Browse
Submit Data
Databases
API
Help

Dataset Information

21 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

The complete chloroplast genome of Polygonatum zanlanscianense (Pampanini, 1915) (Asparagaceae), an adulterants of Polygonati rhizoma.

ABSTRACT: Polygonatum zanlanscianense Pamp. is a plant species of the genus Polygonatum (Asparagaceae) distributed widely in China. The complete chloroplast genome of P. zanlanscianense was sequenced by Illumina sequencing technology. The plastome is 155,609 bp in length with a typical quadripartite structure, including one small single copy (SSC, 18,427 bp), one large copy (LSC, 84,438 bp), and two inverted repeat regions (IRs, 26,372 bp each). The cp genome encoded 132 genes, including 38 tRNA, 8 rRNA, and 86 protein-coding genes. The overall GC content is 37.7%. The ML phylogenetic analysis based on the cp genomes indicated that the genus Polygonatum is sister to the genus Heteropolygonatum within the tribe Polygonateae, P. zanlanscianense is sister to P. cirrhifolium within the genus Polygonatum. This study provides an important theoretical foundation for varieties identification, the phylogenetic relationship of P. zanlanscianense. Furthermore, this article takes a radical reform of Polygonati rhizoma.

SUBMITTER: Shi N

PROVIDER: S-EPMC8291058 | biostudies-literature |

REPOSITORIES: biostudies-literature

ACCESS DATA

Json Xml

Similar Datasets

Complete chloroplast genome of a medicinal species Polygonatum kingianum in China (Asparagaceae, Asparagales).

Project description:Polygonatum kingianum is a medicinal and food plant distributed in most of countries throughout the temperate Northern Hemisphere. Here we report on the complete chloroplast (cp) genome sequence of P. kingianum. The cp genome is 155,399 bp in size and includes two inverted repeat regions of 52,7411 bp, which is separated by a large single-copy region of 84,234 bp and a small single copy region of 18,424 bp. A total of 130 genes were predicted, including 38 tRNA, 8 rRNA, and 84 protein-coding genes. Phylogenetic analysis placed P. kingianum under the subfamily Nolinoideae of the family Asparagaceae.

| S-EPMC7748866 | biostudies-literature

The complete chloroplast genome of a traditional medicinal and food plant, Polygonatum humile (Asparagaceae, Asparagales).

Project description:Polygonatum humile (Asparagaceae) is a medicinal and food plant that is naturally distributed in the North East Asia region and East of Russia. Here we report on the complete chloroplast (cp) genome sequence of P. humile. The cp genome is 155,313?bp in size and includes two inverted repeat regions of 26,302?bp each, which is separated by a large single-copy region of 84,239?bp and a small single-copy region of 18,470?bp. A total of 132 genes were predicted, including 39 tRNA, 8 rRNA, and 85 protein-coding genes. Phylogenetic analysis placed P. humile under the subfamily Nolinoideae of the family Asparagaceae.

| S-EPMC7706532 | biostudies-literature

Characterization of the chloroplast genome of a rare species Polygonatum sp. in China (Asparagaceae, Asparagales).

Project description:Polygonatum (Asparagaceae) is a medicinal and food plant that is naturally distributed in most of countries throughout the temperate Northern Hemisphere. Here we report on the complete chloroplast (cp) genome sequence of a rare species Polygonatum sp. without defoliation in late autumn or winter. The cp genome is 157,696 bp in size and includes two inverted repeat regions of 52,821bp, which is separated by a large single-copy region of 84,359 bp and a small single copy region of 20,516 bp. A total of 132 genes were predicted, including 38 tRNA, 8 rRNA, and 86 protein-coding genes. Phylogenetic analysis placed Polygonatum sp. under the subfamily Nolinoideae of the family Asparagaceae.

| S-EPMC7748811 | biostudies-literature

Characterization of the complete chloroplast genome of Rohdea wattii (Asparagaceae).

Project description:As a kind of rare plant with important medicinal value and breeding value, Rohdea wattii usually grow in dark and damp places. In this study, we reported the complete chloroplast genome of R. wattii. We used a variety of bioinformatics analysis methods to analyze and visualize the chloroplast genome and phylogenetic relationships. A typical quadripartite structure was observed in the chloroplast genome of R. wattii with a genome size of 156,487 bp. The length of the large single-copy region (LSC) was 84,969 bp, which was the longest region among the four regions; the second longest was the Inverted repeat region (IR) with 26,451 bp in length; and the smallest was the small single-copy region (SSC) with 18,616 bp in length. The overall GC content of R. wattii chloroplast genome is 37.61%. In addition, a total of 132 genes were identified in the whole genome of R. wattii, which include 86 protein-coding genes, 38 tRNA genes, and eight rRNA genes. Finally, by constructing a phylogenetic tree to analyze the phylogeny of R. wattii, and it indicated that R. wattii and Rohdea chinensis are a close evolutionary relationship.

| S-EPMC8405109 | biostudies-literature

The complete chloroplast genome sequence of Hosta capitata (Koidz.) Nakai (Asparagaceae).

Project description:Hosta capitata (Koidz.) Nakai is an herbaceous perennial plant belonging to the Asparagaceae family and has become a popular ornamental plant. In this study, the chloroplast genome sequence of H. capitata was completed by de novo assembly with whole genome sequence data. The chloroplast genome of H. capitata is 156,416 bp in length, which is composed of a large single-copy (LSC) of 84,788 bp, a small single-copy (SSC) of 18,206 bp, and a pair of inverted repeat regions (IRa and IRb) of 26,711 bp, as four distinct parts. In total, 114 genes were identified including 80 protein-coding genes, 30 tRNA genes, and four rRNA genes. The phylogenetic analysis revealed that H. capitata has a close relationship with other Hosta species, H. minor and H. ventricosa, but is farther than the distance between them.

| S-EPMC7799732 | biostudies-literature

The complete chloroplast genome of Polygonatum odoratum (Liliaceae), an endemic medicinal herb.

Project description:In this study, we sequenced the complete chloroplast genome of Polygonatum odoratum with Illumina sequencing technology. The complete chloroplast genome length is 156,082 bp shows a typical tetrad structure, which manifests as one large and one small single copy (LSC and SSC) regions of 85,009 and 18,513 bp, isolated by two inverted repeat regions (IRs) of 26,280 bp. This study annotated altogether 131 unique genes, consisting of 86 protein-encoding genes, 8 rRNA, and 38 tRNA. According to the maximum likelihood phylogenetic tree based on eight complete chloroplast genomes, P. odoratum shows a close association with additional Maianthemum genus. The chloroplast genome-wide for P. odoratum would help to conserve the precious natural populations.

| S-EPMC7671610 | biostudies-literature

The complete chloroplast genome of Polygonatum odoratum (Liliaceae), an endemic medicinal herb.

Project description:In this study, we sequenced the complete chloroplast genome of Polygonatum odoratum with Illumina sequencing technology. The complete chloroplast genome length is 156,082bp, shows a typical tetrad structure, which manifests as one large and one small single copy (LSC and SSC) regions of 85,009 and 18,513bp, isolated by two inverted repeat regions (IRs) of 26,280bp. This study annotated altogether 131 unique genes, consisting of 86 protein-encoding genes, 8 rRNA and 38tRNA. According to the maximum likelihood phylogenetic tree based on 8 complete chloroplast genomes, P. odoratum shows close association with additional Maianthemum genus. The chloroplast genome-wide for P. odoratum would help to conserving the precious natural populations.

| S-EPMC7655049 | biostudies-literature

The complete chloroplast genome of Polygonatum cirrhifolium (Wall.) Royle, a medicine herb.

Project description:Polygonatum cirrhifolium (Wall.) Royle is a medicinal plant of commercial value. In the present study, we assembled the complete chloroplast genome of P. cirrhifolium. The total genome was a circular DNA molecule of 155,583 bp, which was made up of a large single copy region (84,412 bp), a small single copy region (18,427 bp), and a pair of inverted repeat regions (26,372 bp each). A total of 133 genes was annotated in the chloroplast genome, including 85 protein-coding genes, 40 transfer RNA (tRNA) genes, and eight ribosomal RNA (rRNA) genes. Overall, the chloroplast genome had a GC content of 37.66%. Phylogenetic analysis showed that P. cirrhifolium was closely related to P. kingianum.

| S-EPMC7832500 | biostudies-literature

The complete chloroplast genome sequence of a medicinal herb Liriope Platyphylla (Asparagaceae).

Project description:Liriope platyphylla is herbaceous perennial plant belonging to the Asparagaceae family and widely used both as ornamental plant and herbal medicine. The complete chloroplast genome of L. platyphylla was 156,754 bp in length, which was composed of four distinct parts; a large single copy (LSC) of 85,118 bp, a small single copy (SSC) of 18,680 bp, and a pair of inverted repeat regions (IRa and IRb) of 26,478 bp. A total of 130 genes including 83 protein-coding genes, 39 tRNA genes and 8 rRNA genes were identified. The phylogenetic tree showed that L. platyphylla has a close relationship with other Nolinoideae plants, especially with Maianthemum dilatatum and Nolina atopocarpa.

| S-EPMC7720963 | biostudies-literature

The complete chloroplast genome sequence of Heteropolygonatum ginfushanicum (Asparagaceae) and phylogenetic analysis.

Project description:Heteropolygonatum ginfushanicum is an endemic epiphytic herb in China. The complete chloroplast (cp) genome of H. ginfushanicum is reported in this study. The total length of the cp genome is 155,508 bp with a typical quadripartite structure consisting of a large single copy region (LSC) of 84,552 bp and a small single copy region (SSC) of 18,528 bp, separated by a pair of 26,214 bp inverted repeats (IRs). It encodes a total of 113 unique genes, including 79 protein-coding, 30 tRNA, and four rRNA genes. Phylogenetic analysis indicated that H. ginfushanicum is sister to Heteropolygonatum marmoratum within subfamily Nolinoideae.

| S-EPMC8168753 | 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