Browse
Submit Data
Databases
API
Help

Dataset Information

13 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

The complete chloroplast genome of an aromatic Chinese pepper (Zanthoxylum simulans).

ABSTRACT: The Chinese pepper (Zanthoxylum simulans) is a flowering plant in the family Rutaceae, native to eastern China and Taiwan. Like many other members of the Rutaceae, it is an economically important aromatic crop known for its volatile oil and nutrition. We determined the complete chloroplast genome sequences for Z. simulans using IIumina sequencing. The Z. simulans chloroplast has a total length of 158,461?bp; it consists of a large single copy (LSC) region of 85,568?bp, a small single copy region (SSC) length of 17,603?bp, and an inverted region (IR) of 27,645?bp. The genome encodes 132 annotated genes, including 87 protein-coding genes, 37 tRNA, and 8 rRNA. The overall GC content of the Z. simulans chloroplast genome was 38.5%. A phylogenomic analysis revealed that Z. simulans are clustered with Z. bungeanum within the genus Zanthoxylum.

SUBMITTER: Hou N

PROVIDER: S-EPMC7799646 | biostudies-literature | 2017 Dec

REPOSITORIES: biostudies-literature

ACCESS DATA

Json Xml

Publications

The complete chloroplast genome of an aromatic Chinese pepper (Zanthoxylum simulans).

Hou Na N Wang Gang G Feng Shi Jing SJ Wei An Zhi AZ

Mitochondrial DNA. Part B, Resources 20171220 1

The Chinese pepper (Zanthoxylum simulans) is a flowering plant in the family Rutaceae, native to eastern China and Taiwan. Like many other members of the Rutaceae, it is an economically important aromatic crop known for its volatile oil and nutrition. We determined the complete chloroplast genome sequences for Z. simulans using IIumina sequencing. The Z. simulans chloroplast has a total length of 158,461 bp; it consists of a large single copy (LSC) region of 85,568 bp, a sma ...[more]

PMID: 33474053

Similar Datasets

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

The complete chloroplast genome of Zanthoxylum acanthopodium DC. (Rutaceae) and its phylogenetic analysis.

Project description:We sequenced the complete chloroplast genome of Zanthoxylum acanthopodium via high-throughput sequencing technology, and analyzed its structural characteristics and phylogenetic relationships. The chloroplast exhibits a genome length of 158,473 bp, including a pair of inverted repeat regions (IRa and IRb) of 27,369 bp, a small single-copy (SSC) region of 17,629 bp and a large single-copy (LSC) region of 85,570 bp. The annotation analysis identified 112 genes, containing 78 protein-coding genes, 30 tRNA genes and 4 rRNA genes. The phylogenetic analysis showed that Z. acanthopodium was closely related to Z. piperitum and Z. tragodes.

| S-EPMC7594859 | biostudies-literature

The complete chloroplast genome of Zanthoxylum piasezkii Maxim. (Rutaceae) and its phylogenetic analysis.

Project description:Zanthoxylum piasezkii Maxim. is a widely distributed species of edible medicinal plant in China. It has been used for traditional spicy condiment and medicinal ingredients for quite a long time. In this study, the complete chloroplast genome sequence of Z. piasezkii was first reported and characterized from sequencing data. The complete chloroplast genome was determined to be 158,728 bp in length, consisting of a large single-copy (LSC) region (85,918 bp) and a small single copy (SSC) region (17,612 bp), which were separated by a pair of 27,599 bp inverted repeat (IR) regions. The chloroplast genome is predicted to contain 132 genes, including 87 protein-coding genes, 37 tRNA genes, and 8 rRNA genes. The overall GC content of cpDNA is 38.4%. The phylogenetic analysis of 12 complete chloroplast genomes reveals that Z. piasezkii is mostly related to the congeneric Z. bungeanum.

| S-EPMC7872585 | biostudies-literature

The complete chloroplast genome of Zanthoxylum bungeanum var. pubescens with distinct leaf shapes.

Project description:Zanthoxylum bungeanum var. pubescensis is a variety species of Z. bungeanum Maxim. that is characterized with small leaf plants and possess high resistant to cold stress among the genus Zanthoxylum. In the current study, the complete chloroplast genome sequences of two different leaf shapes were assembled. One type of leaflets is thin paper, and the color on both sides is obviously different after drying, and the fruit stalk is slender and elongated; the other type of leaflets are the thick paper, the leaf surface and fruit stalk are glabrous, the fruit stalk is thicker, and the lateral veins are recessed on the leaf surface and appear to be cracked. Their circular DNA lengths were all 158,565 bp. Both genomes were made up of a large single-copy (LSC), a small single-copy (SSC), and two inverted repeat (IRs) regions. Each genome encoded 132 genes, including 87 protein-coding, 37 tRNA, and 8 rRNA genes. Phylogenetic analysis indicated that both species were closely related to the congeneric Z. bungeanum.

| S-EPMC8168767 | biostudies-literature

The complete chloroplast genome sequence of wild Japanese pepper Tubocapsicum anomalum Makino (Solanaceae).

Project description:As an important medicinal herb, no complete organelle molecular data has been reported for Tubocapsicum anomalum. In this study, the first complete chloroplast genome of Tubocapsicum anomalum Makino was sequenced and assembled. The genome is 155,802 bp in length and contained 124 encoded genes in total, including 75 protein-coding genes, 10 ribosomal RNA genes, and 39 transfer RNA genes. The phylogenomic analysis showed that Tubocapsicum anomalum was closely related to Withania somnifera according the current sampling extent.

| S-EPMC8284131 | biostudies-literature

Keteleeria cyclolepis complete chloroplast genome

Project description:Keteleeria cyclolepis complete chloroplast genome Raw sequence reads

| PRJNA723268 | ENA

The complete chloroplast genome of Isodon rubescens, a traditional Chinese herb.

Project description:Isodon rubescens (Hemsley) H. Hara is a kind of traditional medical herb which can be used for cancer treatment. In this study, the complete chloroplast genome sequence of I. rubescens was assembled. Its complete circular chloroplast DNA length was 152,761 bp. The genome was made up of a large single-copy region of 83,655 bp, a small single-copy region of 17,660 bp, and a pair of inverted repeat regions of 25,723 bp. The genome totally encoded 129 genes, containing 85 protein-coding genes, 36 tRNA genes, and eight rRNA genes. Phylogenetic analysis indicated that I. rubescens had a close relationship with basil (Ocimum basilicum).

| S-EPMC7872541 | biostudies-literature

The complete chloroplast genome sequences of Zanthoxylum nitidum var. nitidum and Z. nitidum var. tomentosum.

Project description:Zanthoxylum nitidum (Rutaceae Juss.) is a traditional Chinese medicine with four morphological types. We assembled their complete chloroplast genome sequences. The assembled genomes are 156,999-157,349?bp in length, including a large single copy (LSC) region of 84,064-84,455?bp, a small single copy (SSC) region of 17,582-17,651?bp and a pair of inverted repeats (IRs) of 27,631-27,659?bp. All genomes contained 133 genes, including 79 protein-coding genes, 30 tRNA genes, and four rRNA genes. The GC content is 38.5%. The further phylogenetic analysis showed that Z. nitidum clade was a monophyletic group separated from other Zanthoxylum species.

| S-EPMC7707754 | biostudies-literature

Complete chloroplast genome of a Chinese endemic species Corydalis trisecta Franch. (Papaveraceae).

Project description:Corydalis trisecta Franch. is an endemic plant found in China. In this study, we presented the first complete chloroplast genome of C. trisecta, which was assembled and characterized based on Illumina pair-end sequencing data. The complete chloroplast genome was 161,410?bp in length, with a GC content of 41.4% in total. Its structure contained a large single copy (LSC) region of 89,127?bp and a small single copy (SSC) region of 16,993?bp, which were separated by a pair of extremely inverted repeats (IRs) of 27,645?bp each, with GC content 39.8, 87.2, and 45.2%, respectively. The phylogenetic analysis indicated that C. triscta was sister to Lamprocapons spectabilis in Papaveraceae.

| S-EPMC7687375 | biostudies-literature

The complete chloroplast genome of Leptochilus hemionitideus, a traditional Chinese medical fern.

Project description:The complete chloroplast genome of Leptochilus hemionitideus was sequenced. Its length is 156,083?bp with 44.2% GC content. The genome exhibits typical quadripartite with two inverted repeat regions (24,594?bp, each) separated by a large single-copy (LSC, 81,403?bp) region and a small single-copy (SSC, 25,492?bp) region. It has 131 genes, including 87 protein-coding genes, 34 tRNA genes, eight rRNA genes and two pseudogenes. Maximum-likelihood phylogenetic tree indicated that L. hemionitideus was closely related to Lepisorus clathratus. The complete chloroplast genome of L. hemionitideus would provide very valuable molecular information for further inferring the relationships of the microsoroid ferns.

| S-EPMC7799545 | biostudies-literature