Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Complete plastome sequence of Osmanthus armatus and phylogenetic implications in Oleaceae.

ABSTRACT: Osmanthus armatus (Oleaceae) is mainly distributed in the southwest of China and also planted in arboretums as an ornamental plant. In the present study, the plastome of O. armatus was reconstructed using genome skimming sequencing, and the phylogeny analysis was inferred based on whole plastome data. The plastome of O. armatus is 155,259?bp in length, comprising two copies of inverted regions (IR, 25,680?bp) separated by the large single copy (LSC, 86,534?bp) and small single copy (SSC, 17,365?bp) regions. The genome encodes 114 unique genes, including 80 different protein-coding genes, 30 tRNA genes, and four rRNA genes, with 20 duplicated genes in the IR regions. Phylogenetic analysis suggests that the representative species from Osmanthus is monophyletic, and O. armatus is sister to O. fragrans within this genus.

SUBMITTER: Du Y

PROVIDER: S-EPMC7706894 | biostudies-literature | 2019 Sep

REPOSITORIES: biostudies-literature

ACCESS DATA

Json Xml

Publications

Complete plastome sequence of Osmanthus armatus and phylogenetic implications in Oleaceae.

Du Yingxue Y Li Rui R Zhang Qingde Q

Mitochondrial DNA. Part B, Resources 20190919 2

Osmanthus armatus (Oleaceae) is mainly distributed in the southwest of China and also planted in arboretums as an ornamental plant. In the present study, the plastome of O. armatus was reconstructed using genome skimming sequencing, and the phylogeny analysis was inferred based on whole plastome data. The plastome of O. armatus is 155,259 bp in length, comprising two copies of inverted regions (IR, 25,680 bp) separated by the large single copy (LSC, 86,534 bp) and small sing ...[more]

PMID: 33365865

Similar Datasets

The complete mitochondrial genome of Osmanthus fragrans (Lamiales, Oleaceae) from China.

Project description:Osmanthus fragrans is a well-known ornamental tree with high medicinal and edible values. In this study, the complete mitochondrial genome sequence of O. fragrans was assembled, annotated, and analyzed using phylogenomic methods. The complete mitochondrial genome of O. fragrans was 563,202 bp in length and displays an overall GC content of 44.58%. Sixteen chloroplast-derived segments with an average length of 1260 bp were identified. The complete mitochondrial genome contained 74 genes in total, including 44 protein-coding, three rRNA, and 27 tRNA genes, among which seven protein-coding and six tRNA genes were chloroplast-derived. Phylogenetic analysis showed that O. fragrans was closely related to Chionanthus rupicola within the Oleaceae. This study could provide genomic resources for a better understanding of O. fragrans and further studies on the evolution of Oleaceae.

| S-EPMC8218839 | biostudies-literature

Osmanthus armatus

Project description:Osmanthus armatus overview

| PRJNA556078 | ENA

Osmanthus armatus

Project description:Osmanthus armatus Genome sequencing and assembly

| PRJNA555392 | ENA

Osmanthus armatus

Project description:Osmanthus armatus Genome sequencing and assembly

| PRJNA555396 | ENA

The complete chloroplast genome sequence of Chrysojasminum subhumile and its phylogenetic position within Oleaceae.

Project description:We assembled and characterized the complete chloroplast genome sequence of Chrysojasminum subhumile (W.W.Sm.) Banfi & Galasso 2014, a valuable horticultural and medicinal plant species. The total genome size was 159,918 bp in length and the GC content was 37.4%. It displayed a circular structure and could be divided into a large single-copy region, a small single-copy region, and a pair of inverted repeat regions. The genome encoded a total of 131 unique genes, including 82 protein-coding genes, 41 tRNA genes, and eight rRNA genes. Among these genes, 17 contained a single intron, and two genes had two introns. Phylogenetic analysis results showed that C. subhumile was closely related to Jasminum.

| S-EPMC10281350 | biostudies-literature

The complete plastome sequence of Tanakaea radicans (Saxifragaceae) and its phylogenetic analysis.

Project description:Tanakaea radicans is classified in the monotypic genus Tanakaea in the Saxifragaceae. It is a small, evergreen plant with a disjunct distribution in Japan and China. Here, we report and characterize for the first time the complete plastid genome sequence of T. radicans. The chloroplast genome is 155,265 bp in length and contains a pair of inverted repeats (25,794 bp) separated by a large single copy (86,289 bp) and a small single copy (17,388 bp). A total of 113 unique genes, including 79 protein-coding, 30 tRNA, and four rRNA genes, were annotated. Phylogenetic analysis showed that T. radicans was sister to Leptarrhena pyrolifolia within Huecheroids linage of Saxifragaceae.

| S-EPMC7971345 | biostudies-literature

Genetic diversity of androdioecious Osmanthus fragrans (Oleaceae) cultivars using microsatellite markers.

Project description:For cultivar classification, identification, and genetic improvement, microsatellite markers were developed to analyze the genetic diversity of androdioecious Osmanthus fragrans cultivars. • Fifteen microsatellite markers were developed from sequences downloaded from the National Center for Biotechnology Information, which included two with null alleles. These primers were screened on 62 typical androdioecious O. fragrans cultivars belonging to four groups (Asiaticus, Albus, Luteus, and Aurantiacus). The number of alleles ranged from two to six, with a mean of 3.7 per locus. The observed and expected heterozygosities ranged from 0.1000 to 0.9091 and from 0.1287 to 0.9167, respectively. Results from structure analyses indicated that Asiaticus and Albus were genetically mixed, and Luteus and Aurantiacus were partially genetically differentiated. • These markers will be useful for genetic study of androdioecious O. fragrans cultivars and facilitate cultivar classification, particularly for the cultivar groups Luteus and Aurantiacus.

| S-EPMC4105023 | biostudies-literature

The complete plastome sequence of Illigera grandiflora.

Project description:Illigera grandiflora, a kind of traditional medicinal liana, belongs to the Illigera Blume of the Hernandiaceae. In this study, we reported the characteristics of complete plastome for I. grandiflora. Its total plastome was 156,138 bp in length, comprising a large single-copy region(LSC) of 84,931 bp, a small single-copy region (SSC) of 18,544 bp, and a pair of inverted repeat (IR) regions of 26,549 bp. The overall GC content was 39.16% (LSC, 37.77%; SSC, 33.89%; IR, 43.21%). The plastome encoded 134 genes, including 83 protein-coding genes, 42 transfer RNA genes, and 10 ribosomal RNA genes. The relationships in our phylogeny showed that the two Illigera species are located in the same clade, with Hernandia nymphaeifolia being the next sister group, followed by Wilkiea huegeliana.

| S-EPMC8284138 | biostudies-literature

The complete chloroplast genome sequence of Zelkova sinica and phylogenetic implications in Rosales

Project description:Abstract Zelkova sinica is a popular landscape plant in China because of its wide adaptation, strong disease resistance, large crown and beautiful fall color. Here, we assembled the complete chloroplast (cp) genome of Z. sinica based on genome skimming data. The cp genome is 158,924 bp in length including two copies of inverted region (IR, 26,427 bp) separated by the large single copy (LSC, 87,318 bp) and small single copy (SSC, 18,752 bp) regions. It encodes 111 unique genes, containing 77 protein-coding genes, 30 tRNA genes, and 4 rRNA genes, with 18 duplicated genes in the IR regions. Phylogenetic analysis shows that Z. sinica is sister to Z. schneideriana in Ulmaceae family.

| S-EPMC8567943 | biostudies-literature

The complete plastome sequence of Lilium Bulbiferum (Liliaceae).

Project description:The flower shape of Lilium bulbiferum L. is different from that of the other European lilies. The phylogenetic position of the plant has been changed frequently. In the present study, we have sequenced the complete plastome of L. bulbiferum. The plastome sequence was 152,686?bp long, with a large single copy (LSC) region of 82,083?bp, a small single copy (SSC) region of 17,619?bp, and two inverted repeat (IR) regions of 26,492?bp each. It contained 133 genes, including 83 coding genes, 8 ribosomal RNAs, 38 transfer RNAs, and 4 pseudogenes. The GC contents of LSC, SSC, and IT were 34.8%, 30.7%, and 42.5%, respectively, corresponding to 37.0% of the total GC content. The phylogenetic position of L. bulbiferum was closely related to the north-eastern lilies.

| S-EPMC7800588 | biostudies-literature