Browse
Submit Data
Databases
API
Help

Dataset Information

12 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

The complete chloroplast genome of Camellia grijsii, an ornamental shrub with floral aroma.

ABSTRACT: Camellia grijsii is an ornamental shrub with a floral aroma, which is widely cultivated and used for landscaping in China. To obtain the genetic information of C. grijsii, we have sequenced and assembled the complete chloroplast (cp) genome based on the Illumina Hiseq platform. The total genome size is 161,078 bp in length with 37.18% GC, which contains a large single copy (LSC, 84,645 bp) region, a small single copy (SSC, 15,772 bp) region, and a pair of inverted repeat (IRs, 30,330 bp) regions. It is composed of 81 protein-coding genes, 4 ribosomal RNAs, and 43 transfer RNAs. The cp genome of C. grijsii has also been compared with other species of Camellia, and the results showed that the C. grijsii and the C. grandbibracteata are closely related. This study provides the complete cp genome of C. grijsii and has an important reference value for the evolutionary analysis.

SUBMITTER: Xie F

PROVIDER: S-EPMC7954503 | biostudies-literature |

REPOSITORIES: biostudies-literature

ACCESS DATA

Json Xml

Similar Datasets

The complete chloroplast genome of Camellia grijsii 'zhenzhucha', a variant cultivar with floral aroma.

Project description:Camellia grijsii 'zhenzhucha' is a variant cultivar from Camellia grijsii, which is also called Camellia grijsii 'juhuacha'.C. grijsii 'zhenzhucha' is an ornamental shrub with a floral aroma, and is oftenused in landscape. To provide genetic information for genetic research, we have sequenced and assembled the complete chloroplast (cp) genome of C. grijsii 'zhenzhucha' based on the Illumina Hiseq platform. The assembled complete cp genome of C. grijsii 'zhenzhucha' was 161,478 bp in length with 37.24% GC, including a large single-copy (LSC) region of 59,942 bp, a small single-copy (SSC) region of 17,294 bp, and a pair of inverted repeats (IRs) of 20,293 bp. The cp genome was annotated with 130 functional genes, consisting of 81 protein-coding genes, 45 transporter RNAs, and 4 ribosomal RNAs. To obtain the phylogeny relationship, the cp genome of C. grijsii 'zhenzhucha'has been compared with other Camellia species, and the results indicate that C. grijsii 'zhenzhucha' is closely related to C. grijsii. This study provides fundamental information of C. grijsii 'zhenzhucha' cp genome, and has an important reference value for the evolutionary analysis.

| S-EPMC8330793 | biostudies-literature

Characterization of the complete chloroplast genome of Camellia yuhsienensis Hu, a resilient shrub with strong floral fragrance.

Project description:Camellia yuhsienensis Hu is an economically valuable species in the genus Camellia. It is widely used for breeding ornaments and oil varieties. In this study, the complete chloroplast (cp) genome sequence of C. yuhsienensis is assembled and annotated. The whole cp genome of C. yuhsienensis is 156,912 bp in size, composed of a small single copy (SSC) region of 18,296 bp and a large single copy (LSC) region of 86,560 bp, separated by a pair of inverted repeats (IRs, IRA: 86,561-112,588; IRB: 130,885-156,912). The overall GC content of C. yuhsienensis cp genome is 37.3%, with the base content A (31.08%), T (31.63%), C (19.02%), and G (18.27%). The phylogenetic analysis of 15 Camellia species based on 77 protein-coding genes shows that C. yuhsienensis is evolutionarily close to Camellia taliensis.

| S-EPMC7783147 | biostudies-literature

The complete chloroplast genome of a widespread ornamental shrub in China, Magnolia figo (Magnoliaceae).

Project description:Plants in Michelia, presented by Magnolia figo DC, are wonderful resources in Magnoliaceae, covering a series of aromatic plants. Despite extensive studies in this family, the M. figo complete chloroplast genome and the taxonomical status based on the whole chloroplast sequences remain unclear. Herein, we report the complete chloroplast genome of M. figo. The chloroplast genome was 160,113?bp in length, with a large single-copy (LSC) region of 88,113?bp and a small single-copy (SSC) region of 18,797?bp, separated by two inverted repeat (protein-coding) regions of 26,602?bp. A total of 135 CDSs were found, including 129 genes, 85 protein-coding mRNAs, 36 tRNA genes, and eight rRNA genes. The overall GC content was 39.3%, and GC percentages range from 34.3% to 43.2% throughout LSC, IRs, and SSC regions. Phylogenetic analysis showed that M. figo is most closely to Michelia odora and displayed a relationship that three Michelia were nested inside Magnolia. This announcement of the complete M. figo cp genome sequence could provide valuable information for further breeding, cp genetic modification, and phylogenetic study in Magnoliaceae.

| S-EPMC7706849 | biostudies-literature

The complete chloroplast genome of Camellia vietnamensis, an economic shrub producing edible seed oil.

Project description:Camellia vietnamensis is an economic woody plant producing high-value edible oils, which is commonly found and cultivated in south areas of China. To provide genetic information for future genetic research, we have sequenced and assembled the complete chloroplast (cp) genome of C. vietnamensis based on the Illumina Hiseq platform. The total genome size is 161,958 bp in length with 37% GC, which contains a large single copy (LSC, 86,657 bp) region, a small single copy (SSC, 13,347 bp) region, and a pair of inverted repeat (IRs, 30,977 bp) regions. It is comprised of 81 protein-coding genes, 44 transfer RNAs and 4 ribosomal RNAs. To obtain the phylogeny relationship, the cp genome of C. vietnamensis has been compared with other Camellia species; the results indicate that C. vietnamensis is closely related to C. taliensis. This study provides fundamental information of C. vietnamensis cp genome, and it is valuable to the molecular phylogenetic and genetic diversity analyses in future.

| S-EPMC7707582 | biostudies-literature

Characterization of the complete chloroplast genome of Camellia brevistyla, an oil-rich and evergreen shrub.

Project description:Camellia brevistyla is an economic species for its seeds with high oil content and ornamental value, which is cultivated widespreadly across southern China. In this study, the complete chloroplast (cp) genome sequence of C. brevistyla was assembled and annotated in order to future genetic research. The whole cp genome of C. brevistyla is 159,281 bp in size, composed of a small single copy (SSC) region of 15,662 bp and a large single copy (LSC) region of 86,251 bp separated by a pair of inverted repeats (IRs, IRA: 130598: 159281, IRB: 86252: 114935). The overall GC content of C. brevistyla cp genome is 37.19%, with the base content A (31.03%), T (31.78%), C (18.94%), and G (18.25%). Phylogenetic analysis of 20 species based on 74 protein-coding genes shows that C. brevistyla is evolutionarily closest to Camellia danzaiensis.

| S-EPMC7748852 | biostudies-literature

Complete chloroplast genome of Camellia chekiangoleosa (Theaceae), a shrub with gorgeous flowers and rich seed oil.

Project description:Camellia chekiangoleosa Hu is an oil-tea Camellia species with high economic and nutritional value in the south of China. In this study, the chloroplast genome of C. chekiangoleosa was determined by Illumina Miseq platform. The whole chloroplast genome is 156,971 bp in length, containing a large single-copy region (LSC, 86,673 bp), a small single-copy region (SSC, 18,394 bp), and a pair of inverted repeat regions (IRa and IRb, 25,952 bp). There is a total of 113 genes in the complete chloroplast genome of which 19 genes are repeated in the IR regions. In addition, the phylogenetic tree revealed a close relationship between C. chekiangoleosa and C. japonica. The complete chloroplast genome will contribute to further studies on phylogeny and conservation of C. chekiangoleosa and related taxa in Camellia of Theaceae.

| S-EPMC7971316 | biostudies-literature

Complete chloroplast genome of a cultivated oil camellia species, Camellia gigantocarpa.

Project description:Camellia gigantocarpa Hu et T. C. Huang, belonging to the Theaceae family, is an excellent landscape tree species with high ornamental value. It is also an important woody oil-bearing plant with high economic value. This study reports the first complete chloroplast genome sequence of C. gigantocarpa (GenBank accession number: MZ054232). Its whole chloroplast genome is 156,953 bp long with an overall GC content of 37.31%, which is composed of a large single copy region (86,631 bp), a small single copy region (18,402 bp), and a pair of inverted repeat regions (25,960 bp each). A total of 135 genes were predicted in this genome, namely eight ribosomal RNA genes, 37 transfer RNA genes, and 90 protein-coding genes. Based on maximum likelihood analysis results, we found that the Camellia species are clustered into a distinct branch, and the phylogenetic relationships among C. gigantocarpa, C. crapnelliana, and C. kissii were the closest.

| S-EPMC8667929 | biostudies-literature

Complete chloroplast genome of ornamental orchids Eulophia flava.

Project description:Eulophia flava (Lindl.) Hook.f. (Orchidaceae) is a high value ornamental plant especially for cutting flowers in China. In this paper, we reported and characterized the complete chloroplast genome sequence of E. flava by assembling from short reads generated by Illumina sequencing. Total chloroplast genome size was 148,903?bp, including inverted repeats (IRs) of 26,651?bp, separated by a large single copy (LSC) and a small single copy (SSC) of 84,465 and 13,132?bp, respectively. A total of 119 genes, including 36 tRNA, 8 rRNA, and 75 protein-coding genes, were identified. The GC content of E. flava is 36.8%. Phylogenetic analysis using the maximum-likelihood algorithm showed that E. flava is sister to a clade with one species in the genus Eulophia.

| S-EPMC7706861 | biostudies-literature

The complete chloroplast genome sequence of the Japanese Camellia (Camellia japonica L.).

Project description:The complete chloroplast genome sequence of valuable ornamental tree, Camellia japonica L. (Theaceae), was determined. The genome size was 156,971?bp in length, containing a pair of 25,798?bp inverted repeat (IR) regions, which were separated by small and large single copy regions (SSC and LSC) of 18,394 and 86,673?bp, respectively. The cp genome contained 134 genes, including 91 coding genes, six rRNA genes, and 37 tRNA genes. The overall GC content of the chloroplast genome was 37.3%. Phylogenetic analysis revealed the position of C. japonica being sister to the clade containing C. crapnelliana and C. oleifera (subgenus Camellia).

| S-EPMC7800054 | biostudies-literature

The complete chloroplast genome sequence of Camellia granthamiana.

Project description:Camellia granthamiana is a rare and endangered plant peculiar to China, and a total of 5 plants have been found at present. Based on the next generation sequencing, the whole chloroplast (Cp) genome of (Camellia granthamiana Sealy) of Camellia oleifera was constructed.In this study, the complete chloroplast (cp) genome of Camellia granthamiana was assembled based on next generation sequencing.The cp genome was 157,001?bp in length, including a large single copy (LSC) region of 70,387?bp, a small single copy (SSC) region of 18,296?bp and a pair of inverted repeats (IRs) of 52,082?bp. The genome contained 135 genes, including 90 protein-coding genes, 37 tRNA genes and 8 ribosomal RNA genes. The majority of these gene species occurred as a single copy.

| S-EPMC7707794 | 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