Browse
Submit Data
Databases
API
Help

Dataset Information

22 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Complete mitochondrial genome of the radicine pond snail Radix plicatula (Gastropoda: Lymnaeidae).

ABSTRACT: Radix plicatula is broadly distributed in China, as well as Russia. It is one of the intermediate hosts of Fasciola species which leads to the spread of fascioliasis. Here, we first described the complete mitochondrial genome of R. plicatula. The mitogenome is 13,751?bp in length, containing 13 protein-coding genes, 22 tRNA genes, and 2 rRNA genes. The contents of each base are 30.7% A, 39.6% T, 15.7% G, and 13.9% C. The sequence is AT rich (70.3%). Mitochondrial phylogenomic analysis showed that R. plicatula is close to R. auricularia.

SUBMITTER: Qin DM

PROVIDER: S-EPMC7706513 | biostudies-literature | 2019 Sep

REPOSITORIES: biostudies-literature

ACCESS DATA

Json Xml

Publications

Complete mitochondrial genome of the radicine pond snail Radix plicatula (Gastropoda: Lymnaeidae).

Qin Dong-Mei DM Huang Xiao-Chen XC Yang Li-Min LM Liu Xiong-Jun XJ Wu Rui-Wen RW Ouyang Shan S Wu Xiao-Ping XP Wang Shang-Hong SH

Mitochondrial DNA. Part B, Resources 20190906 2

Radix plicatula is broadly distributed in China, as well as Russia. It is one of the intermediate hosts of Fasciola species which leads to the spread of fascioliasis. Here, we first described the complete mitochondrial genome of R. plicatula. The mitogenome is 13,751 bp in length, containing 13 protein-coding genes, 22 tRNA genes, and 2 rRNA genes. The contents of each base are 30.7% A, 39.6% T, 15.7% G, and 13.9% C. The sequence is AT rich (70.3%). Mitochondrial phylogenomi ...[more]

PMID: 33365763

Similar Datasets

The complete mitochondrial genome of the apple snail Pomacea maculate (Gastropoda: Ampullariidae).

Project description:We present the complete mitochondrial genome of Pomacea maculate in this study. The mitochondrial genome is 15,512?bp in length, containing 13 protein-coding genes, 2 rRNA genes, 22 tRNA genes. Overall nucleotide compositions of the light strand are 41.13% of A, 30.81% of T, 15.25% of C and 12.81% of G. Its gene arrangement and distribution are different from the typical vertebrates. The absence of D-loop is consistent with the Gastropoda, but at least one lengthy non-coding region is essential regulatory element for the initiation of transcription and replication. Phylogenetic tree is constructed by the maximum-likelihood method based on the complete mitochondrial genomes of 15 species of Caenogastropoda, using Helix aspersa as outgroup to assess their actual phylogenetic relationship and evolution. The result provides fundamental data for resolving phylogenetic and genetic problems related to effective management strategies.

| S-EPMC7800453 | biostudies-literature

The complete mitochondrial genome of the golden apple snail Pomacea canaliculata (Gastropoda: Ampullariidae).

Project description:We present the complete mitochondrial genome of Cipangopaludina cathayensis in this study. The mitochondrial genome is 15?706 bp in length, containing 13 protein-coding genes, two rRNA genes and 22 tRNA genes. Overall nucleotide compositions of the light strand are 40.97% of A, 30.78% of T, 20.48% of C and 12.60% of G. Its gene arrangement and distribution are different from the typical vertebrates. The absence of D-loop is consistent with the Gastropoda, but, at least, one lengthy non-coding region is an essential regulatory element for the initiation of transcription and replication. A phylogenetic tree is constructed using the maximum-likelihood method based on the complete mitogenomes of the closely related 21 Gastropoda species to assess their actual phylogenetic relationship and evolution. The result provides fundamental data for resolving phylogenetic and genetic problems related to effective management strategies.

| S-EPMC7800459 | biostudies-literature

The complete mitochondrial genome of the file ramshorn snail Planorbella pilsbryi (Mollusca: Gastropoda: Hygrophila: Planorbidae)

Project description:Abstract The file ramshorn snail Planorbella pilsbryi Baker, 1926 (Gastropoda: Hygrophila: Planorbidae) is a widespread herbivorous North American freshwater snail found in diverse habitats, including standing and moving water bodies. Genome skimming by Illumina sequencing allowed the assembly of a complete nuclear rRNA repeat sequence and a complete circular mitogenome of 13,720 bp from P. pilsbryi consisting of 75.3% AT nucleotides, 22 tRNAs, 13 protein-coding genes, 2 rRNAs and a control region in the typical order found in panpulmonate snails. Planorbella pilsbryi COXI features a rare TTG start codon while COXII, CYTB, ND2, ND3, and ND5 exhibit incomplete stop codons completed by the addition of 3′ A residues to the mRNA. Phylogenetic reconstruction of mitochondrial protein-coding gene and rRNA sequences places P. pilsbryi as sister taxon to Planorbella duryi (Planorbidae) within family Planorbidae, which is consistent with previous phylogenetic hypotheses.

| S-EPMC8567931 | biostudies-literature

The complete mitochondrial genome of Galba pervia (Gastropoda: Mollusca), an intermediate host snail of Fasciola spp.

Project description:Complete mitochondrial (mt) genomes and the gene rearrangements are increasingly used as molecular markers for investigating phylogenetic relationships. Contributing to the complete mt genomes of Gastropoda, especially Pulmonata, we determined the mt genome of the freshwater snail Galba pervia, which is an important intermediate host for Fasciola spp. in China. The complete mt genome of G. pervia is 13,768 bp in length. Its genome is circular, and consists of 37 genes, including 13 genes for proteins, 2 genes for rRNA, 22 genes for tRNA. The mt gene order of G. pervia showed novel arrangement (tRNA-His, tRNA-Gly and tRNA-Tyr change positions and directions) when compared with mt genomes of Pulmonata species sequenced to date, indicating divergence among different species within the Pulmonata. A total of 3655 amino acids were deduced to encode 13 protein genes. The most frequently used amino acid is Leu (15.05%), followed by Phe (11.24%), Ser (10.76%) and IIe (8.346%). Phylogenetic analyses using the concatenated amino acid sequences of the 13 protein-coding genes, with three different computational algorithms (maximum parsimony, maximum likelihood and bayesian analysis), all revealed that the families Lymnaeidae and Planorbidae are closely related two snail families, consistent with previous classifications based on morphological and molecular studies. The complete mt genome sequence of G. pervia showed a novel gene arrangement and it represents the first sequenced high quality mt genome of the family Lymnaeidae. These novel mtDNA data provide additional genetic markers for studying the epidemiology, population genetics and phylogeographics of freshwater snails, as well as for understanding interplay between the intermediate snail hosts and the intra-mollusca stages of Fasciola spp..

| S-EPMC3406003 | biostudies-literature

Complete mitochondrial genome of the apple snail Pomacea diffusa (Gastropoda, Ampullariidae) with phylogenetic consideration.

Project description:We present the complete mitochondrial genome of Pomacea diffusa in this study. The results show that the mitochondrial genome is 16,640?bp in length, which is comprised of 13 protein-coding genes, two rRNA genes, and 21 tRNA genes. The nucleotide compositions of the light strand are 39.62% of A, 30.13% of T, 16.02% of C, and 14.24% of G. Except eight tRNA (Glu, Gly, Trp, Cys, Tyr, Met, Thr, Val) on the light strand, the rest are encoded on the heavy strand. All the protein-coding genes start with ATC initiation codon, and two types of inferred termination codons are TAA and TAG. There are 26 intergenic spacers and two gene overlaps. The phylogenetic analysis shows that P. diffusa clusters with P. canaliculata and P. maculata with high bootstrap support, which is consistent with the morphological and molecular evidence.

| S-EPMC7800437 | biostudies-literature

The complete mitochondrial genome of the freshwater snail Cipangopaludina ampullacea (Kuster, 1852) (Gastropoda: Viviparidae).

Project description:Cipangopaludina ampullacea (Küster, 1852) is a freshwater snail endemic to China. In this study, the complete mitochondrial genome of C. ampullacea was sequenced using next-generation sequencing. The mitogenome is 16,892 bp long and comprises a total of 37 genes, including 13 protein-coding genes, two rRNA genes, and 22 tRNA genes. It is consistent with the basic characteristics of other known viviparid mitochondrial genomes. Phylogenetic analysis using related species mitogenomes showed that Cipangopaludina and Margarya are mutually non monophyletic. Our study provides valuable information to reconstruct the taxonomy and evolution of viviparid snails more comprehensively.

| S-EPMC9448366 | biostudies-literature

Species Richness, Molecular Taxonomy and Biogeography of the Radicine Pond Snails (Gastropoda: Lymnaeidae) in the Old World.

Project description:The radicine pond snails represent a species-rich and widely distributed group, many species of which are key vectors of human and animal trematodoses. Here we clarify the taxonomy, distribution and evolutionary biogeography of the radicine lymnaeids in the Old World based on the most comprehensive multi-locus molecular dataset sampled to date. We show that the subfamily Amphipepleinae is monophyletic and contains at least ten genus-level clades: Radix Montfort, 1810, Ampullaceana Servain, 1881, Peregriana Servain, 1881, Tibetoradix Bolotov, Vinarski & Aksenova gen. nov., Kamtschaticana Kruglov & Starobogatov, 1984, Orientogalba Kruglov & Starobogatov, 1985, Cerasina Kobelt, 1881, Myxas G. B. Sowerby I, 1822, Bullastra Bergh, 1901, and Austropeplea Cotton, 1942. With respect to our phylogeny, species-delimitation model and morphological data, the Old World fauna includes 35 biological species of radicines. Tibet and Eastern Europe harbor the richest faunas, while East Asia and Africa appear to be the most species-poor areas. The radicine clade could have originated near the Cretaceous - Paleocene boundary. The Miocene great lakes in Eurasia seems to be the most important evolutionary hotspots shaping spatial patterns of recent species richness. Finally, we present the first DNA barcode reference library for the reliable molecular identification of species within this group.

| S-EPMC6060155 | biostudies-literature

The complete mitochondrial genome of Pomacea diffusa (Gastropoda: Ampullariidae).

Project description:In this study, we analyzed the complete mitochondrial genome of the spike-topped apple snail, Pomacea diffusa Blume, 1957 (Gastropoda: Ampullariidae). The mitochondrial genome of P. diffusa was 16,373?bp, consisting 13 protein-coding genes, 2 rRNAs, and 22 tRNAs and a non-coding region with a 12?bp repeat unit. There were 29 mitochondrial genes of P. diffusa are distributed on the H-strand, and the other eight tRNA genes encoded on the L-strand. The average AT content of 13 protein-coding genes was 68.7%. A phylogenetic analysis showed that there was a close relationship between P. diffusa and invasive apple snail species, Pomacea canaliculata and Pomacea aff. maculata.

| S-EPMC7800231 | biostudies-literature

The complete mitochondrial genome of Laevistrombus canarium (Gastropoda: Stromboidae).

Project description:Laevistrombus canarium is a marine gastropod species with high economical value. The complete mitochondrial genome of L. canarium has been characterized in this study. The circular mitogenome is 15626 bp in length and comprises 13 protein-coding genes (PCGs), 22 transfer RNA genes, and two ribosomal RNA (rRNA) genes. The organization of these genes is consistent with that of other stromboidae species. The overall base composition of mitochondrial genome is 30.87% A, 38.99% T, 15.54% G, and 14.60% C, with 69.86% AT. Phylogenetic analysis further implies that L. canarium is placed within the Stromboidae.

| S-EPMC7889242 | biostudies-literature

The mitochondrial genome of the toothed top shell snail Monodonta labio (Gastropoda: Trochidae): the first complete sequence in the subfamily monodontinae.

Project description:The mitochondrial genome (mitogenome) is a powerful tool that is extensively used in genomic and phylogenetic analysis. In this study, the complete mitogenome of the toothed top shell snail (Monodonta labio) has been sequenced and annotated for the first time. The complete circular genome is 16,440 bp in length including 13 protein-coding genes, 22 transfer RNA and two ribosomal RNA genes. All of the protein-coding genes use the standard initiation codon ATN and are terminated by the termination codons TAA and TAG. All of the tRNA genes have the typical clover leaf structure, with the exception of the tRNA-Asp, which lacks aTψC arm, and tRNA-Ser(AGN), which lacks a DHU arm. Relatively short intergenic spacers and overlaps are observed in this mitogenome. Our phylogenetic tree shows that M. labio is clustered together with other species within Trochidae. The complete mitogenome of M. labio provide essential DNA data for evolutionary and phylogenetic analysis of marine gastropods.

| S-EPMC7748704 | biostudies-literature