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 Elytranthe Albida (Loranthaceae), a hemiparasitic shrub.

ABSTRACT: The complete chloroplast genome (plastome) of Elytranthe albida (Blume) Blume (Loranthaceae) was sequenced. The plastome is 128,658?bp in length, which encodes 96 unique genes, including 64 protein-coding genes, 4 rRNAs, and 28 tRNAs. The complete plastome-based phylogeny indicated that E. albida is sister to remaining Loranthaceae species.

SUBMITTER: Guo X

PROVIDER: S-EPMC7706827 | biostudies-literature | 2019 Sep

REPOSITORIES: biostudies-literature

ACCESS DATA

Json Xml

Publications

The complete chloroplast genome of Elytranthe Albida (Loranthaceae), a hemiparasitic shrub.

Guo Xiaorong X Ruan Zhijie Z

Mitochondrial DNA. Part B, Resources 20190919 2

The complete chloroplast genome (plastome) of Elytranthe albida (Blume) Blume (Loranthaceae) was sequenced. The plastome is 128,658 bp in length, which encodes 96 unique genes, including 64 protein-coding genes, 4 rRNAs, and 28 tRNAs. The complete plastome-based phylogeny indicated that E. albida is sister to remaining Loranthaceae species. ...[more]

PMID: 33365876

Similar Datasets

Complete chloroplast genome sequence of Scurrula notothixoides (Loranthaceae): a hemiparasitic shrub in South China.

Project description:Scurrula notothixoides (Loranthaceae) is a hemiparasitic shrub distributed in forest margins of Southeast Asian countries. Here, we report and characterize the complete plastid genome sequence of S. notothixoides in an effort to provide genomic resources useful for the phylogenetic studies for Santalales. The complete plastome is 123,810?bp in length and contains the typical structure and gene content of angiosperm plastomes, including two inverted repeat (IR) regions of 23,101?bp, a large single copy (LSC) region of 71,448?bp and a small single copy (SSC) region of 6160?bp. The plastome contains 88 genes, consisting of 61 unique protein-coding genes, 23 unique tRNA genes and four unique rRNA genes. The overall A/T content in the plastome of S. notothixoides is 62.7%. Phylogenetic analyses were performed using the entire plastome, including spacers, introns, etc. and we recovered that S. notothixoides and Taxillus sutchuenensis was closely related. The complete plastome sequence of S. notothixoides will provide a useful resource for the phylogenetic studies for Santalales.

| S-EPMC7799537 | biostudies-literature

Complete chloroplast genome sequence of Taxillus chinensis (Loranthaceae): a hemiparasitic shrub in South China.

Project description:Taxillus chinensis (DC) Danser, which is a hemiparasitic shrub distributed in southern China and Southeast Asian countries, is wildly used in various traditional Chinese medicine prescriptions. In this study, the complete chloroplast genome of the T. chinensis was assembled from the whole genome Illumina sequencing data. The complete plastome is a typical quadripartite structure with a length of 121,305 bp, which contained two inverted repeats (IRs) of 22,460 bp separated by a large single-copy (LSC) and a small single copy (SSC) of 70,295 bp and 6090 bp, respectively. The plastome contains 106 genes, comprising 66 protein-coding genes, 28 tRNA genes, eight rRNA genes, and four processed pseudogenes. The overall GC content of the plastome is 37.4%, which is unevenly distributed across the whole chloroplast genome. The phylogenetic analysis shows that T. chinensis was closely related to the congeneric species T. sutchuenensis.

| S-EPMC7706901 | biostudies-literature

The complete chloroplast genome of Scurrula chingii (W.C. Cheng) H.S. Kiu (Loranthaceae), a hemiparasitic shrub.

Project description:Scurrula chingii (W.C. Cheng) H.S. Kiu is a stem hemiparasite of the genus Scurrula in the family Loranthaceae distributed in southwest China and northern Vietnam. Here, we report and characterize the complete plastid genome sequence of S. chingii to provide genomic resources useful for the phylogenetic studies of Santalales. The plastome of S. chingii is 122,764 bp in length, consisted of a large single-copy region (70,726 bp), a small single-copy region (6,091 bp), and a pair of inverted repeat regions (22,974 bp). The GC content of the whole plastome is 37.2%. It contains 109 genes, including 69 CDS (protein-coding genes), eight rRNAs, and 32 tRNAs. The alignment of 14 species complete chloroplast genomes of Loranthaceae was implemented and a phylogenetic tree was constructed using maximum-likelihood (ML) method, which revealed that S. chingii clustered with Scurrula parasitica and Taxillus thibetensis as a monophyletic group.

| S-EPMC7850402 | biostudies-literature

The complete chloroplast genome sequence of Taxillus yadoriki (Loranthaceae): a hemi-parasitic evergreen shrub in East Asia.

Project description:Taxillus yadoriki (Loranthaceae) is a hemiparasitic evergreen shrub distributed in Korea and Japan. We report the complete chloroplast genome of T. yadoriki to provide insight into the phylogenetic relationship of Loranthaceae. This genome is 122,192 bp long, with two IR regions (22,756 bp each) that separate a large single-copy (LSC) region (70,628 bp) and a small single-copy (SSC) region (6052 bp). It contains 109 genes that encode 68 proteins, 8 rRNAs, and 33 tRNAs. All of ndh genes have been lost and the SSC region consists of only four genes similar to other Taxillus species. In ML phylogenetic, monophyly of Taxillus was strongly supported with high bootstrap value and formed a sister group with Scurrula.

| S-EPMC7781972 | biostudies-literature

The complete plastome of Taxillus vestitus (Loranthaceae), a hemiparasitic plant.

Project description:Taxillus vestitus (Wallich) Danser (Loranthaceae) is a stem hemiparasite occurring in southwest China and Himalayas. In this study, we report the first complete plastome of this species. The plastome is 122,200?bp in size, which encodes 94 unique genes (64 protein-encoding gens, 4 ribosomal RNAs, and 26 tRNAs). Compared to the plastomes of the autotrophic relatives, the T. vestitus plastome is significantly reduced. A total of 15 protein-coding genes, and 4 tRNAs were deleted from the plastome.

| S-EPMC7706843 | biostudies-literature

The complete chloroplast genome sequence of Helixanthera parasitica (Loranthaceae).

Project description:The complete chloroplast genome of Helixanthera parasitica from China was analyzed using next-generation sequencing. The plastome of H. parasitica is a typical quadripartite structure with a length of 125,021 bp, which contained inverted repeats (IR) of 22,752 bp separated by a large single-copy (LSC) and a small single copy (SSC) of 73,151 bp and 6,366 bp, respectively. The cpDNA contains 105 genes, comprising 67 protein-coding genes, 30 tRNA genes, and 8 rRNA genes. The overall GC content of the plastome is 36.5%. Phylogenetic analysis showed that H. parasitica was closely related to the Tolypanthus maclurei.

| S-EPMC7707008 | biostudies-literature

A complete chloroplast genome sequence of Viola albida Palibin 1899 (Violaceae), a member of VIOLA ALBIDA complex.

Project description:The VIOLA ALBIDA complex is a complicated group with taxonomic problems having continuous leaf variations and composed of taxa related to the following names: Viola albida, V. albida var. takahashii, and V. chaerophylloides. As a first step to understanding the genomic nature of this complex, this study identified the whole chloroplast genome of V. albida. The genome is 157,692 bp in length (36.3% of GC content) and contains four subregions: a large single copy region of 86,220 bp, a small single copy region of 17,248 bp, and a pair of inverted regions of 27,112 bp each. An annotation of the gene identifies 111 unique genes, including 77 protein-coding genes, four rRNA genes, and 30 tRNA genes. The phylogenetic analysis of this genome with selected cp genomes from Viola identifies the close relationship between V. albida and V. ulleungdoensis. It is noteworthy that V. chaerophylloides, traditionally recognized as a member of the VIOLA ALBIDA complex, is genetically distant from V. albida and forms a sister group of all other members of the subsection Patellares. Our genome report is expected to serve as a basis for understanding the identity of the VIOLA ALBIDA complex.

| S-EPMC10281375 | biostudies-literature

The complete chloroplast genome of hemiparasitic flowering plant Schoepfia jasminodora.

Project description:The complete chloroplast genome hemiparasitic plant Schoepfia jasminodora (Schoepfiaceae), was determined in this study by de novo assembly with whole-genome sequence data. The chloroplast genome is 118,743?bp in length with a typical quadripartite structure containing a pair of inverted repeats of 12,406?bp, separated by a large and a small single copy fragments of 84,168?bp and 9763?bp, respectively. The chloroplast genome contains 112 genes that consisting of 69 protein-coding, 27 tRNA, 4 rRNA and 3 pseudolized genes. All of the ndh (except for ndhA) and two tRNA (trnV-UAG and trnG-UCC) genes were found to be lost. The three pseudogenes are ndhA, ycf15 and trnL-CAA. Schoepfia represents the early stages of chloroplast genome degradation along with its transition to heterotrophy in related taxa.

| S-EPMC7799538 | biostudies-literature

The complete chloroplast genome of a medicinal plant Viscum articulatum Burm.f. (Loranthaceae).

Project description:Viscum articulatum is usually used as famous ethno-medicinal plant and popular drink in many provinces of China. In this study, the characterization of the complete chloroplast genome of V. articulatum was analyzed using the Illumina NovaSeq platform. The whole chloroplast genome sequence of V. articulatum is 131,825 including a large single-copy region (LSC, 76,069 bp), a small single-copy region (SSC, 8990 bp), and a pair of repeated regions (IRs, 23,383 bp, each). Further gene annotation in our study revealed the chloroplast genome contains 114 genes, including 36 tRNA genes, 8 rRNA genes and 70 protein-coding genes. A total of 118 simple sequence repeats (SSRs) were identified in the chloroplast genome. Phylogenetic development was analyzed based on V. articulatum with other species of Loranthaceae, the phylogenetic tree in our study revealed that V. articulatum is a lineage independent of other species in genus Viscum.

| S-EPMC8381967 | biostudies-literature

Complete chloroplast genome sequence of Zanthoxylum nitidum (Rutaceae), an important medicinal shrub.

Project description:Zanthoxylum nitidum (Rutaceae) is a scandent prickly shrub and widely distributed in South China. It's well known for its valuable medicinal values due to contains some important secondary metabolites. Here, we first report and characterize its complete chloroplast genome based on Illumina paired-end sequencing data. The complete plastid genome was 157,253 bp, which contained inverted repeats (IR) of 27,618 bp separated by a large single-copy (LSC) and a small single copy (SSC) of 84,382 bp and 17,635 bp, respectively. The cpDNA contains 132 genes, comprising 87 protein-coding genes, 37 tRNA genes, 8 rRNA genes. The overall GC content of the plastome is 38.5%. The phylogenetic analysis of 20 selected chloroplast genomes demonstrated that Z. nitidum is closely related to the congeneric Z. bungeanum.

| S-EPMC7707648 | biostudies-literature