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 Camellia vietnamensis, an economic shrub producing edible seed oil.

ABSTRACT: 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.

SUBMITTER: Lyu T

PROVIDER: S-EPMC7707582 | biostudies-literature |

REPOSITORIES: biostudies-literature

ACCESS DATA

Json Xml

Similar Datasets

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

Characterization and phylogenetic significance of the complete chloroplast genome of Camellia Kissii, an economic crop for producing oil.

Project description:Camellia kissii is cultivated for a long time as an oil crop for edible and industrial oils, and has the functions of high oil production rate and unique health care. The complete chloroplast (cp) genome sequence of C. kissii is 156,961 bp in length with GC content of 39.29%. It presents a quadrate structure, including a large single-copy (LSC) region (86,640 bp), a small single-copy (SSC) region (18,399 bp), and a pair of inverted repeats (IRs) (25,961 bp). Meanwhile, 15 complete chloroplast genome of Camellia was aligned to explore the phylogenetic significance of Camellia. And the genetic relationship between Camellia kissii and Camellia huana was found to be closest.

| S-EPMC7748572 | 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 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

The complete chloroplast genome of Camellia semiserrata Chi. (Theaceae), an excellent woody edible oil and landscaping species in South China.

Project description:Camellia semiserrata is a woody plant that produces excellent edible oil and is a common landscaping species in South China. The complete chloroplast genome of C. semiserrata was sequenced, assembled, annotated, and characterized using the Illumina MiSeq platform in this study. The chloroplast genome is 156,968 bp (37.32% GC) and contains a large single copy (LSC) region (86,634 bp), a small single copy (SSC) region (18,272 bp), and a pair of inverted repeat (IR) regions (26,031 bp). It encodes a total of 117 genes, including 81 protein-coding genes, four ribosomal RNA genes, and 32 transfer RNA genes. The phylogenetic tree fully resolved C. semiserrata in a clade with C. reticulata, C. mairei, and C. pitardii. This study contributes to bioinformatics and further phylogeny and conservation studies as well as provides a theoretical basis for the molecular identification of C. semiserrata.

| S-EPMC8462872 | biostudies-literature

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

Project description: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.

| S-EPMC7954503 | biostudies-literature

The complete chloroplast genome of Camellia fluviatilis (Theaceae), a wild oil-Camellia species.

Project description:Camellia fluviatilis is an important shrub producing edible seed oil, which is widely cultivated in South China. In this study, the complete chloroplast genome was sequenced and analyzed based on the Illumina HiSeq platform. The results showed that the complete chloroplast genome is 157,041 bp with 37.29% GC content, including a large single copy (LSC) region of 86,718 bp, a small single copy (SSC) region of 18,293 bp, and a pair of inverted repeats (IRs) regions of 26,015 bp. There are 128 genes in the chloroplast genome of C. fluviatilis, including 83 protein-coding genes, 8 ribosomal RNAs, and 37 transfer RNAs. Phylogenetic analysis revealed that C. fluviatilis is closely related to C. lanceoleosa, indicating that both belong to the Sect. Paracamellia Sealy.

| S-EPMC8635574 | 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 Camellia confuse Craib 1914, an economically valuable oil crop.

Project description:Camellia confuse Craib 1914 is an industrially valuable oil crop from southern China for which little genetic information is available. Here, we found that its complete chloroplast genome is a circular sequence (156,905 bp) with a large single-copy region (LSC) of 67,724 bp, a small single copy region (SSC) of 18,400 bp, and two inverted repeats (IRs). In total, 130 genes were identified, including 86 protein-coding genes, 36 transfer RNAs, and 8 rRNA genes. Phylogenetic analysis showed that C. confusa is close to C. meiocarpa. These results provide valuable information for accelerating research on the evolution of camellias.

| S-EPMC9246039 | 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

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