Browse
Submit Data
Databases
API
Help

Dataset Information

23 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

The complete chloroplast genome of Pholidota imbricata (Orchidaceae).

ABSTRACT: Pholidota imbricata belongs to tribe Coelogninae in Orchidaceae distributed in Sichuan, Xizang, and Yunnan. Here, we report the first complete chloroplast (cp) genome and the cp genome features of P. imbricata. The complete cp genome sequence of P. imbricata is 159,292?bp in length and presented a typical quadripartite structure including one large single-copy region (LSC, 87,515?bp), one small single-copy region (SSC, 20,999?bp), and two inverted repeat regions (IRs, 25,389?bp each). The cp genome encoded 141 genes, of which 108 were unique genes (80 protein-coding genes, 24 tRNAs, and 4 rRNAs). The phylogenetic relationships show that P. imbricata is sister to the species of the genus Pleione in tribe Coelogninae.

SUBMITTER: Rao WH

PROVIDER: S-EPMC7707197 | biostudies-literature | 2019 Oct

REPOSITORIES: biostudies-literature

ACCESS DATA

Json Xml

Publications

The complete chloroplast genome of Pholidota imbricata (Orchidaceae).

Rao Wen-Hui WH Huang Jie J Li Li-Qiang LQ Li Ting-Zhang TZ Kong De-Min DM Chen Jian-Bing JB

Mitochondrial DNA. Part B, Resources 20191011 2

Pholidota imbricata belongs to tribe Coelogninae in Orchidaceae distributed in Sichuan, Xizang, and Yunnan. Here, we report the first complete chloroplast (cp) genome and the cp genome features of P. imbricata. The complete cp genome sequence of P. imbricata is 159,292 bp in length and presented a typical quadripartite structure including one large single-copy region (LSC, 87,515 bp), one small single-copy region (SSC, 20,999 bp), and two inverted repeat regions (IRs, 25,389 ...[more]

PMID: 33366068

Similar Datasets

The complete chloroplast genome of Pholidota yunnanensis Rolfe (Orchidaceae: Coelogyninae).

Project description:In this study, the complete chloroplast genome of Pholidota yunnanensis is presented, which represents first complete plastid genome of the genus Pholidota in the subtribe Coelogyninae. The chloroplast genome size is 159,729 bp, including a GC content of 37.3% and 135 genes (89 protein-coding genes, 38 tRNA genes, 8 rRNA genes). The genome structure is typical quadripartite, consisting of a pair of inverted repeat regions (26,638 bp) separated by a large single-copy region (LSC, 87,610 bp) and a small single-copy region (SSC, 18,843 bp). Phylogenetic analysis among 15 species based on cp genomes recovered a well-supported phylogenetic tree and indicated a close relationship between Pholidota yunnanensis and Pleione bulbocodioides.

| S-EPMC7783148 | biostudies-literature

The complete chloroplast genome sequence of Pholidota articulata (Orchidaceae), a rarely medicinal orchid.

Project description:Pholidota Lindl. ex Hook. was placed in tribe Arethuseae Lindl. (Epidendroideae, Orchidaceae), while its generic relationship has been unclear. Since the plastid genome could play a key role in plant systematics, the complete chloroplast (cp) genome of P. articulata was reported in this paper. The cp genome was 160,114 bp in length with four typical quadripartite structures, which was consisted of a large single copy (LSC) region of 87,756 bp, a small single copy (SSC) region of 18,872 bp, and two inverted repeats (IR) of 26,734 bp. In addition, the cp genome encoded 132 genes in total, of which were 113 unique genes, including 79 protein-coding genes, 30 tRNAs, and 4 rRNAs. The phylogenetic analysis indicated that P. articulata was closely clustered with other two species of Pholidota and that they appeared to be related to Pleione in Arethuseae Lindl.

| S-EPMC7759241 | biostudies-literature

Complete chloroplast genome of Dendrobium thyrsiflorum (Orchidaceae).

Project description:Dendrobium thyrsiflorum H. G. Reichenbach ex André is an endemic herb with ornamental and medicinal orchid value distributed in Southeast of Yunnan of China. Here, we report and characterize the complete chloroplast (cp) genome sequence of D. thyrsiflorum in order to provide genomic resources helpful for its identification, conservation and utilization. The complete cp genome of D. thyrsiflorum is 160,123?bp, including one large single-copy region (LSC, 88,001), one small single-copy region (SSC, 21,142), and two inverted repeat regions (IRs, 25,490). The cp genome contains 143 genes, consisting of 110 unique genes (80 protein-coding genes, 26 tRNAs, and 4 rRNAS). The phlyogenetic relationships show that D. thyrsiflorum is closely related to other species of Dendrobium.

| S-EPMC7707218 | biostudies-literature

Complete chloroplast genome of Cymbidium ensifolium?Orchidaceae?.

Project description:Cymbidium ensifolium is one of the most economical and ornamental significant orchids. It's facing serious genetic resources loss and habitat fragmentation. A conservation strategy is therefore imperative for this endangered orchid. Here, we report on the first complete chloroplast (cp) genome of C. ensifolium. Its full-length of 150,257?bp include large single-copy (LSC) region of 85,110?bp, small single-copy (SSC) region of 13,761?bp, and a pair of invert repeats (IR) regions of 25,692?bp. Plastid genome contain 137 genes, 78 protein-coding genes, 38 tRNA genes, and 8 rRNA genes. Cymbidium ensifolium was sister to C. sinense, Cy. Tortisepalum, and C. kanran. The cp genome will help for further research and conservation of C. ensifolium.

| S-EPMC7687436 | biostudies-literature

Complete chloroplast genome of Paphiopedilum emersonii (Orchidaceae).

Project description:Paphiopedilum emersonii is an endemic terrestrial orchid in China. In this study, the chloroplast genome of P. emersonii was determined from BGISEQ-500 sequencing data. The total chloroplast genome was 162,590 bp in length, consisting of a large single-copy region (LSC, 87,852 bp), a small single-copy region (SSC, 870 bp), and two inverted repeat regions (IRA and IRB, 36,934 bp, each). The complete chloroplast genome contains 131 genes, including 81 protein-coding genes, 38 tRNA genes, and 8 rRNA genes. In addition, the phylogenetic analysis indicates that P. emersonii was sister to Paphiopedilum micranthum. The chloroplast genome will contribute to the research and conservation of P. emersonii.

| S-EPMC7783058 | biostudies-literature

The complete chloroplast genome of Dendrobium harveyanum (Orchidaceae).

Project description:Dendrobium harveyanum is an endangered species of Orchidaceae. Here we report the complete chloroplast (cp) genome sequence and the cp genome features of D. harveyanum. The complete cp genome sequence of D. harveyanum is 157,292?bp in length and presented a typical quadripartite structure including one large single-copy region (LSC, 86,583?bp), one small single-copy region (SSC, 19,449?bp), and two inverted repeat regions (IRs, 25,630?bp each). The cp genome encoded 138 genes, of which 120 were unique genes. The phylogenetic relationships show that D. harveyanum is closely related to other species in Dendrobium.

| S-EPMC7707279 | biostudies-literature

The complete chloroplast genome of Paphiopedilum malipoense (Orchidaceae).

Project description:Paphiopedilum malipoense S.C.Chen & Z.H.Tsi is a new orchid species found in Malipo county, Yunnan. Here we report the complete chloroplast (cp) genome sequence and the features of P. malipoense. Its cp genome sequence of P. malipoense is 158,708?bp, including one large single-copy region (LSC, 89,452?bp), one small single-copy region (SSC, 17,692?bp), and two inverted repeat regions (IRs, 25,782?bp). The cp genome encoded 132 genes, of which 112 were unique genes (79 protein-coding genes, 29 tRNAs, and 4 rRNAs). The phylogenetic relationships show that P. malipoense is sister with P. armeniacum-P. wardii.

| S-EPMC7706870 | biostudies-literature

The complete chloroplast genome of Cymbidium eburneum (Orchidaceae).

Project description:Cymbidium eburneum Lindl. is an endangered species of Orchidaceae and distributed in Guangxi, Yunnan and Hainan of China, and India, Myanmar, Nepal, Vietnam. Here, we report the complete chloroplast (cp) genome sequence and the cp genome features of C. eburneum. The complete chloroplast (cp) genome sequence of C. eburneum is 156,520?bp in length and presented a typical quadripartite structure including one large single-copy region (LSC, 85,518?bp), one small single-copy region (SSC, 20,014?bp), and two inverted repeat regions (IRs, 25,471?bp). The cp genome encoded 135 genes, of which 106 were unique genes (78 protein-coding genes, 24 tRNAs, and 4 rRNAs). The phylogenetic relationships show that C. eburneum is closely related to other species in the genus Cymbidium, and is sister with C. tracyanum.

| S-EPMC7687489 | biostudies-literature

The complete chloroplast genome of Dendrobium longicornu (Orchidaceae).

Project description:Dendrobium longicornu Lindl is an epiphytic orchid with significant ornamental values. Here, we report the first complete chloroplast genome of D. longicornu. The complete chloroplast (cp) genome sequence of D. longicornu is 160,024?bp in length and consisted of two inverted repeats (IRs, 25,403?bp), which were separated by a large single copy region (LSC, 88,075?bp) and a small single copy region (SSC, 21,143?bp). The cp genome encoded 142 genes, of which 110 were unique genes (80 protein-coding genes, 26 tRNAs and 4 rRNAs). Phylogenetic analysis showed that D. longicornu clustered together with D. ellipsophy.

| S-EPMC7706476 | biostudies-literature

The complete chloroplast genome of Cymbidium changningense (Orchidaceae).

Project description:Cymbidium changningense is an ornamental orchid and endemic specie in China. Here, we report the complete chloroplast (cp) genome sequence and the cp genome features of C. changningense. The cp genome was 155,388?bp in length with a typical quadripartite structure, which was comprised of one large single copy (LSC, 84,522?bp) region and one small single copy (SSC, 20,622?bp) region separated by two inverted repeat (IR, 25,122?bp) regions. The cp genome encoded 132 genes, of which 108 were unique genes (80 protein-coding genes, 24 tRNAs, and four rRNAs). The phylogenetic analysis showed that C. changningense was sister with C. erythraeum.

| S-EPMC7707721 | biostudies-literature