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 of Vaccinium oxycoccos (Ericaceae).

ABSTRACT: Vaccinium species have great significance as fruit crops due to their economic and food values. Here we report the chloroplast genome of V. oxycoccos. The chloroplast genome of V. oxycoccos was 177,088 bp in length with a GC content of 36.74%. LSC, SSC, and IR regions were 104,139 bp, 3031 bp, and 34,959 bp in length, respectively. The chloroplast genome contained 105 different genes, including 73 protein-coding genes, 4 rRNA genes, and 28 tRNA genes. The phylogenetic analysis indicated that V. oxycoccos was closely related to V. microcarpum in the family Ericaceae. This chloroplast genome not only enriches the genome information of Vaccinium, but also will be useful in the evolution study of the family Ericaceae.

SUBMITTER: Qiao X

PROVIDER: S-EPMC10478597 | biostudies-literature | 2023

REPOSITORIES: biostudies-literature

ACCESS DATA

Json Xml

Publications

The complete chloroplast genome of Vaccinium oxycoccos (Ericaceae).

Qiao Xinrong X Gu Qingyi Q Ye Run R Cai Jing J Zhu Nailiang N

Mitochondrial DNA. Part B, Resources 20230904 9

Vaccinium species have great significance as fruit crops due to their economic and food values. Here we report the chloroplast genome of V. oxycoccos. The chloroplast genome of V. oxycoccos was 177,088 bp in length with a GC content of 36.74%. LSC, SSC, and IR regions were 104,139 bp, 3031 bp, and 34,959 bp in length, respectively. The chloroplast genome contained 105 different genes, including 73 protein-coding genes, 4 rRNA genes, and 28 tRNA genes. The phylogenetic analys ...[more]

PMID: 37674913

Similar Datasets

The complete chloroplast genome of rhododendron williamsianum (ericaceae).

Project description:Rhododendron williamsianum Rehder & E. H. Wilson 1913, is a plant with important horticultural value. Here we report its chloroplast genome. The total length of the chloroplast genome was 205,424 bp, with a GC content of 35.8%. It consisted of a 107,968 bp large single copy, a 2606 bp small single copy, and a pair of 47,425 bp inverted repeats separating them. Within the chloroplast genome, there were a total of 110 unique genes, which included 76 protein-coding genes, 4 rRNA genes, and 30 tRNA genes. Our phylogenetic analyses indicated that R. williamsianum was closely genetically related to R. sutchuenense and R. jingangshanicum. The findings from this study not only contribute to the genetic database of Rhododendron plants but also have implications for evolutionary research within the family Ericaceae.

| S-EPMC11328795 | biostudies-literature

The complete chloroplast genome of Rhododendron kawakamii (Ericaceae).

Project description:Rhododendron kawakamii is endemic in Taiwan island and is a unique and epiphytic species. Here, we report its complete chloroplast genome. The length of the R. kawakamii chloroplast genome is 230,777 bp, with a large single-copy region of 146,155 bp, a small single-copy region of 72,082 bp, and a pair of inverted repeat regions (IRA) of 6,270 bp each. The genome contains 77 protein-coding genes, 29 transfer RNA genes, and four ribosomal RNA genes. In addition, the genome contains 81 simple sequence repeats. Phylogenetic analysis revealed that R. kawakamii is genetically related to R. datiandingense.

| S-EPMC8330798 | biostudies-literature

The complete chloroplast genome of Rhododendron datiandingense (Ericaceae).

Project description:Rhododendron datiandingense is newly reported and endemic to China. The genome of R. datiandingense is 207,311 bp in length, including a large single-copy region of 190,689 bp and a small single-copy region of 2582 bp, a pair of inverted repeat regions (IRA) of 7020 bp each. The genome encodes 110 genes, comprising 77 protein-coding genes, four ribosomal RNA genes, and 29 transfer RNA genes. Repeat analysis revealed 62 simple sequence repeats (SSRs) in the genome. Phylogenetic analysis revealed that R. datiandingense is clearly separated from the other Rhododendron species and shown in the basal position.

| S-EPMC8158181 | biostudies-literature

The complete chloroplast genome of Rhododendron huadingense (Ericaceae).

Project description:Rhododendron huadingense is an important horticultural plant that belongs to the Ericaceae family. In this study, the chloroplast genome sequence of R. huadingense is reported. The chloroplast genome of R. huadingense was 198,952 bp in length and had an angiosperm-typical quadripartite structure with a large single-copy (LSC) region of 108,557 bp, a small single-copy (SSC) region of 53 bp, and two inverted repeat regions (IRs) of 45,171 bp. One hundred and thirteen unique genes including 79 protein-coding genes, 30 transfer RNA (tRNA) genes, and four ribosomal RNA (rRNA) genes were identified in the chloroplast genome. Further phylogenetic analysis revealed a close relationship between R. huadingense and R. molle. The complete chloroplast genome of R. huadingense provides valuable genetic information for the phylogeny, varieties breeding and sustainable utilization of this species.

| S-EPMC9629095 | biostudies-literature

The complete chloroplast genome of Rhododendron delavayi (Ericaceae).

Project description:Rhododendron delavayi, as a member of Ericaceae family, has been widely used as an important garden flower. The cp genome of R. delavayi exhibited a typical quadripartite cycle with 193,798 bp, comprising of a pair of inverted repeats (IRa and IRb) of 15,494 bp intersected by a large single copy (LSC) region of 160,234 bp and a quite small single copy region of 2576 bp. Totally, 123 unique genes were assembled in this cp genome, including 80 protein genes, 35 tRNAs and 8 rRNAs. Out of these assembled genes, 88 genes (71.54%) were single copy. Phylogenetic analysis based on 14 cp genome of related species showed that the R. delavayi was closely related to Vaccinium oldhamii. This study provides important information for future evolution, genetic and molecular biology studies of Rhododendron.

| S-EPMC7721020 | biostudies-literature

The complete chloroplast genome sequence of Monotropa uniflora (Ericaceae).

Project description:Monotropa uniflora is one of the representative plants of Ericaceae family, which was famous for entire translucent and 'ghostly' white. Also, unique lifestyle also attracts lots of researchers, which it obtains through fixed carbon from photosynthetic plants via a shared mycorrhizal network. In this study, the complete chloroplast (cp) genome of M. uniflora was assembled and annotated, its full-length is 26,913 bp. Plastid genome contains 31 genes, 14 protein-coding genes, 14 tRNA genes, and 3 rRNA genes. The phylogenetic analyses based on the complete chloroplast genome sequence provided solid evidence that M. uniflora has a close relationship M. odorata. The chloroplast genome presented here will help for further conservation of M. uniflora and other saprophytes.

| S-EPMC7782332 | biostudies-literature

The complete chloroplast genome of highbush blueberry (Vaccinium corymbosum).

Project description:Highbush blueberry is a small berry fruit tree belonging to the family Ericaceae and genus Vaccinium, which fruit has high nutritional value. High-throughput sequencing technology was applied in this study to sequence and assemble the whole chloroplast genome of the southern highbush blueberry variety sharpblue. The results of the study showed that the circular genome of sharpblue is 170,737 bp in length, and the GC content of the genome was 36.8%. The complete chloroplast genome of sharpblue has consisted of two inverted repeat regions (IRs), a large single-copy region (LSC, 31, 076 bp), and a small single-copy region (SSC, 3, 044 bp). The chloroplast genome contained a total of 144 functional genes, including 100 mRNA genes, eight rRNA genes, and 36 tRNA genes. In addition, V. corymbosum and V. oldhamii were clustered into one group in this phylogenetic analysis which indicated that they have a close evolutionary relationship. The findings of this investigation are a significant reference source for the phylogeny and evolutionary origin of the Ericaceae family.

| S-EPMC8725824 | biostudies-literature

The complete chloroplast genome sequence of Rhododendron farrerae Tate ex Sweet (Ericaceae).

Project description:Rhododendron farrerae Tate ex Sweet 1831 is a species of ornamental plant found in southern China. In the present study, the complete chloroplast genome of R. farrerae was sequenced. The genome was 149,453 bp in length and lacked the typical quadripartite structure. The plastid genome contained 112 genes, including 74 protein-coding genes, 34 tRNA genes, and 4 rRNA genes. The overall GC content of the genome was 35.65%. Phylogenetic analysis of 25 chloroplast genomes revealed that R. farrerae was closely related to Rhododendron huadingense. This study could provide fundamental information for the distribution, utilization, and phylogenomics of Rhododendron.

| S-EPMC10769518 | biostudies-literature

Characterization of the Complete Chloroplast Genome of Gaultheria nummularioides D.Don 1825 (Ericaceae).

Project description:Gaultheria nummularioides D.Don 1825 (Ericaceae) is a traditional Chinese medicinal plant used to treat rheumatoid arthritis. The complete chloroplast genome of G. nummularioides has been sequenced and assembled. The genome is 176,207 bp in total with one large single copy (LSC: 107,726 bp), one small single copy (SSC: 3,389 bp), and two inverted repeat regions (IRa and IRb; each 32,546 bp). The chloroplast genome encoded a total of 110 unique genes; the GC content of these genes is 36.6%. The results based on phylogenetic analysis of the complete chloroplast genome suggests that G. nummularioides diverged later than G. praticola, the sister relationship between G. nummularioides and the clade comprising G. fragrantissima Wall. 1820 and G. hookeri C.B. Clarke 1882 was strongly supported. This study provides additional information on the genetic diversity of G. nummularioides, its closely related taxa, and further exploration of chloroplast genomes in the Ericaceae family.

| S-EPMC10521052 | biostudies-literature

The complete chloroplast genome of Rhododendron molle and its phylogenetic position within Ericaceae.

Project description:Rhododendron mole (Blume) G. Don is an attractive ornamental and valuable medicinal plant which widely distributed in the southern regions of China. In order to promote the studies on the genetic diversity of this species, we assembled the complete chloroplast (cp) genome of R. molle by using the genome skimming approach. The results showed that the cp genome of R. molle exhibited a quadripartite cycle with 197,877 bp, comprising of two inverted repeats (IRs) of 43,831 bp separated by a large single copy (LSC) region of 110,189 bp and a quite small single copy (SSC) region of 26 bp. It encodes 146 genes, including 92 protein-coding, 46 tRNA, and eight rRNA genes. The overall GC content of the cp genome was 36.0%. The phylogenetic analysis indicated that R. molle is closely related to R. delavayi. Thus, the cp genome sequence of R. molle provides a rich source of genetic information for studies on Rhododendron taxonomy, phylogeny, and evolution, as well as lays the foundation for further development and utilization of R. molle.

| S-EPMC8354172 | biostudies-literature