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 sequence of Spiraea×vanhouttei (Briot) Zabel (Rosaceae).

ABSTRACT: Spiraea×vanhouttei (Rosaceae) is a frequently planted Spiraea species that is distributed in Shandong Province, Jiangsu Province, and Guangdong Province, China. The first complete chloroplast genome of Spiraea×vanhouttei was determined and described in this study. The genome is 155,957 bp in length and contained 129 encoded genes in total, including 84 protein-coding genes, eight ribosomal RNA genes, and 37 transfer RNA genes. The phylogenomic analysis showed that Spiraea×vanhouttei was closely related to Spiraea blumei according to the current sampling extent.

SUBMITTER: Chen MM

PROVIDER: S-EPMC8942552 | biostudies-literature | 2022

REPOSITORIES: biostudies-literature

ACCESS DATA

Json Xml

Publications

The complete chloroplast genome sequence of Spiraea×vanhouttei (Briot) Zabel (Rosaceae).

Chen Min-Min MM Wang Rui-Hong RH Sha Hong-Kun HK Liu Ming-Zhi MZ Tong Jian-Quan JQ He Qiu-Ling QL

Mitochondrial DNA. Part B, Resources 20220317 3

Spiraea×vanhouttei (Rosaceae) is a frequently planted Spiraea species that is distributed in Shandong Province, Jiangsu Province, and Guangdong Province, China. The first complete chloroplast genome of Spiraea×vanhouttei was determined and described in this study. The genome is 155,957 bp in length and contained 129 encoded genes in total, including 84 protein-coding genes, eight ribosomal RNA genes, and 37 transfer RNA genes. The phylogenomic analysis showed t ...[more]

PMID: 35342798

Similar Datasets

The complete chloroplast genome sequence of Spiraea blumei G. Don (Rosaceae).

Project description:Spiraea blumei G. Don is an ornamental shrub widely distributed in Eastern Asia. Here, we reported and characterized the complete chloroplast (cp) genome sequence of S. blumei (GenBank accession number: MN418904) to provide genomic resources for promoting its conservation. The total chloroplast genome is 155,957 bp in length and contains the typical chloroplast structure, including two inverted repeat (IR) regions of 26,343 bp, a large single-copy (LSC) region of 84,384 bp, and a small single-copy (SSC) region of 18,887 bp. The overall guanine-cytosine (GC) content of the S. blumei chloroplast genome is 36.8%. The cp genome encodes 133 unique genes, including 85 protein-coding genes (PCGs), 40 tRNA genes, and 8 rRNA genes. We used the cp genome of S. blumei and 26 other cp genomes to perform a phylogenetic analysis, which indicated that S. blumei was closely related to S. martini in Rosaceae.

| S-EPMC7707486 | biostudies-literature

The complete chloroplast genome sequence of Spiraea japonica var. acuminata Franch. (Rosaceae).

Project description:Spirea japonica var. acuminata Franch. (Rosaceae) is a Chinese herbal medicine distributed in southwest and east China. The first complete chloroplast genome of Spirea japonica var. acuminata Franch. was assembled and reported in this study. The genome is 153,822 bp in length and contained 125 encoded genes in total, including 80 protein-coding genes, eight ribosomal RNA genes, and 37 transfer RNA genes. The phylogenomic analysis showed that Spirea japonica var. acuminata Franch. was closely related to Spirea blumei, Spirea trilobata, Spirea mongolica and Spirea insularis according to the current sampling extent.

| S-EPMC8797734 | biostudies-literature

The chloroplast genome of Spiraea thunbergii (Rosaceae).

Project description:Spiraea thunbergii (S. thunbergia) is a very common ornamental shrub in the garden, with important horticultural and economic value. In this study, we assembled the complete chloroplast (cp) genome of S. thunbergia into a typical quadripartite structure. The genome size and GC content of the S. thunbergia cp genome are 155,922 bp and 36.76%, respectively. It contains 84 protein-coding genes, 37 tRNA genes, and 8 rRNA genes. The phylogenetic tree supported that S. thunbergii is closely related to Spiraea mongolica in the Rosaceae family. The study will provide significant genomic resource for elucidating the phylogenetic relationship of Spiraea.

| S-EPMC9621243 | biostudies-literature

Complete Chloroplast Genome Sequence Of Prunus Davidiana (Rosaceae).

Project description:Prunus davidiana is a Chinese wild peach species belonging to the family Rosaceae. In this study, we first assembled the complete chloroplast (cp) genome of P. davidiana by Illumina paired-end reads data, then carried out phylogenetic analysis. The P. davidiana cp genome was 158,055 bp, containing a large single copy region (LSC) of 86,248 bp and a small single copy region (SSC) of 19,047 bp separated by a pair of inverted repeats (IRs) of 26,380 bp. The cp genome contained 131 genes, including 86 protein-coding genes, 37 transfer RNA (tRNA) genes and 8 ribosomal RNA (rRNA) genes. The result of the phylogenetic analysis showed that P. davidiana is closely related to P. mongolica.

| S-EPMC7801015 | biostudies-literature

The complete chloroplast genome sequence of Rubus eucalyptus (Rosaceae).

Project description:Rubus eucalyptus Focke belong to genus Rubus in the family Rosaceae, the fresh fruits of which can be used for medicine and cosmetic. The plastome of R. eucalyptus is 155,672 bp in length, with one large single copy region of 85,277 bp, one small single copy region of 18,864 bp, and two inverted repeat (IR) regions of 25,748 bp. It contains 130 genes, including 86 protein-coding genes, 8 ribosomal RNA, and 37 transfer RNA. Phylogenetic tree shows that R. eucalyptus was at the basal of Rosaceae. The published plastome within Rubus provides significant insight for elucidating the phylogenetic relationship of taxa within tribe Rosaceae.

| S-EPMC7706686 | biostudies-literature

The complete chloroplast genome sequence of Rosa laevigata (Rosaceae).

Project description:The complete chloroplast genome of Rosa laevigata has been characterized by reference-based assembly using Illumina paired-end data. The complete cp genome is 156,342 bp in length, containing a large single-copy region of 85,459 bp, a small single-copy region of 18,785 bp, which are separated by a pair of inverted repeat regions of 26,049 bp, a total of 140 genes were predicted from the cp genome, including 87 protein-coding genes, 39 tRNA genes, and 8 rRNA genes . Most genes occur as a single copy, while 19 gene species are duplicated. Phylogenetic analysis reveals that R. laevigata and Rosa roxburghii f. normalis are more closely related to each other than either is to Rosa banksiae var. normalis.

| S-EPMC7707283 | biostudies-literature

The complete chloroplast genome sequence of Sorbus amabilis (Rosaceae).

Project description:Sorbus amabilis Cheng ex Yü, a small excellent ornamental tree species, is only distributed in Eastern China. In this study, we assembled and annotated the complete chloroplast (cp) genome of the species using the next-generation sequencing for the first time. The cp genome was 160,006 bp in size, consisting of two copies of invert repeat (IR) regions of 26,405 bp, one large single-copy (LSC) region of 87,870bp, and one small single-copy (SSC) region of 19,326 bp. The overall GC content of the genome was 36.55%. The genome was predicted to contain 128 genes, including 88 protein-coding genes, 37 tRNA genes, and eight rRNA genes. Phylogenetic analysis of 25 chloroplast genomes in Rosaceae indicated that S. amabilis is most closely related to S. commixta. These findings may provide useful information to the phylogeny of the genus Sorbus.

| S-EPMC7510610 | biostudies-literature

The complete chloroplast genome sequence of Malus toringoides (Rosaceae).

Project description:Malus toringoides belongs to the subfamily Amygdaloideae of Rosaceae, which is an endemic species in China. It has significant ornamental, economic, and ecological value. Herein, we assembled the complete chloroplast genome of Malus toringoides using the next-generation sequencing technology. The total length of the complete chloroplast genome was 160,093 base pair (bp), consisting of one large single-copy (LSC) region with a sequence length of 88,177 bp, one small single-copy (SSC) region which sequence length is 19,194 bp, and a pair of inverted repeat regions (IRs, 26361 bp). Besides, the complete chloroplast genome contained 128 genes, namely 83 protein-coding genes (PCGs), 37 tRNA genes (tRNA), and 8 rRNAgenes (rRNA), the GC content was 36.6%. The phylogenetic relationship among species in genus Malus is closely related, especially the phylogenetic relationship among Malus angustifolia, Malus prattii, Malus micromalus, Malus prunifolia, Malus baccata, Malus hupehensis and Malus toringoides. Furthermore, phylogenetic relationship of Malus toringoides in Malus was closely related to Malus hupehensis. Our study affords important genetic information for further researches on the related species.

| S-EPMC7782016 | biostudies-literature

The complete chloroplast genome sequence of Gillenia trifoliata (Rosaceae).

Project description:Gillenia trifoliata (L.) Moench is an ornamental and medicinal species endemic to North America. In this study, a complete circular chloroplast genome of G. trifoliata was assembled and annotated. The chloroplast genome of G. trifoliata is 159,496 bp in size and consists of two IR (26,394 bp) regions separated by LSC (87,647 bp) and SSC (19,061 bp) regions. The GC content of the chloroplast genome is 36.5%. The chloroplast genome comprised of 112 different genes, including 78 protein-coding genes. The phylogenetic analysis revealed that G. trifoliata lies within subfamily Amygdaloideae and forms the progenitor lineage of the pome-bearing Maleae.

| S-EPMC7687496 | biostudies-literature

The complete chloroplast genome sequence of Malus toringo (Rosaceae).

Project description:Malus toringo (Siebold) Siebold ex de Vriese is a worthy species in the genus Malus (family Rosaceae) distributing from North America and Asia, especially in China. In addition to its ornamental value, the medicinal value of its fruits has also been developed to treat food stagnation diseases. Herein, we obtained the complete chloroplast genome of M. toringo using next-generation sequencing technology. The complete chloroplast genome is 160,039 base pair (bp) in length, including a large single copy (LSC) region of 88,142 bp, a small single copy (SSC) region of 19,183 bp, and a pair of inverted repeat regions (IRs, 26,357 bp). And, the overall GC content of the chloroplast genome was 36.6%. Besides, a total of 128 unique genes were found in the chloroplast genome, namely 83 protein-coding genes (PCGs), 37 tRNA genes (tRNA), and eight rRNA genes (rRNA). A maximum-likelihood phylogenetic tree was reconstructed using the full length of chloroplast genome to show the phylogenetic relationships among species in genus Malus. It was concluded that M. toringo was phylogenetically close to M. angustifolia.

| S-EPMC7782744 | biostudies-literature