Browse
Submit Data
Databases
API
Help

Dataset Information

13 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

The complete mitochondrial genome of the Papilio paris (Lepidoptera: Papilionidae).

ABSTRACT: In the present study, the complete sequence of the mitochondrial genome (mitogenome) of Papilio paris (Lepidoptera: Papilionidae) is described. The mitogenome (15,347 bp) of P. paris encodes 13 protein-coding genes (PCGs), 22 transfer RNA genes (tRNAs), two ribosomal RNA genes (rRNAs), and an adenine (A) + thymine (T)-rich region. Its gene complement and order is similar to that of other sequenced Lepidopterans. Phylogenetic analyses based on 13 PCGs using maximum-likelihood (ML) revealed that P. paris resides in the Papilionoidea family. This study provided the valuable evidence on phylogenetic relationship of the P. paris at the molecular level and essential resource for further research on this species.

SUBMITTER: Sun Y

PROVIDER: S-EPMC7748820 | biostudies-literature |

REPOSITORIES: biostudies-literature

ACCESS DATA

Json Xml

Similar Datasets

Complete Mitochondrial Genome of Papilio protenor (Lepidoptera, Papilionidae) and Implications for Papilionidae Taxonomy

Project description:Abstract The complete mitochondrial genome (mitogenome) of Papilio protenor (Lepidoptera: Papilionidae) was sequenced and annotated in this study. The mitogenome comprised a typical circular, double-stranded DNA molecule of 15,268 bp in length including 13 protein-coding genes (PCGs), two ribosomal RNA genes, 22 transfer RNA (tRNA) genes, and an A+T-rich region. The gene order and mitogenome orientation were similar to those of all known Papilionidae species. The nucleotide composition of the P. protenor mitogenome exhibits considerable A+T bias (80.5%) and the AT (?0.019) and GC (?0.231) skewness is slightly negative. All of the PCGs except for cytochrome c oxidase (COI) start with a canonical ATN start codon, whereas the COI gene is tentatively designated by the CGA codon. Of the 13 PCGs, 11 contain the complete stop codon TAA or TAG, whereas COI and COII were terminated with a single T nucleotide. All tRNAs exhibit the typical cloverleaf structure, except for tRNASer(AGN), which does not contain the dihydrouridine arm. The 458 bp A+T-rich region is comprised of nonrepetitive sequences including the motif ATAGA followed by a poly-T stretch and a microsatellite-like (AT)6 element preceded by the ATTTA motif. Phylogenetic analysis of the 13 PCGs data using Bayesian inference, maximum likelihood methods, and maximum parsimony support the view that the subfamily Parnassiinae is regarded as an independent subfamily within Papilionidae and that Zerynthiini should be treated as one of the two clades of the subfamily Parnassiinae along with Parnasiini. In addition, the analysis strongly supports the monophyly of the subfamily Parnassiinae.

| S-EPMC5710649 | biostudies-literature

The complete mitochondrial genome of Papilio xuthus (Lepidoptera: Papilionidae) and implications for Papilioninae taxonomy.

Project description:The complete mitochondrial genome of Papilio xuthus (Lepidoptera: Papilionidae) was determined in this study. The mitochondrial genome is a circular molecule of 15?359 and contains 37 genes including 13 protein-coding genes (PCGs), 22 transfer RNA genes, two ribosomal RNA genes and one control region. The nucleotide composition of the A. chinensis mitogenome is strongly biased toward A?+?T nucleotides (80.45%). Nine protein-coding genes and 14 tRNA genes are encoded on the H strand, and the other four protein-coding genes and eight tRNA genes are encoded on the L strand. The gene order and the orientation of their mitogenomes were similar to all know Papilionidae species. Finally, the phylogenetic relationships of 11 Papilionidae species were reconstructed based on complete mitochondrial genome using the Bayesian inference (BI) and the maximum-likelihood (ML) method. These molecular-based phylogenies support the traditional morphologically based view of relationships within the Papilionidae.

| S-EPMC7800277 | biostudies-literature

Complete mitochondrial genomes of Papilio nephelus chaon and Papilio epycides (Lepidoptera: Papilionidae: Papilioninae) and phylogenetic analysis.

Project description:The complete mitochondrial genome (mitogenome) sequences of Papilio nephelus chaon and Papilio epycides were sequenced by Illumina and analyzed in this study. They are 15,287 bp and 15,012 bp in size, respectively, and contains 13 protein-coding genes (PCGs), 22 tRNA genes (tRNAs), 2 rRNA genes (rRNAs), and 1 AT-rich control region (CR). The phylogenetic relationships of 56 species in the Papilionidae were inferred based on concatenated nucleotide sequences by using Maximum Likelihood with the selected best-fit model GTR + F+R6. The phylogenetic analysis showed that P. nephelus chaon and P. epycides were located in the genus Papilio. This study provides a basis for further study on mitogenome and phylogenetics of the Papilionidae.

| S-EPMC9258057 | biostudies-literature

The complete mitochondrial genome of Luehdorfia chinensis Leech (Lepidoptera: Papilionidae) from China.

Project description:The complete mitochondrial genome of Luehdorfia chinensis that is endemic to China is determined. The circular genome is 15?550?bp in length and comprises 13 protein-coding genes (PCGs), 22 tRNAs, two rRNA gene and a control region. Gene order is identical to that of the putative ancestral arrangement of insects. The nucleotide composition of heavy strand is A (40.3%), C (11.2%), T (41.1%) and G (7.3%). All PCGs start with a typical ATN codon except for the gene COI that uses AAC as the start codon. Bayesian analyses support the monophyly of genus Papilio and the sister relationship of Luehdorfia chinensis and L. taibai.

| S-EPMC7799615 | biostudies-literature

The complete mitochondrial genome of Parnassius mercurius Grum-Grshimailo (Lepidoptera: Papilionidae: Parnassiinae).

Project description:The mitogenome of Parnassius mercurius Grum-Grshimailo is determined to be 15,372 bp in length, including 37 typical insect mitochondrial genes and an AT-rich region. All PCGs start with ATN, except for COI with CGA; 12 of 13 PCGs harbour the common stop codon TAA or TAG, whereas COII end with a single T. The lrRNA and srRNA genes are 1344 bp and 775 bp in length, respectively. The AT-rich region contains several features characteristic of the lepidopterans. Phylogenetic analysis shows that P. mercurius is the closest relative of P. epaphus and P. nomion lineage, rather than the P. jacquemontii.

| S-EPMC7748828 | biostudies-literature

Comparative analysis on visual and olfactory signals of Papilio xuthus (Lepidoptera: Papilionidae) during foraging and courtship.

Project description:This study examined the roles of visual and olfactory responses during foraging and courtship in butterfly Papilio xuthus. P. xuthus showed obvious orientation to color in the range of 350-500 nm. Visits of P. xuthus females and males to blue, purple, and red artificial cloth flowers were ♀ 54.90% and ♂ 39.22%, ♀ 19.61% and ♂ 35.29%, and ♀ 9.80% and ♂ 19.61%, respectively. Application of 10% honey on these artificial flowers resulted in an increase of 3.41 and 3.26 fold in flower visits by the butterfly compared to controls. When 10% honey water was sprayed on flower branches without colorful flowers, branch visiting was very low, only seven times for females and two times for males, indicating that colors might be more critical than odor for foraging even though visual and olfactory perceptions both play important roles during foraging. During courtship, four types of chasing were observed in a natural population of P. Xuthus; the four types are males chasing females (49%), males chasing males (25%), females chasing males (13%), and females chasing females (10%). However, when odorless artificial models of butterflies were used, no significant differences were observed among these types of chasing, indicating that olfactory perception was crucial for the butterfly during courtship. Profiling volatile organic chemicals (VOCs) and individual bioassays revealed that VOCs contents of butterflies were not related to recognizing sex partners; by contrast, some level of α-farnesene, increased the frequency of male chasing female. This could be due to that α-farnesene is easy to be detected by butterflies because of its volatility and higher content in female.

| S-EPMC9242464 | biostudies-literature

The complete mitochondrial genome of Papilio glaucus and its phylogenetic implications.

Project description:Due to the intriguing morphology, lifecycle, and diversity of butterflies and moths, Lepidoptera are emerging as model organisms for the study of genetics, evolution and speciation. The progress of these studies relies on decoding Lepidoptera genomes, both nuclear and mitochondrial. Here we describe a protocol to obtain mitogenomes from Next Generation Sequencing reads performed for whole-genome sequencing and report the complete mitogenome of Papilio (Pterourus) glaucus. The circular mitogenome is 15,306 bp in length and rich in A and T. It contains 13 protein-coding genes (PCGs), 22 transfer-RNA-coding genes (tRNA), and 2 ribosomal-RNA-coding genes (rRNA), with a gene order typical for mitogenomes of Lepidoptera. We performed phylogenetic analyses based on PCG and RNA-coding genes or protein sequences using Bayesian Inference and Maximum Likelihood methods. The phylogenetic trees consistently show that among species with available mitogenomes Papilio glaucus is the closest to Papilio (Agehana) maraho from Asia.

| S-EPMC4475787 | biostudies-literature

Complete mitochondrial genome of the recently discovered multivoltine Graphium (Pazala) confucius Hu, Duan & Cotton, 2018 (Lepidoptera: Papilionidae).

Project description:Graphium (Pazala) confucius Hu, Duan & Cotton, 2018 is a recently discovered, wide ranging, multivoltine swordtail butterfly in China and Vietnam. The present study reports the complete mitochondrial genome of this butterfly, which is the fifth mitochondrial genome record for subgenus Pazala Moore, 1888. The mitochondrial genome of G. (P.) confucius is circular and 15,212 bp in length, and consists of 37 genes, including 13 PCGs, 22 tRNAs, and two rRNAs. The Bayesian phylogenetic tree containing the focal species and 33 other Papilioninae members clusters G. (P.) confucius with other Pazala taxa inside tribe Leptocircini, which agrees with its taxonomic position. The findings of this study added data to the complex subgenus Pazala and are beneficial to future understanding and conservation planning of butterfly diversity.

| S-EPMC8725947 | biostudies-literature

Proteome changes in the plasma of Papilio xuthus (Lepidoptera: Papilionidae): effect of parasitization by the endoparasitic wasp Pteromalus puparum (Hymenoptera: Pteromalidae).

Project description:Although the biochemical dissection of parasitoid-host interactions is becoming well characterized, the molecular knowledge concerning them is minimal. In order to understand the molecular bases of the host immune response to parasitoid attack, we explored the response of Papilio xuthus parasitized by the endoparasitic wasp Pteromalus puparum using proteomic approach. By examining the differential expression of plasma proteins in the parasitized and unparasitized host pupae by two-dimensional (2D) electrophoresis, 16 proteins were found to vary in relation to parasitization compared with unparasitized control samples. All of them were submitted to identification by mass spectrometry coupled with a database search. The modulated proteins were found to fall into the following functional groups: humoral or cellular immunity, detoxification, energy metabolism, and others. This study contributes insights into the molecular mechanism of the relationships between parasitoids and their host insects.

| S-EPMC2689557 | biostudies-literature

The complete mitogenome of the Paranticopsis xenocles (Lepidoptera: Papilionidae: Papilioninae) and phylogenetic implications

Project description:Abstract Paranticopsis xenocles Doubleday belongs to the Paranticopsis of Papilionidae and is mainly distributed in China mainland. Herein, we report the complete mitogenome of P. xenocles reconstructing from Illumina sequence data. The mitogenome is 15,187 bp in length and contains 13 protein-coding genes, 22 transfer RNA genes, and 2 ribosomal RNA genes. The phylogenetic analysis indicated that P. xenocles were clustered within Paranticopsis. This study would provide useful genetic information for future studies on taxonomy, phylogeny, and evolution of Papilionidae species.

| S-EPMC8567938 | biostudies-literature

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data