Browse
Submit Data
Databases
API
Help

Dataset Information

19 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Characterization of the complete chloroplast genome of Dracocephalum heterophyllum (Lamiaceae).

ABSTRACT: Dracocephalum heterophyllum is a medicinal plant. The complete chloroplast genome sequence is 150,860 bp in length, which contains 133 complete genes, among them, 88 are protein-coding genes (88 PCGs), 8 are ribosomal RNA genes (8 rRNAs), and 37 are tRNA genes (37 tRNAs). The overall GC content of chloroplast DNA is 37.6%, the respective values of the LSC, SSC, and IR regions are 36.0%, 31.6%, and 43.0%. Phylogenetic tree shows that D. heterophyllum is a sister to D. moldavica and D. palmatum.

SUBMITTER: Zhang L

PROVIDER: S-EPMC8259819 | biostudies-literature |

REPOSITORIES: biostudies-literature

ACCESS DATA

Json Xml

Similar Datasets

Characterization of the complete chloroplast genome of Salvia leucantha (Lamiaceae)

Project description:Abstract Salvia leucantha (Lamiaceae) is an important horticultural plant with great ornamental and economic value. Here, we report the complete chloroplast genome of this species. The chloroplast genome was determined to be 151021 bp and the GC contents was 38.0%. The sequence includes a large single copy (LSC) region of 82,262 bp, a small single copy (SSC) region of 17,537 bp, and two separated inverted regions of 25,611 bp each. It contains 130 unique genes, including 85 protein-coding genes, 37 tRNA genes, and 8 rRNA genes. Based on the chloroplast genomes data of 26 species in Salvia, our result indicated that S. leucantha, S. tiliifolia, S. hispanica, and S. splendens formed one clade with Bootstrap = 100%. The four species belong to Salvia subgenus Calosphace, and S. leucantha was closely related to Salvia tiliifolia and Salvia hispanica. This result will facilitate population, genetic diversity and phylogenetic studies of S. leucantha.

| S-EPMC8592588 | biostudies-literature

Characterization of the complete chloroplast genome of Salvia tiliifolia Vahl (Lamiaceae).

Project description:Salvia tiliifolia Vahl is native to Central America and considered as an invasive plant in Mexico, the United States, Ethiopia, South Africa, and Australia. The complete chloroplast (cp) genome of S. tiliifolia was 150,836 bp in length, which contained a large single-copy (LSC) region of 82,129 bp, a small single-copy (SSC) region of 17,533 bp, and a pair of inverted repeats (IRs) region of 25,587 bp each. The genome harbored 130 genes, including 85 protein coding genes, 37 tRNA genes, and 8 ribosomal RNA genes. The overall GC content was 37.99%. Phylogenetic analysis indicated that S. tiliifolia is closely related to the species of Salvia chanryoenica.

| S-EPMC7510622 | biostudies-literature

Characterization of the complete chloroplast genome of Clerodendrum bungei Steud. (Lamiaceae).

Project description:Clerodendrum bungei Steud. is one kind of traditional medical herb which can be used for airway hyperreactivity treatment. In this study, the complete chloroplast genome sequence of C. bungei was assembled. Its complete circular chloroplast DNA length was 151,680 bp. The genome was made up of a large single-copy region of 83,189 bp, a small single-copy region of 17,311 bp, and a pair of inverted repeat regions of 25,590 bp. The genome totally encoded 130 genes, containing 85 protein-coding genes, 37 tRNA genes, and eight rRNA genes. The phylogenetic analysis indicates that C. bungei belongs to the Lamiaceae family.

| S-EPMC8204993 | biostudies-literature

Sequencing and phylogenetic analysis of the complete chloroplast genome of Arisaema heterophyllum Blume

Project description:Abstract Arisaema heterophyllum Blume is a perennial medicinal herb widely distributed in China, Korea and Japan. In this study, the complete chloroplast genome sequence of A. heterophyllum was assembled and characterized based on high-throughput sequencing data. The whole chloroplast genome is 170,610 bp in length and contains 95,485 bp large single-copy (LSC) and 22,605 bp small single-copy (SSC) regions separated by a pair of 26,260 bp inverted repeat (IR) regions. It contained a total of 129 genes, including 84 protein-coding genes, 37 tRNA genes, and 8 rRNA genes, with an overall GC content of 34.5%. A phylogenetic tree reconstructed by 30 chloroplast genomes reveals that A. heterophyllum is mostly related to the same genus A. ringens, A. franchetianum and A. erubescens. The complete chloroplast genome of A. heterophyllum was the firstly reported and deposited at GenBank under accession number MZ424448.

| S-EPMC8547874 | biostudies-literature

Complete Chloroplast Genome Sequencing and Phylogenetic Analysis of Two Dracocephalum Plants.

Project description:Dracocephalum tanguticum and Dracocephalum moldavica are important herbs from Lamiaceae and have great medicinal value. We used the Illumina sequencing technology to sequence the complete chloroplast genome of D. tanguticum and D. moldavica and then conducted de novo assembly. The two chloroplast genomes have a typical quadripartite structure, with the gene's lengths of 82,221?bp and 81,450?bp, large single-copy region's (LSC) lengths of 82,221?bp and 81,450?bp, and small single-copy region's (SSC) lengths of 17,363?bp and 17,066?bp, inverted repeat region's (IR) lengths of 51,370?bp and 51,352?bp, respectively. The GC content of the two chloroplast genomes was 37.80% and 37.83%, respectively. The chloroplast genomes of the two plants encode 133 and 132 genes, respectively, among which there are 88 and 87 protein-coding genes, respectively, as well as 37 tRNA genes and 8 rRNA genes. Among them, the rps2 gene is unique to D. tanguticum, which is not found in D. moldavica. Through SSR analysis, we also found 6 mutation hotspot regions, which can be used as molecular markers for taxonomic studies. Phylogenetic analysis showed that Dracocephalum was more closely related to Mentha.

| S-EPMC7787725 | biostudies-literature

Complete chloroplast genome of a widely distributed species in southwest China, Hemiphragma heterophyllum Wall. (Scrophulariaceae).

Project description:Hemiphragma heterophyllum Wall., a widely distributed species in southwest China, belongs to a monotypic genus, Hemiphragma Wall. in the Scrophulariaceae. To date, there has been no study on its complete chloroplast genome. Hence, we reported the first complete chloroplast genome sequence of H. heterophyllum here. The genome sequences of two individuals were extremely similar except slight differences on sequence lengths (152,707 bp and 152,700 bp, respectively). There was a typical circular quadripartite structure. A total of 113 genes were annotated, including 79 protein-coding genes, 29 tRNA genes, four rRNA genes, and one pseudogene. Among the annotated genes, 16 genes contained one intron, whereas another two genes (ycf3 and clpP) possessed two gene introns. Total GC content is 38.1% in the chloroplast genome. Moreover, a total of 63 simple sequence repeats (SSRs) with five types were detected. Phylogenetic analysis revealed that Hemiphragma was closely related to Veronica L. and Veronicastrum Heist. ex Farbic.

| S-EPMC7707267 | biostudies-literature

The complete chloroplast genome of Salvia liguliloba Y. Z. Sun (Lamiaceae).

Project description:Salvia liguliloba Y. Z. Sun is a plant species endemic to the Tianmu Mountains. In this study, we assembled the complete chloroplast genome of S. liguliloba. The chloroplast genome of S. liguliloba was 151,490 bp with quadripartite structure in length, which contained 124 encoded genes, including 79 protein-coding genes, eight ribosomal RNA genes, and 37 transfer RNA genes. Our phylogenetic analysis result based on 54 chloroplast genomes revealed that S. liguliloba was closely related to S. miltiorrhiza according to the current sampling extent in Lamiaceae.

| S-EPMC9318229 | biostudies-literature

Characterization of the complete chloroplast genome of Ajuga forrestii (Lamiaceae), a medicinal plant in southwest of China.

Project description:Ajuga forrestii is a medicinal plant commonly used in southwest of China. In this study, we sequenced the complete chloroplast (cp) genome sequence of A. forrestii to investigate its phylogenetic relationship in the family Lamiaceae. The chloroplast genome of A. forrestii was 150,492 bp in length with 38.3% overall GC content, including a large single copy (LSC) region of 82,148 bp, a small single copy (SSC) region of 17,160 bp and a pair of inverted repeats (IRs) of 25,592 bp. The cp genome contained 112 genes, including 79 protein coding genes, 29 tRNA genes, and 4 rRNA genes. The phylogenetic analysis indicated Ajuga was closely related to Scutellaria.

| S-EPMC7707673 | biostudies-literature

The complete chloroplast genome sequence of the fragrant plant Lavandula angustifolia (Lamiaceae).

Project description:Chloroplast (cp) genome sequences have become a useful popular tool for population and phylogeny recently. It is little known about genetics information of Lavandula angustifolia. Here, the complete chloroplast genome of the L. angustifolia has been reconstructed from the whole-genome Illumina sequencing data. The circular genome is 153,448?bp in size, and comprises of a pair of inverted repeat (IR) regions of 25,632?bp each, a large single-copy (LSC) region of 84,588?bp and a small single-copy (SSC) region of 17,596?bp. The total GC content is 38.0%, while the corresponding values of the LSC, SSC, and IR regions are 36.2, 31.8, and 43.2%, respectively. The chloroplast genome contains 132 genes, including 88 protein-coding genes, 8 ribosomal RNA genes, and 37 transfer RNA genes. The Maximum-Likelihood phylogenetic analysis showed a strong sister relationship with Salvia miltiorrhiza in Lamiaceae. These findings provide a foundation for further investigation of cp genome evolution in L. angustifolia and other higher plants.

| S-EPMC7800143 | biostudies-literature

The complete chloroplast genome of the common self-heal, Prunella vulgaris (Lamiaceae).

Project description:Prunella vulgaris L. is an important medicinal herb widely used in China and western countries. Its natural distribution occurs in various habitats throughout northern hemisphere. In present study, we assembled and characterized its whole chloroplast (cp) genome based on Illumina pair-end sequencing data. The complete chloroplast genome size is 156,132?bp. It contained 134 genes, including 89 protein-coding genes, 37 tRNA genes, and 8 rRNA genes. 8 gene species had two copies. The overall GC content of this genome was 37.9%. A further phylogenomic analysis of Lamiaceae, including 29 taxa, was conducted for the placement of P. vulgaris.

| S-EPMC7800226 | biostudies-literature

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

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