Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

A complete chloroplast genome of bamboo cultivar Phyllostachys edulis f. bicolor (Poaceae: Bambusoideae).

ABSTRACT: Phyllostachys edulis f. bicolor, a beautiful ornamental bamboo species, is a new variant of P. edulis, with yellow stems and green grooves between nodes. In this study, we assembled and annotated the complete chloroplast (cp) genome of this variety for the first time. The complete cp genome size of P. edulis f. bicolor was 139,678 bp in length and a total of 130 unique genes were annotated, including 85 protein-coding genes, 37 tRNA encoding genes, and eight rRNA encoding genes. Phylogenetic analysis results provided evidence that P. edulis f. bicolor was closely related to P. edulis 'heterocycla'. This study contributes to better understanding of intraspecific type evolution of P. edulis.

SUBMITTER: Jing W

PROVIDER: S-EPMC10132244 | biostudies-literature | 2023

REPOSITORIES: biostudies-literature

ACCESS DATA

Json Xml

Publications

A complete chloroplast genome of bamboo cultivar Phyllostachys edulis f. bicolor (Poaceae: Bambusoideae).

Jing Wenxuan W Hu Bo B Wan Rou R Guo Qirong Q

Mitochondrial DNA. Part B, Resources 20230424 4

Phyllostachys edulis f. bicolor, a beautiful ornamental bamboo species, is a new variant of P. edulis, with yellow stems and green grooves between nodes. In this study, we assembled and annotated the complete chloroplast (cp) genome of this variety for the first time. The complete cp genome size of P. edulis f. bicolor was 139,678 bp in length and a total of 130 unique genes were annotated, including 85 protein-coding genes, 37 tRNA encoding genes, and eight rR ...[more]

PMID: 37124994

Similar Datasets

The complete chloroplast genome of Phyllostachys edulis f. curviculmis (Bambusoideae): a newly ornamental bamboo endemic to China.

Project description:Phyllostachys edulis (Bambusoideae) is a temperate woody bamboo with a long history of cultivation in China. Phyllostachys edulis f. curviculmis is the latest new forma that repored in 2018. Here, we performed the complete chloroplast genomes of P. edulis and P. edulis f. curviculmis using genome skimming. The length of two chloroplast genomes was 139,678 bp, and their GC contents were 38.9%. The sequences of each species contained 132 unique genes, including 39 tRNA, eight rRNA, and 85 protein-coding genes. Moreover, in subspecies-level, P. edulis 'Pachyloen' and P. edulis f. curviculmis are identical to P. edulis in the terms of chloroplast genome size, structure, and composition, further indicating their affinity.

| S-EPMC7971251 | biostudies-literature

The complete chloroplast genome of Phyllostachys edulis f. tubiformis (Bambusoideae): a highly appreciated type of ornamental bamboo in China.

Project description:Phyllostachys edulis (Carr.) H. de Lehaie f. tubiformis (S.Y.Wang) Ohrnberger (shengyin bamboo in Chinese) is a dwarf form of moso bamboo, which has important ornamental value. In this study, the complete chloroplast genome of P. edulis f. tubiformis was reported. The complete chloroplast genome of P. edulis f. tubiformis is a double-circular DNA of 139,678 bp in length with 38.89% G + C content, and contains 126 genes, including 84 protein-coding genes, eight ribosomal RNA (rRNA) genes, and 34 transfer RNA (tRNA) genes. Phylogenetic analysis results strongly supported that P. edulis f. tubiformis was clustered with the other infra-species of P. edulis, although its morphology is quite different from moso bamboo.

| S-EPMC8751489 | biostudies-literature

The complete chloroplast genome of a solid type of Phyllostachys nidularia (Bambusoideae: Poaceae), a species endemic to China.

Project description:Phyllostachys nidularia (Bambusoideae: Poaceae), widely distributed in the Yangtze River Basin and various provinces (regions) in southern China, is one of the most important small and medium-sized bamboo species used in both bamboo shoots and timber. In the present study, we assembled a complete chloroplast genome of the economically important bamboo form Phyllostachys nidularia f. farcta H.R.Zhao & A.T.Liu using whole genome sequencing data previously reported. The complete chloroplast (cp) genome is 139,706 bp in length. A total of 129 unique genes were annotated, including 82 protein-coding, 39 tRNA, and eight rRNA genes. Phylogenetic analysis results supported that P. nidularia f. farcta was closely related to Phyllostachys reticulata. This work would help us better understand the evolution of the Phyllostachys cp genome.

| S-EPMC7995827 | biostudies-literature

The complete chloroplast genome of Phyllostachys glauca (Bambusoideae), a dominant bamboo species in limestone mountains endemic to China.

Project description:Phyllostachys glauca is a dominant species in limestone mountains endemic to China. Here, we characterized its complete chloroplast genome. It is a circular DNA molecule of 139,689 bp in length, including a pair of 21,798 bp inverted repeats (IRs), a 12,872 bp small single-copy (SSC) region and an 83221 bp large single-copy (LSC) region. The total GC content of P. glauca chloroplast genome was 38.9%, and it encodes a total of 137 functional genes, including 89 protein-coding genes, 40 tRNA genes, and 8 rRNA genes. The phylogenetic analysis shows that P. glauca is highly clustered in the Phyllostachys clade (V), sister to the lineage of P. nigra var. henonis + P. sulphurea.

| S-EPMC7783095 | biostudies-literature

The complete chloroplast genome of Phyllostachys angusta McClure (Poaceae).

Project description:Phyllostachys angusta McClure is a precious wood-use bamboo resource, with almost straight stem. The complete chloroplast genome of the P. angusta McClure was assembled for the first time from Illumina pair-end sequencing data in this work. The total genome size of P. angusta McClure was 139,678 bp in length, containing a large single-copy (LSC) region of 83,212 bp, a small single-copy (SSC) region of 12,870 bp, and a pair of inverted repeat (IR) regions of 21,798 bp. The overall GC content of the genome was 38.89%, and the corresponding values of the LSC, SSC, and IR regions were 36.97, 33.17, and 44.22%, respectively. A total of 131 genes were annotated, including 85 protein-coding genes, 36 tRNA genes, and 8 rRNA genes. Phylogenetic analysis results strongly supported that P. angusta McClure was closely related to P. reticulate.

| S-EPMC7832504 | biostudies-literature

Development of polymorphic microsatellite markers for Phyllostachys edulis (Poaceae), an important bamboo species in China.

Project description:Polymorphic microsatellite markers were developed for Phyllostachys edulis (Poaceae), an ecologically and economically important bamboo species in China, to evaluate the genetic diversity and population genetic structure of P. edulis and other Phyllostachys species. • Twenty microsatellite markers were developed and their polymorphisms were tested on 71 samples from three geographically disparate populations. Each locus exhibited between two and 10 alleles with an average of five alleles. Excluding monomorphic loci, observed and expected heterozygosity ranged from zero to one and from 0.041 to 0.676, respectively. • These 20 polymorphic microsatellite loci will be useful for studies on the molecular ecology, population genetics, and conservation of P. edulis.

| S-EPMC4103127 | biostudies-literature

Complete chloroplast genome sequence of bamboo Dendrocalamopsis vario-striata (Gramineae Bambusoideae).

Project description:Dendrocalamopsis vario-striata is one of the most economical and ornamental significant bamboo. It has the characteristics of annual flowering but no death. Here, we report on the first complete chloroplast (cp) genome of D. vario-striata. Its full-length of 139,458 bp, include large single-copy (LSC) region of 83,279 bp, small single-copy (SSC) region of 12,143bp, a pair of invert repeats (IR) regions of 22,018bp. Plastid genome contains 264 genes, 170 protein-coding genes, 78 tRNA genes, and 16 rRNA genes. The maximum likelihood phylogenetic analysis shows that D. vario-striata was sister to all other species of Bambusoideae.

| S-EPMC7707846 | biostudies-literature

The complete chloroplast genome of Pseudosasa usawae (Poaceae: Bambusoideae: Arundinarieae) in Taiwan.

Project description:Pseudosasa usawae is an endemic species in Taiwan, and grows at an altitude of 600-1200 m. In this study, we fully characterized the complete chloroplast genome of P. usawae. The complete chloroplast sequence was 139,660 bp, including large single-copy (LSC), small single-copy (SSC), and a pair of invert repeats (IR) region of 83,271, 12,803, and 21,793 bp. Besides, the plastid genome comprised a total of 129 genes, including protein-coding, tRNA, and rRNA genes as 83, 38, and 8 genes. Phylogenetic analysis reveals that P. usawae is closely associated with Phyllostachys genus clade, sister to the lineage of Phyllostachys.

| S-EPMC8797728 | biostudies-literature

The complete chloroplast genome of Phyllostachys heteroclada f. solida (Poaceae).

Project description:Phyllostachys heteroclada f. solida is a precious wood-use bamboo resource, with almost solid stem. The complete chloroplast genome of the Phyllostachys heteroclada f. solida was the first time to assemble from Illumina pair-end sequencing data in this work. The total genome size of Phyllostachys heteroclada f. solida was 156,559 bp in length, containing a large single-copy (LSC) region of 89,200 bp, a small single-copy (SSC) region of 14,876 bp, and a pair of inverted repeat (IR) regions of 23,798 bp. The overall GC content of the genome was 36.12%, and the corresponding values of the LSC, SSC, and IR regions were 36.98, 33.15, and 44.22%, respectively. A total of 136 genes were annotated, including 88 protein-coding genes, 40 tRNA genes, and 8 rRNA genes. Phylogenetic analysis results strongly supported that Phyllostachys heteroclada f. solida was closely related to Phyllostachys reticulate.

| S-EPMC7889091 | biostudies-literature

The complete chloroplast genome of Schizostachyum dumetorum var. xinwuense (Bambusoideae: Poaceae).

Project description:Schizostachyum dumetorum var. xinwuense (T.H.Wen & J.Y.Chin) N.H.Xia is an arborescent bamboo that is native to Jiangxi, China. The bamboo culm wall of this species is extremely thin, which has high economic value and ecological benefits. Here, we assembled the complete chloroplast genome of S. dumetorum var. xinwuense using Illumina pair-end sequencing data in this work. The total genome size of S. dumetorum var. xinwuense was 139,230 bp in length, containing a large single-copy (LSC) region of 82,876 bp, a small single-copy (SSC) region of 12,877 bp, and a pair of inverted repeat (IR) regions of 21,777 bp. The overall GC content of the genome was 38.87%, and the corresponding GC values of the LSC, SSC, and IR regions were 36.98%, 32.83%, and 44.17%, respectively. The genome contained a total of 112 genes, including 75 protein-coding, 30 tRNA, and seven rRNA. Phylogenetic analysis of S. dumetorum var. xinwuense positioned it in a strongly supported clade with Arundinaria appalachiana. These data show the phylogenetic location of Schizostachyum dumetorum var. xinwuense within the family of the Bambusoideae and contribute to the biodiversity and systematics of the Bambusoideae.

| S-EPMC7995811 | biostudies-literature