Browse
Submit Data
Databases
API
Help

Dataset Information

30 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

The complete mitochondrial genome of Iphisa elegans (Reptilia: Squamata: Gymnophthalmidae).

ABSTRACT: The complete mitogenome of the lizard Iphisa elegans Gray, 1851 was sequenced using a shotgun approach on an Illumina HiSeq 3000 platform, providing the first mitogenome for Gymnophthalmidae. The genome was 18,622 bp long, with 13 protein-coding genes, two rRNA (12S and 16S), and 22 tRNA, as well as the control region. A maximum likelihood phylogenetic analysis including I. elegans and all other available mitogenomes of Squamata provided a tree in accordance with previous phylogenetic relationships inferred for Squamata.

SUBMITTER: Vacher JP

PROVIDER: S-EPMC7782234 | biostudies-literature |

REPOSITORIES: biostudies-literature

ACCESS DATA

Json Xml

Similar Datasets

The complete mitochondrial genome of Plagiopholis styani (Reptilia: Squamata: Colubridae).

Project description:In this study, the complete mitochondrial genome of Plagiopholis styani was acquired and described. The mitogenome is a circular molecule of 19,669 base pairs (bp) in length including 13 protein-coding genes (PCGs), 22 transfer RNA (tRNA) genes, two ribosomal RNA (rRNA) genes, and two control regions (D-loop), which is similar to other Colubridae snakes. The total base composition of mitochondrial DNA is A 33.0%, C 24.9%, G 12.8%, and T 29.3%. The mitochondrial genome of Plagiopholis styani contributes to revealing the phylogenetic relationships among species of the Colubridae family.

| S-EPMC8477961 | biostudies-literature

The complete mitochondrial genome of Eremias yarkandensis (Reptilia, Squamata, Lacertidae) from Kyrgyzstan.

Project description:The Yarkand racerunner, Eremias yarkandensis Blandford, 1875, is only distributed in China and Kyrgyzstan. Its complete mitogenome was determined by next-generation sequencing for the first time. The mitogenome was 18,743 bp in length, including 13 protein-coding genes (PCGs), two ribosomal RNA genes, 22 transfer RNA genes, and 1 control region. Its gene arrangement was similar to the typical mtDNA of vertebrates. The 13 concatenated PCGs were used to perform Bayesian phylogenetic analyses together with several congeners as well as two representative species of Lacerta with mitogenome data in GenBank. The resulting phylogenetic tree recovered the monophyly of both Eremias and its viviparous group, with E. yarkandensis being more closely related to E. przewalskii than to E. dzungarica. The mitogenome of E. yarkandensis will provide fundamental data for the exploration of the mitogenome evolution in racerunners.

| S-EPMC8896179 | biostudies-literature

The complete mitochondrial genome of Eremias dzungarica (Reptilia, Squamata, Lacertidae) from the Junggar Basin in Northwest China.

Project description:The complete mitochondrial genome (mitogenome) of Eremias dzungarica from the Junggar Basin in Northwest China was determined for the first time by next-generation sequencing. The total length is 19,899 bp, containing13 protein-coding genes (PCGs), two ribosomal RNA genes, 22 transfer RNA genes and one control region. This gene arrangement is similar to the typical mtDNA of vertebrates. The 13 concatenated PCGs were used to perform Bayesian phylogenetic analyses together with several congeners as well as ten representative lacertids with mitogenome data available in GenBank. The resulting phylogenetic tree supports the monophyly of viviparous species in Eremias, with E. dzungarica being more closely related to E. przewalskii than to E. multiocellata. The mitogenome of E. dzungarica will provide fundamental data for the exploration of the mitogenome evolution in lacertids.

| S-EPMC8208112 | biostudies-literature

Next-generation sequencing yields a nearly complete mitochondrial genome of Plestiodon liui (Reptilia, Squamata, Scincidae) endemic to China.

Project description:The Liu's skink, Plestiodon liui, is endemic to China. In this study, a nearly complete mitochondrial genome (mitogenome) (17,643 bp in length) of P. liui from Junzhang Mountain, Wuxi, Jiangsu province, China, was determined by next-generation sequencing. Similar to the typical mtDNA of vertebrates, it contained two ribosomal RNA genes, 13 protein-coding genes (PCGs), 22 transfer RNA genes, and one control region (CR). With exception to the CR, all of the 37 genes were completely recovered. The PCGs were used to perform Bayesian phylogenetic analyses together with other scincid lizards with mitogenome data in GenBank. The resulting phylogenetic tree supported the monophyly of the P. capito group, and suggested that P. liui is the sister taxon to P. capito plus P. tunganus. The mitogenome of P. liui will provide fundamental data for the exploration of the mitogenome evolution in skinks.

| S-EPMC7646586 | biostudies-literature

Sequencing and analysis of mitochondrial genome of Elaphe carinata (Reptilia, Squamata, Colubridae).

Project description:The complete mitochondrial genome of Elaphe carinata was sequenced and analysed using muscle tissue for the first time. The genome is 17 154 bp in length. The complete mitochondrial genome contains 22 tRNA genes, 13 protein-coding genes (PCGs), two rRNA genes, two control regions (CRI and CRII) and one putative origin of L-strand replication. The gene order and nucleotide composition of E. carinata are very similar with E. davidi, E. schrenckii, E. anomala and E. bimaculata. A phylogenetic tree of mitochondrial genomes analyses of 16 species snakes of Colubridae was made based on the Neighbour-Joining (NJ) method, E. carinata has the most closely relationship with E. davidi, while E. poryphyracea and Euprepiophis perlacea are special species.

| S-EPMC7800545 | biostudies-literature

The complete mitochondrial DNA sequence and the phylogenetic position of Rhabdophis tigrinus (Reptilia: Squamata).

Project description:The complete mitochondrial genome of Rhabdophis tigrinus (Reptilia: Squamata) is presented for the first time in this study. It is a circular molecule of 17 415 bp in length (GenBank accession no. KU641019), consisting of 13 protein-coding genes, 22 transfer RNA genes, two ribosomal RNA genes (12S and 16S rRNA) and two control regions (D-loop), with the typical gene order and direction of transcription in Serpentes. The overall base composition is 33.65% A, 26.70% C, 13.16% G and 26.49% T. Mitochondrial genomes analyses based on NJ method yield phylogenetic trees, including 14 reported snakes belonging to four families (Colubridae, Elapidae, Viperidae and Typhlopidae). These molecular data presented here provide a useful tool for systematic analyses of genus Rhabdophis and family Colubridae.

| S-EPMC7800361 | biostudies-literature

Formal recognition of the species of Oreosaurus (Reptilia, Squamata, Gymnophthalmidae) from the Sierra Nevada de Santa Marta, Colombia.

Project description:Oreosaurus is one of the two genera extracted from the former Riamasensu lato, which was recently recognized as polyphyletic. Oreosaurus is a small clade (five named and two undescribed species) of montane gymnophthalmid lizards and exhibits an exceptional distributional pattern. Its nominal and undescribed species are discontinuously distributed on the Cordillera de la Costa of Venezuela, the tepuis from the Chimantá massif in Venezuela, the highlands of the island of Trinidad, and the Sierra Nevada de Santa Marta in Colombia (SNSM). Herein, we describe the species of Oreosaurus that is endemic to the SNSM. Historically, this species associates with two names that are currently nomina nuda: Proctoporus serranus and P. specularis. Formal nomenclatural recognition of Oreosaurus serranussp. n. renders specularis a permanently unavailable name for this taxon. Oreosaurus serranussp. n. is the sister of all remaining congeners, and differs primarily from them in having only one pair of genial scales, as well as a unique pattern of scutellation. We provide an identification key to the species of Oreosaurus.

| S-EPMC5672716 | biostudies-literature

The complete mitochondrial genome of Goniurosaurus varius (Squamata: Eublepharidae)

Project description: Not available

| S-EPMC10796122 | biostudies-literature

Complete mitochondrial genome of Laudakia sacra (Reptilia: Agamidae).

Project description:The complete mitochondrial genome (mitogenome) sequence of Laudakia sacra was determined by using a PCR-based method. The total length of mitogenome is 16,555?bp, and contains 13 typical vertebrate protein-coding genes, 22 transfer RNA genes, 2 ribosomal RNA genes and 2 control regions. Only ND6 gene and 8 tRNA genes on the L-strand other than are encoded on the H-strand. The phylogenetic tree of L. sacra and 13 other species were built. The DNA data present here will facilitate future taxonomic work of the genus Laudakia.

| S-EPMC7687532 | biostudies-literature

Complete mitochondrial genomes of Boigakraepelini and Hebiuscraspedogaster (Reptilia, Squamata, Colubridae) and their phylogenetic implications.

Project description:The complete sequence of the mitochondrial genome is a powerful tool for studying phylogenetic relationships and molecular evolution in various species. In this work, the mitogenomes of Boigakraepelini and Hebiuscraspedogaster were sequenced and characterized for the first time. The lengths of the B.kraepelini and H.craspedogaster mitogenomes were 17,124 bp and 17,120 bp, respectively, and both included 13 protein-coding genes, 22 tRNAs, two rRNAs and two control regions. The arrangements of these mitochondrial genes were the same in B.kraepelini and H.craspedogaster. In addition, both genome compositions showed A+T bias (59.03%, 60.93%) and had positive AT skews (0.179, 0.117) and negative GC skews (-0.397, -0.348). The phylogenetic results illustrated a close relationship between B.kraepelini and the genus Lycodon. Moreover, H.craspedogaster was clustered with other Hebius snakes and closely related to other Natricinae species. These results will provide references for further research on the phylogeny of Colubridae.

| S-EPMC9836618 | biostudies-literature

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

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