Zootoca vivipara
Ontology highlight
ABSTRACT:
PROVIDER: PRJNA484040 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| Other | ||||
| CAUOQL01.dat.gz | Other | |||
| CAUOQL01.fasta.gz | Fasta.gz | |||
| CAUOQL01.master.dat | Other | |||
| CAUOQM01.dat.gz | Other |
Items per page: 5 1 - 5 of 1154 |
Similar Datasets
Project description:Chromosome-level assembly of the common lizard (Zootoca vivipara) genome
| PRJNA610958 | ENA
Project description:Transcriptome sequences of Eleocharis vivipara
| PRJDB3464 | ENA
Project description:Poecilia vivipara exposed to sanitary sewage
| PRJNA497092 | ENA
Project description:Isometra vivipara Transcriptome or Gene expression
| PRJNA299471 | ENA
Project description:Squamate reptiles exhibit high variation in their phenotypic traits and geographical distributions and are therefore fascinating taxa for evolutionary and ecological research. However, genomic resources are very limited for this group of species, consequently inhibiting research efforts. To address this gap, we assembled a high-quality genome of the common lizard, Zootoca vivipara (Lacertidae), using a combination of high coverage Illumina (shotgun and mate-pair) and PacBio sequencing data, coupled with RNAseq data and genetic linkage map generation. The 1.46-Gb genome assembly has a scaffold N50 of 11.52 Mb with N50 contig size of 220.4 kb and only 2.96% gaps. A BUSCO analysis indicates that 97.7% of the single-copy Tetrapoda orthologs were recovered in the assembly. In total, 19,829 gene models were annotated to the genome using a combination of ab initio and homology-based methods. To improve the chromosome-level assembly, we generated a high-density linkage map from wild-caught families and developed a novel analytical pipeline to accommodate multiple paternity and unknown father genotypes. We successfully anchored and oriented almost 90% of the genome on 19 linkage groups. This annotated and oriented chromosome-level reference genome represents a valuable resource to facilitate evolutionary studies in squamate reptiles.
| S-EPMC7643610 | biostudies-literature
Project description:Liparis vivipara is a terrestrial orchid distributes in southwestern China. In this study, we reported the first complete chloroplast genome of L. vivipara. The whole genome was 158,329?bp, consisting of a pair of inverted repeats (IR 27,043?bp), a large single-copy region (LSC 85,950?bp), and a small single-copy region (SSC 18,293?bp). The complete genome contained 132 genes, including 77 protein-coding genes, 38 tRNA, and 8 rRNA genes. The overall GC content of the whole genome was 36.9%. A maximum-likelihood phylogenetic analysis demonstrated a close relationship between L. vivipara and L. loeselii.
| S-EPMC7687627 | biostudies-literature
Project description:South American cyprinodontiform fish are potential candidates to be used as model biomarker species of exposure in environmental toxicology. The aim of this study was to identify molecular and biochemical biomarkers of pollution using Poecilia vivipara (Poecilidae) and Jenynsia multidentata (Anablepidae). Partial nucleotide sequences for cytochrome P-450 1A (CYP1A), a classical biomarker of exposure to organic contaminants in fish, were identified in P. vivipara and J. multidentata (approximately 650 nucleotides) using degenerated primers and polymerase chain reaction (PCR). These sequences shared approximately 90% identity in the predicted amino acid sequence with the corresponding CYP1A region of Fundulus heteroclitus. Real-time quantitative PCR (RT-qPCR) analysis confirmed that CYP1A transcription was markedly induced in the liver and gills of J. multidentata (approximately185-fold and 20-fold, respectively) and P. vivipara (122-fold and 739-fold, respectively) 24 h after exposure to 1 ?M synthetic CYP1A inducer ?-naphthoflavone (BNF). At 24 h after injection with 1 ?g/g environmental carcinogenic contaminant benzo[a]pyrene (BaP), a decreased total antioxidant capacity against peroxyl radicals was observed both in liver of J. multidentata and gills of P. vivipara. BaP injection in both fish did not produce changes in lipid peroxide (thiobarbituric acid-reactive substances, TBARS) levels, suggesting an absence of an oxidative stress condition. The newly identified CYP1A may thus serve as general biomarker of exposure to organic contaminant in future studies using P. vivipara and J. multidentata. Data also indicate the importance of species-specific differences in biomarker responses in these South American cyprinodontiform fish, suggesting distinct resistance/susceptibility properties to polycyclic aromatic hydrocarbons.
| S-EPMC5348254 | biostudies-literature