Browse
Submit Data
Databases
API
Help

Dataset Information

38 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

The complete chloroplast genome sequence of Michelia compressa.

ABSTRACT: Michelia compressa is an evergreen ornamental tree species. The high-throughput sequencing technology was used to sequence and assemble the chloroplast genome of Michelia compressa. Results showed that the chloroplast genome is 160,061 bp in length, of which the inverted repeats sequence (IRs) is 26,581 bp, the large single-copy region (LSC) and the small single copy region (SSC) are 88,097 bp and 18,802 bp, respectively. The GC content of the plastome was 39.2%, with 43.2%, 37.9% and 34.2% in IRs, LSC and SSC, respectively. A total of 132 genes are annotated, 86 protein-coding genes, 37 tRNA genes, and 8 rRNA genes. This study enriched the Michelia compressa genomic information which provides the basis for rational exploitation and utilization of germplasm resources.

SUBMITTER: Zhou D

PROVIDER: S-EPMC7782975 | biostudies-literature | 2020 Sep

REPOSITORIES: biostudies-literature

ACCESS DATA

Json Xml

Publications

The complete chloroplast genome sequence of Michelia compressa.

Zhou Dongqin D Lu Shipeng S Hou Zhaoqi Z Yu Jinping J

Mitochondrial DNA. Part B, Resources 20200901 3

Michelia compressa is an evergreen ornamental tree species. The high-throughput sequencing technology was used to sequence and assemble the chloroplast genome of Michelia compressa. Results showed that the chloroplast genome is 160,061 bp in length, of which the inverted repeats sequence (IRs) is 26,581 bp, the large single-copy region (LSC) and the small single copy region (SSC) are 88,097 bp and 18,802 bp, respectively. The GC content of the plastome was 39.2%, with 43.2%, 37.9% ...[more]

PMID: 33458137

Similar Datasets

The complete chloroplast genome sequence of Michelia floribunda.

Project description:The first complete chloroplast genome (cpDNA) sequence of Michelia floribunda was determined from Illumina HiSeq pair-end sequencing data in this study. The cpDNA is 160,049 bp in length, contains a large single-copy region (LSC) of 88,140 bp and a small single-copy region (SSC) of 18,773 bp, which were separated by a pair of inverted repeats (IR) regions of 26,568 bp. The genome contains 132 genes, including 87 protein-coding genes, 8 ribosomal RNA genes, and 37 transfer RNA genes. Further phylogenomic analysis showed that M. floribunda was closely related to Michelia yunnanensis in Michelieae tribe.

| S-EPMC7510816 | biostudies-literature

The complete chloroplast genome sequence of Michelia amoena Q.F.Zheng et M.M.Lin.

Project description:Michelia amoena Q.F.Zheng et M.M.Lin is classified in Magnoliaceae and has a high economic value. Herein, we report the complete chloroplast genome of M. amoena using Illumina sequence data. The chloroplast genome is 160,088 bp in length and contains a large single copy (LSC) region of 88,118 bp and a small single-copy (SSC) region of 18,798 bp separated by two inverted repeat (IR) regions of 26,586 bp each. It contained a total of 131 genes, with an overall GC content of 39.26%. The phylogenetic analysis showed that M. amoena is closely related to Michelia figo. This study provides important sequence information for species identification and its phylogenetic relationship in the Magnoliaceae.

| S-EPMC8725969 | biostudies-literature

The complete chloroplast genome sequence of Michelia wilsonii: an endangered species in China.

Project description:The first complete chloroplast genome (cpDNA) sequence of Michelia wilsonii was determined from Illumina HiSeq pair-end sequencing data in this study. The cpDNA is 160,100 bp in length, contains a large single-copy region (LSC) of 88,162 bp and a small single-copy region (SSC) of 18,786 bp, which were separated by a pair of inverted repeats (IR) regions of 26,576 bp. The genome contains 132 genes, including 87 protein-coding genes, 8 ribosomal RNA genes, and 37 transfer RNA genes. Further phylogenomic analysis showed that M. wilsonii closed to Michelia odora and Michelia yunnanensis in Michelieae tribe of the Magnoliaceae family.

| S-EPMC7748524 | biostudies-literature

Complete chloroplast genome of Ulva compressa (Ulvales: Ulvaceae).

Project description:Ulva compressa is one of the causal green macroalgae in many countries. In this study, complete chloroplast genome sequence of U. compressa was reported, and the total length of this species was 94,226 bp (GenBank accession number MT916929). The overall base composition of chloroplast genome was A (37.2%), T (37.0%), C (12.7%) and G (13.1%), and the percentage of A + T (74.2%) was higher than C + G (25.8%). U. compressa chloroplast genome encoded 90 genes, including 63 protein-coding genes, 23 transfer RNAs genes, and 4 ribosomal RNAs genes. The maximum likelihood phylogenetic analysis showed that U. compressa is the closest sister species of U. linza. This study will be helpful to understand the genetic diversity of Ulva species.

| S-EPMC7954497 | biostudies-literature

The complete chloroplast genome sequence of Michelia figo based on landscape design, and a comparative analysis with other Michelia species.

Project description:In the landscape planning and design, the ecological concept should occupy a dominant position, and the construction of an 'environmentally friendly, resource-saving' ecological new city is inseparable from the cultivation of forest tree species. Michelia figo, is an important landscape design tree species. Michelia figo, is also an important ecological role in boreal and temperate forests, serving as wildlife habitats and watersheds and is an important landscape ornamental tree species. The complete chloroplast genome sequence of M. figo was characterized from Illumina pair-end sequencing. The chloroplast genome of M. figo was 160,118 bp in length, containing a large single-copy region (LSC) of 88,116 bp, a small single-copy region (SSC) of 18,797 bp, and two inverted repeat (IR) regions of 26,603 bp. The overall GC content is 39.30%, while the corresponding values of the LSC, SSC, and IR regions are 34.5%, 30.6%, and 42.0%, respectively. The genome contains 129 complete genes, including 85 protein-coding genes (62 protein-coding gene species), 36 tRNA genes (29 tRNA species), and 8 rRNA genes (4 rRNA species). The neighbour-joining phylogenetic analysis showed that M. figo and Magnolia odora clustered together as sisters to other Michelia species.

| S-EPMC7782941 | biostudies-literature

Characterization of the complete chloroplast genome of Michelia maudiae (Magnoliaceae).

Project description:Michelia maudiae is an evergreen ornamental shrub with strong aromatic flowers with great important for horticulture. In this study, the complete chloroplast genome of M. maudiae was assembled based on the Illumina sequences. The genome was 160,154 bp in length presenting a typical quadripartite structure and contains an inverted repeat region (IR, 26,575 bp), a large single copy region (LSC, 88,200 bp) and a small single copy region (SSC, 18,804 bp). The overall GC content was 39.24%. A total of 130 genes were identified, including 83 protein-coding genes, 38 transfer RNA genes, and eight rRNA genes. Twelve gene species contained one or two introns. The maximum-likelihood phylogenetic analysis revealed that M. maudiae was closely related with Manglietia insignis.

| S-EPMC7687539 | biostudies-literature

The complete chloroplast genome sequence of Michelia macclurei (Dandy, 1928) (Magnoliaceae), an important fire-resistant tree species.

Project description:Michelia macclurei (Dandy, 1928) is an evergreen broad-leaved tree species native to South China. This species has great ecological and economic importance. However, the genomic study of M. macclurei has lagged far behind. Here, we reported the complete chloroplast genome sequence of M. macclurei. The chloroplast genome size of M. macclurei was 160,139 bp, consisting of a pair of inverted repeat (IR) regions (26,575 bp), which was separated by a large single copy (LSC) region (88,167 bp) and a small single copy (SSC) region (18,822 bp). A total of 113 unique genes were annotated, including 79 protein-coding genes, 30 tRNA genes, and four rRNA genes. The overall GC content was 39.2%. Phylogenetic analysis based on 16 whole chloroplast genome sequences of Michelia species suggested that M. macclurei and M. maudiae are sister to each other, and jointly sister to M. chapensis.

| S-EPMC9661983 | biostudies-literature

Complete chloroplast genome sequence of Michelia champaca var. champaca Linnaeus, an ornamental tree species of Magnoliaceae.

Project description:Michelia champaca var. champaca is an ornamentally important tree in Magnoliaceae. The paper reported the complete chloroplast genome (cpDNA) of M. champaca var. champaca and its basic annotated information. The size of cpDNA is 160,008 bp, with a typical quadripartite structure of a large single-copy (LSC) region of 88,037 bp and a small single-copy (SSC) region of 18,809 bp separated by a pair identical inverted repeat regions (IRs) of 26,581 bp each. The genome contained 131 genes (113 unique), including 86 protein-coding genes (80 unique), 37 tRNA genes (29 unique), and eight rRNA genes (four unique). Phylogenetic analysis showed that M. champaca var. champaca is affinal to M. baillonii and they form a nomophyletic group with other eight Michelia species. This Michelia clade is sister to the Aromadendron cathcartii clade with high support. All genera mentioned in this analysis are nomophyletic under the system of Magnoliaceae by Sima and Lu.

| S-EPMC7782985 | biostudies-literature

The chloroplast genome sequence of Michelia alba (Magnoliaceae), an ornamental tree species.

Project description:Magnoliaceae are both economically and ornamentally important trees. Despite extensive studies in this family, the taxonomy of Michelia L. remains unclear, as well as the taxonomical status of Michelia alba. Herein, we report the complete chloroplast genome of M. alba DC. The chloroplast genome was 159,789?bp in length, with a large single-copy (LSC) region of 87,951?bp and a small single-copy (SSC) region of 18,798?bp, separated by two inverted repeat (IRs) regions of 26,570?bp. It contained 156 genes, including 83 coding genes, 68 tRNA genes, and 8 rRNA genes. The overall GC content was 39.3%, and 43.2%, 38.0%, 34.3%, in the IRs, LSC, and SSC regions, respectively. A phylogenetic analysis showed that M. alba is closely related to M. odora, with the genus Michelia nested inside Magnolia.

| S-EPMC7800174 | biostudies-literature

The complete chloroplast genome sequence of Michelia balansae var. balansae (Aug. Candolle) Dandy, a timber and spices species in Magnoliaceae.

Project description:Michelia balansae var. balansae (Aug. Candolle) Dandy is a timber and spices species in Magnoliaceae, native to China and Vietnam. In this paper, the complete chloroplast genome (cpDNA) and basic annotated information were reported and its phylogenetic relationship with other species in Magnoliaceae was analyzed. The size of chloroplast genome of M. balansae var. balansae is 160,134 bp, which exhibited a typical quadripartite structure comprising a large single-copy (LSC) region of 88,161 bp and a small single-copy (SSC) region of 18,845 bp separated by a pair identical inverted repeat regions (IRs) of 26,564 bp each. The chloroplast genome contains 131 genes, including 86 protein-coding genes (PCGs), 37 transfer RNA (tRNA) genes and 8 ribosomal RNA (rRNA) genes. The phylogenetic analysis indicated that M. balansae var. balansae is most affinal to M. montana and they form a nomophyletic group with other 14 Michelia species. This Michelia clade is sister to the Aromadendron clade with high support. All genera mentioned in this analysis are nomophyletic under the system of Magnoliaceae by Sima and Lu.

| S-EPMC7889223 | biostudies-literature