous shrub or small landscape tree with exceptional ornamental characteristics. Here, we report the complete chloroplast genome of C. chinensis to provide a foundation for further phylogenetic studies of the Leguminosae. The chloroplast (cp) genome was 158,999 bp in size containing a large single-copy (LSC) region 88,176 bp in length, a small single-copy (SSC) region 19,583 bp in length, and two inverted repeat (IR) regions that were 25,620 bp each. The total GC content of the cp genome was 42.9% with the LSC, SSC, and IR regions 36.2, 33.8, and 29.4%, respectively. The cp genome contains 129 genes, including 85 protein-coding, 36 tRNA, and 8 rRNA genes. The phylogenetic analysis revealed that C. chinensis is closely related to Cercis glabra. These results provide valuable information about the evolutionary processes and conservation genetics of C. chinensis.

| S-EPMC8592589 | biostudies-literature

The complete chloroplast genome sequence of medicinal plant Alpinia chinensis (Retz.) Rosc.

Project description:Alpinia chinensis (Retz.) Rosc is one of Chinese tradition herbal medicine and edible plant in China. In this report, we sequenced the complete chloroplast genome of A. chinensis. Through the assembly annotation of genome with high-throughput sequencing data, which help us to research the evolution. The length of chloroplast sequences was 163,590 bp with a large single-copy region (LSC) and a small single-copy region (SSC), also, two inverted repeat region A (IR), whose length was 88,951, 15,299, and 29,670 bp, respectively. A total of 138 genes were predicted in the complete chloroplast genome, with 36.4% GC content, including 93 protein-coding genes, 37 tRNA genes, and 8 rRNA genes. From the phylogenetic analysis, we could conclude that A. chinensis (Retz.) Rosc. was close to Alpinia oxyphylla in Zingiberaceae.

| S-EPMC7782896 | biostudies-literature

The complete chloroplast genome sequence of the medicinal plant Mesona chinensis (Labiatae).

Project description:Mesona chinensis is an important traditional Chinese medicine and edible plant resource in China. In this work, we sequenced the complete chloroplast genome of M. chinensis and researched its evolution. The genome size is 152,547 bp, with 37.89% GC content, including a large single copy region (LSC) of 83,482 bp, a small single copy region (SSC) of 17,725 bp and a pair of inverted repeats region (IRs) of 25,670 bp. The complete chloroplast genome was predicted to encode 131 genes, consist of 86 protein-coding genes, 37 tRNA genes and 8 rRNA genes. Phylogenetic analysis showed that M. chinensis was closely related to other Labiatae species Ocimum tenuiflorum.

| S-EPMC7782758 | biostudies-literature

The complete chloroplast genome sequence of the medicinal plant Salvia yunnanensis C. H. Wright. (Lamiaceae).

Project description:Salvia yunnanensis is a medicinal plant commonly used in the southwest of China. In this study, we sequenced the complete chloroplast (cp) genome sequence of S. yunnanensis to investigate its phylogenetic relationship in the family Lamiaceae. The total length of the cp genome was 151,338 bp, with 38.0% overall GC content and exhibited typical quadripartite structure, a pair of IRs (inverted repeats) of 25,578 bp each were separated by a small single-copy (SSC) region of 17,564 bp and a large single-copy (LSC) region of 82,618 bp. The cp genome contained 114 genes, including 80 protein coding genes, 30 tRNA genes, and 4 rRNA genes. The phylogenetic analysis indicated S. yunnanensis was closely related to S. miltiorrhiza, which afforded a scientific evidence that S. yunnanensis could be used as original species of Radix et Rhizoma Saliviae Miltiorrhizae (Danshen).

| S-EPMC7707504 | biostudies-literature

The complete chloroplast genome of Ocimum gratissimum from India - a medicinal plant in the Lamiaceae.

Project description:Ocimum gratissimum L. is an important medicinal species with several therapeutic applications. It is used in traditional medicine as a single drug and in formulations. We generated the complete chloroplast genome sequence of O. gratissimum by using Illumina paired-end sequencing data. The O. gratissimum chloroplast genome is 152,469 bp in length, containing a large single copy (LSC) region of 83,614 bp and a small single copy region (SSC) of 17,607 bp, separated by a pair of inverted repeats (IRs) of 25,624 bp. The genome contains 138 unique genes, including 85 protein-coding, 45 tRNA, and eight rRNA genes. Among them, six genes have one intron each, and two genes contain two introns. The overall GC content of the chloroplast genome is 37.8%, while the corresponding values of LSC, SSC, and IR regions are 35.6%, 31.7%, and 43.2%, respectively. Phylogenetic analysis with the complete chloroplast genomes of other related species revealed that O. gratissimum is fully resolved in a clade with other Ocimum species classified to the family Lamiaceae.

| S-EPMC7996081 | biostudies-literature

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data