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 sequence of Cosmos bipinnatus, the first of the genus Cosmos.

ABSTRACT: Cosmos bipinnatus has been used widely in traditional medicines. Here, we sequenced and assembled the complete chloroplast genome of C. bipinnatus. This genome is 150,356?bp in size with a pair of inverted repeats (IRs) of 25,082?bp, a large single-copy (LSC) region of 83,003?bp, and a small single-copy region (SSC) of 18,397?bp. It contains 112 unique genes, including 80 protein-coding, 4 rRNA, and 28 tRNA genes. The phylogenomic analysis showed the C. bipinnatus and species belonging to the Madieae, Millerieae, Heliantheae, and Eupatorieae tribes were clustered together. The availability of chloroplast genome provided valuable information for future conservation, taxonomy, evolution, and differentiation studies of C. bipinnatus.

SUBMITTER: Jiang M

PROVIDER: S-EPMC7707777 | biostudies-literature | 2019 Nov

REPOSITORIES: biostudies-literature

ACCESS DATA

Json Xml

Publications

The complete chloroplast genome sequence of Cosmos bipinnatus, the first of the genus Cosmos.

Jiang Mei M Chen Haimei H Wang Liqiang L You Jinwen J Liu Chang C

Mitochondrial DNA. Part B, Resources 20191122 2

Cosmos bipinnatus has been used widely in traditional medicines. Here, we sequenced and assembled the complete chloroplast genome of C. bipinnatus. This genome is 150,356 bp in size with a pair of inverted repeats (IRs) of 25,082 bp, a large single-copy (LSC) region of 83,003 bp, and a small single-copy region (SSC) of 18,397 bp. It contains 112 unique genes, including 80 protein-coding, 4 rRNA, and 28 tRNA genes. The phylogenomic analysis showed the C. bipinnatus and specie ...[more]

PMID: 33366384

Similar Datasets

The first complete chloroplast genome sequence from Polemonium chinense (Polemoniaceae).

Project description:In this study, the complete chloroplast genome of Polemonium chinense was determined by next-generation sequencing technology. The plastome is 155,578 bp in length, with a large single-copy region (LSC) of 85,864 bp and a small single-copy region (SSC) of 18,246 bp, separated by a pair of inverted repeat regions (IRs) of 25,734 bp. It contains 135 genes, including 89 protein-coding genes, 37 tRNA genes, 8 rRNA genes, and 1 pseudogene. The overall GC content is 37.1%, while the corresponding values in the LSC, SSC and IR region are 35.1, 30.3, and 42.9%, respectively. The phylogenetic tree shows that Polemoniaceae is sister to Fouquieriaceae.

| S-EPMC7707252 | biostudies-literature

The first complete chloroplast genome sequence of Vicia ramuliflora (Fabaceae).

Project description:Vicia ramuliflora belongs to the Fabaceae. It is a perennial herb, with high economic value. The cpDNA of V. ramuliflora was 124,682 bp long with IR loss. It contains 109 genes, including 76 protein-coding genes, 29 tRNA genes, and 4 rRNA genes. The overall GC content is 35.1%. The phylogenetic tree indicates that Vicia species formed a monophyletic lineage with high bootstrap value. This study has provided new genome information for the phylogenetic analysis of Fabaceae.

| S-EPMC7748550 | biostudies-literature

The complete chloroplast genome sequence of Pittosporum kerrii: the first Pittosporaceae plastome.

Project description:The first complete chloroplast genome (cpDNA) sequence of Pittosporum kerrii was determined from Illumina HiSeq pair-end sequencing data in this study. The cpDNA is 153,581 bp in length, contains a large single-copy region (LSC) of 84,940 bp and a small single-copy region (SSC) of 18,741 bp, which were separated by a pair of inverted repeats (IR) regions of 24,950 bp. The genome contains 132 genes, including 87 protein-coding genes, 8 ribosomal RNA genes, and 37 transfer RNA genes. The overall GC content of the whole genome is 38.3%, and the corresponding values of the LSC, SSC, and IR regions are 36.5, 32.5, and 43.3%, respectively. Further, phylogenomic analysis showed that P. kerrii clustered in a unique clade in order Apiales.

| S-EPMC7707811 | biostudies-literature

The first complete chloroplast genome sequence of Lanxangia tsaoko and phylogenetic analysis.

Project description:Lanxangia tsaoko is a famous Chinese traditional medicine with long history. In this study, the complete chloroplast (cp) genome of L. tsaoko was characterized and assembled using a high-throughput sequencing method. The complete cp genome is 164,008 bp in length, including a large single copy (LSC) region of 89,134 bp and a small single copy (SSC) region of 15,372 bp separated by two inverted repeat (IR) regions of 29,751 bp. A total of 137 genes were identified, including 88 protein-coding genes (PCG), 38 transfer RNA genes, 8 ribosomal RNA genes, and 3 pseudogenes. The phylogenetic analysis revealed that L. tsaoko is located in Zingiberaceace, closely related to Amomum and Alpinia with a 100% bootstrap support.

| S-EPMC7687529 | biostudies-literature

The complete chloroplast genome sequence of Elaeocarpus braceanus: the first Celastraceae plastome.

Project description:The first complete chloroplast genome (cpDNA) sequence of Elaeocarpus braceanus was determined from Illumina HiSeq pair-end sequencing data in this study. The cpDNA is 158,225 bp in length, contains a large single-copy region (LSC) of 85,731 bp and a small single-copy region (SSC) of 17,654 bp, which were separated by a pair of inverted repeats (IR) regions of 27,420 bp. The genome contains 133 genes, including 88 protein-coding genes, 8 ribosomal RNA genes, and 37 transfer RNA genes. Further phylogenomic analysis showed that E. braceanus clustered in a clade in Celastrales order.

| S-EPMC7783116 | biostudies-literature

The first complete chloroplast genome sequence of the medicinal plant Bletilla formosana (Orchidaceae).

Project description:Bletilla formosana is a medicinal plant commonly used in southwest of China. In this study, we sequenced the complete chloroplast (cp) genome sequence of B. formosana to investigate its phylogenetic relationship in the family Orchidaceae. The chloroplast genome of B. formosana was 159,112 bp in length with 37.3% overall GC content, including a large single-copy (LSC) region of 86,838 bp, a small single-copy (SSC) region of 18,672 bp and a pair of inverted repeats (IRs) of 26,801 bp. The cp genome contained 116 genes, including 83 protein-coding genes, 29 tRNA genes, and 4 rRNA genes. The phylogenetic analysis indicated the genus Bletilla was closely related to Platanthera.

| S-EPMC7748787 | biostudies-literature

The first complete chloroplast genome sequence of Pentaphragma spicatum Merr. (Pentaphragmataceae) and phylogenetic analysis.

Project description:Pentaphragma spicatum Merr. is an endemic wild edible plant of China belonging to the Pentaphragmataceae family. It is widely consumed by Shangsi County resident in Guangxi Fangchenggang. Initially, Pentaphragma was classified as a genus within the Campanulaceae family, but, later it was treated as part of the Pentaphragmataceae family. However, the chloroplast genome of Pentaphragmataceae has not yet been reported. In this study, we sequenced the first complete chloroplast (cp) genome of P. spicatum from Guangxi, China. The whole genome was 154,229 bp in length, consisting of a pair of inverted repeats (IR each 25,572 bp), a large single-copy region (LSC 84,884 bp), and a small single-copy region (SSC 18,201 bp). The complete genome contained 129 genes, including 87 protein-coding genes, 34 tRNA, and 8 rRNA genes. The overall GC content of the whole genome was 37.71%. Based on a maximum-likelihood phylogenetic analysis, it has been determined that P. spicatum is not phylogenetically related to Campanulaceae and supports the decision to classify it as a separate family, Pentaphragmataceae. The complete chloroplast genome of P. spicatum will help enhance and integrate the existing genome data of Asterales. This will provide insights into the phylogenetic relationship within Campanulaceae.

| S-EPMC10776070 | biostudies-literature

Complete chloroplast genome sequence of Amomum villosum.

Project description:The first complete chloroplast genome of Amomum villosum (Zingiberaceae) was reported in this study. The A. villosum genome was 163,608 bp in length, and comprised a pair of inverted repeat (IR) regions of 29,820 bp each, a large single-copy (LSC) region of 88,680 bp, and a small single-copy (SSC) region of 15,288 bp. It encoded 141 genes, including 87 protein-coding genes (79 PCG species), 46 tRNA genes (28 tRNA species), and 8 rRNA genes (4 rRNA species). The overall AT content was 63.92%. Phylogenetic analysis showed that A. villosum was closely related to two species Amomum kravanh and Amomum compactum within the genus Amomum in family Zingiberaceae.

| S-EPMC7706907 | biostudies-literature

Complete chloroplast genome sequence of Hedychium coronarium.

Project description:The first complete chloroplast genome of Hedychium coronarium (Zingiberaceae) was reported in this study. The H. coronarium chloroplast genome was 163,949 bp in length and comprised a pair of inverted repeat (IR) regions of 29,780 bp each, a large single-copy (LSC) region of 88,581 bp and a small single-copy (SSC) region of 15,808 bp. It encoded 141 genes, including 87 protein-coding genes (79 PCG species), 46 tRNA genes (28 tRNA species), and eight rRNA genes (four rRNA species). The nucleotide composition was asymmetric (31.68% A, 18.35% C, 17.74% G, 32.23% T) with an overall AT content of 63.92%. Phylogenetic analysis showed that H. coronarium was classified into a monophyletic group within the genus Hedychium in family Zingiberaceae.

| S-EPMC7706620 | biostudies-literature

The complete chloroplast genome sequence of Calanthe sieboldii (orchidaceae)

Project description: Not available

| S-EPMC10913714 | biostudies-literature