Browse
Submit Data
Databases
API
Help

Dataset Information

30 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Complete mitochondrial genome of blunt slipper lobsters Scyllarides squammosus (H. Milne Edwards, 1837).

ABSTRACT: The complete mitochondrial genome of Scyllarides squammosus was first determined and characterized. With a length of 15,644?bp, it consists of 22 tRNA genes, 2 rRNA genes, 13 protein-coding genes (PCGs), and 1 control region. The nucleotide composition is significantly biased with AT contents of 65.6%. Among these PCGs, five of them used an unusual initiation codon, and nine genes ended with an incomplete or abnormal stop codon. Two microsatellites were identified and located in COX3 gene and D-loop region. Phylogenetic analysis demonstrated that S. squammosus was first clustered with Scyllarides latus, which was consistent with the previous work.

SUBMITTER: Liu H

PROVIDER: S-EPMC7687582 | biostudies-literature | 2019 Jul

REPOSITORIES: biostudies-literature

ACCESS DATA

Json Xml

Publications

Complete mitochondrial genome of blunt slipper lobsters Scyllarides squammosus (H. Milne Edwards, 1837).

Liu Hongtao H Yang Mingqiu M He Yugui Y

Mitochondrial DNA. Part B, Resources 20190712 2

The complete mitochondrial genome of Scyllarides squammosus was first determined and characterized. With a length of 15,644 bp, it consists of 22 tRNA genes, 2 rRNA genes, 13 protein-coding genes (PCGs), and 1 control region. The nucleotide composition is significantly biased with AT contents of 65.6%. Among these PCGs, five of them used an unusual initiation codon, and nine genes ended with an incomplete or abnormal stop codon. Two microsatellites were identified and located in COX3</ ...[more]

PMID: 33365514

Similar Datasets

What is Sesarmops impressus (H. Milne Edwards, 1837) (Crustacea: Brachyura: Sesarmidae)?

Project description:The identity of the widely distributed mangrove and riverine sesarmid crab Sesarmops impressus (H. Milne Edwards, 1837) is clarified. The species has been reported from Madagascar to the South Pacific, but its taxonomy was previously confused. On the basis of morphological characters and available molecular evidence (using 16S rDNA and cytochrome oxidase subunit I), Sesarmops impressus is restricted to the western Indian Ocean and S. frontale A. Milne-Edwards, 1869 is confirmed to be its junior synonym. Sesarmops similis (Hess, 1865), long synonymised under S. impressus, is here recognised as a separate species and a neotype from Samoa is designated. The identity of the poorly known S. atrorubens (Hess, 1865), which has often been confused with S. impressus, is also clarified, and a neotype is selected from Fiji. Specimens from the eastern Indian Ocean and western Pacific are here identified as two new species, S. indicus sp. nov. and S. imperator sp. nov.

| S-EPMC7688423 | biostudies-literature

The complete mitochondrial genome of longlegged spiny lobster Panulirus longipes (A. Milne Edwards, 1868).

Project description:In this study, we first determined and characterized the complete mitochondrial genome of longlegged spiny lobster Panulirus longipes from South China Sea. The P. longipes mitogenome is 15,739 bp long, and consists of 22 tRNA genes, two rRNA genes, 13 protein-coding genes (PCGs), and one control region. The nucleotide composition of P. longipes mitogenome is significantly biased (A, G, T, and C was 32.06%, 14.36%, 32.42%, and 21.16%, respectively) with A + T contents of 64.48%. Among 13 PCGs, COX1 gene used an unusual initiation codon CAA, COX1, COX2, ND4 and CYTB genes were ended with an incomplete stop codon T, and ND5 gene with an abnormal stop codon ATT. One microsatellite (C)10 was identified in P. longipes mitogenome located in the control region. Phylogenetic tree showed that P. longipes was first clustered with Panulirus cygnus, then together with P. japonicus and P. argus.

| S-EPMC7928049 | biostudies-literature

Spatio-temporal migratory dynamics of Jasus frontalis (Milne Edwards, 1837) in Alexander Selkirk Island, Juan Fernandez archipelago, Chile.

Project description:Knowledge about the spatial patterns and movements of crustaceans has gained importance since the creation of marine protected areas and the development of spatial management for benthic ecosystems. The Juan Fernández spiny lobster (Jasus frontalis) is an endemic marine species and most valuable resource that exhibits migratory dynamics in a highly spatially regulated fishery. To study movement patterns around Alexander Selkirk Island, a mark-recapture program was implemented in 2008, when approximately 7000 non-commercial (undersized) lobsters were tagged and followed for nearly 14 months. Using quantitative georeferenced data, this study revealed spatial structuring of Juan Fernández spiny lobster and tested hypotheses about alongshore and inshore-offshore movements. Eight clusters were identified around Alexander Selkirk Island, with moderate time-varying connectivity between them. Seasonal inshore-offshore movements were detected all around the island, but more conspicuously to the north. Average travelling distance was 1.2 km (1.7 sd). Our results confirmed that towards the end of austral spring males and females embark in a seasonal offshore migration to deeper waters, returning to shallower waters only during winter. These findings quantitatively consolidate the conceptual migratory model that local fishermen had already inferred for this resource from about a century of sustainable fishing.

| S-EPMC6059422 | biostudies-literature

Complete mitochondrial genome sequences of Physogyralichtensteini (Milne Edwards & Haime, 1851) and Plerogyrasinuosa (Dana, 1846) (Scleractinia, Plerogyridae): characterisation and phylogenetic analysis.

Project description:In this study, the whole mitochondrial genomes of Physogyralichtensteini and Plerogyrasinuosa have been sequenced for the first time. The length of their assembled mitogenome sequences were 17,286 bp and 17,586 bp, respectively, both including 13 protein-coding genes, two tRNAs, and two rRNAs. Their mitogenomes offered no distinct structure and their gene order were the same as other typical scleractinians. Based on 13 protein-coding genes, a maximum likelihood phylogenetic analysis showed that Physogyralichtensteini and Plerogyrasinuosa are clustered in the family Plerogyridae, which belongs to the "Robust" clade. The 13 tandem mitogenome PCG sequences used in this research can provide important molecular information to clarify the evolutionary relationships amongst stony corals, especially at the family level. On the other hand, more advanced markers and more species need to be used in the future to confirm the evolutionary relationships of all the scleractinians.

| S-EPMC9848633 | biostudies-literature

Complete mitochondrial genome of sculptured slipper lobster Parribacus antarcticus (Lund, 1793).

Project description:We first determined and characterized the complete mitochondrial genome of Parribacus antarcticus. It is 15,806 bp long and consists of 22 tRNA, 2 rRNA, 13 protein-coding genes (PCGs), and 1 control region. The nucleotide composition is significantly biased with AT contents of 69.3%. Five PCGs used an unusual initiation codon, and nine PCGs were terminated with an incomplete or abnormal stop codon. Three microsatellites were identified and located in the ND 4 gene and D-loop region. Phylogenetic tree showed that P. antarcticus was first clustered with Ibacus ciliatus and Ibacus alticrenatus, which is consistent with the expected phylogenetic relationship.

| S-EPMC7687628 | biostudies-literature

The complete mitochondrial genome of milk shark, Rhizoprionodon acutus (Ruppell 1837).

Project description:The complete mitogenome sequence of the milk shark, of which Rhizoprionodon acutus was determined using long PCR. The genome was 16,693 bp in length and it contained 13 protein-coding genes, 2 ribosomal RNA genes, 22 transfer RNA genes, and 1 D-loop region. The overall base composition of the heavy strand is A (31.63%), C (23.91%), T (31.38%), and G (13.08%). However, the base composition of A (31.38%), C (13.08%), T (31.63%), and G (23.91%) was in the light strand. Except for that COXI began with GTG, all the protein initiation codons were ATG. What's more, all the protein termination codons were TAA, in addition to ND2, ND3, and Cytb ended with TAG, COXII and ND4 finished only with T, and ND6 with AGG. Moreover, based on thirteen concatenated PCGs nucleotide datasets, the phylogenetic analysis showed high value support for the following sister clade among the two genera (Rhizoprionodon acutus, Rhizoprionodon; Scoliodon macrorhynchos and Scoliodon laticaudus, Scoliodon).

| S-EPMC7755320 | biostudies-literature

The complete mitochondrial genome of Aesop slipper lobster Scyllarides haanii (De Haan, 1841).

Project description:The complete mitochondrial genome of Scyllarides haanii from South China Sea was first determined and characterized. With a length of 15,666 bp, the circular mitogenome of S. haanii consists of 22 tRNA genes, two rRNA genes, 13 protein-coding genes (PCGs), and one control region. The nucleotide composition is significantly biased (A, G, T, and C was 32.05%, 12.45%, 33.97%, and 21.53%, respectively) with A + T contents of 66.02%. Two PCGs used an unusual initiation codon, and five PCGs were ended with an uncomplete or abnormal stop codon. One microsatellite was identified in the mitogenome located in ND4 gene. Phylogenetic analysis demonstrated that S. haanii was first clustered with Scyllarides squammosus, then together with Scyllarides latus.

| S-EPMC7782161 | biostudies-literature

Understanding the Symbiotic Relationship between the Sea Urchin Loxechinus albus (Molina, 1782) and the Pea Crab Pinnaxodes chilensis (H. Milne Edwards, 1837): a Potential Parasitism.

Project description:The echinoderm Loxechinus albus has a symbiotic relationship with the pinnotherid crustacean Pinnaxodes chilensis. Females of the crustacean develop in the terminal section of the sea urchin's digestive system, remaining there for life. This relationship has been suggested as commensalism. However, a potential negative impact on gonadal development and on the morphology of the sea urchin's digestive system suggest that it is instead parasitic. To study if there is a negative impact of the crustacean symbiont on the host, specimens of L. albus of all sizes were collected from a rocky shore in southern Chile. The gonadal and somatic tissues of sea urchins that were and were not harboring the pinnotherid were weighed and compared. Our results show that the presence of the pinnotherid was related to sea urchin gonads of lower biomass, decreased gonadosomatic index levels, and alterations in the morphology of the terminal portion of the host digestive system. The lower gonadal biomass suggests a negative impact on gamete production as well as a diversion of energy due to changes of the digestive system tissues and the potential consumption of algal food by the resident crustacean. These results suggest that the prolonged relationship between these two species is one of parasitism rather than one of commensalism.

| S-EPMC10318001 | biostudies-literature

Isolation of crustecdysone (20R-hydroxyecdysone) from a crayfish (Jasus lalandei H. Milne-Edwards).

Project description:1. A small amount (2mg.) of crustecdysone, a moulting hormone of crustaceans, was isolated from 1 ton of crayfish waste. 2. The purification procedure used was developed with the aid of crustacean and insect bioassays. 3. CM-Sephadex was found to be superior to Sephadex and very effective for the chromatographic separation of crustecdysone from other non-ionic compounds. The higher efficiency of CM-Sephadex is attributed to the greater number of carboxyl groups available for hydrogen-bonding. 4. Reversed-phase chromatography, with butan-1-ol-cyclohexane mixtures as the stationary phase and water as the flowing phase, proved superior to countercurrent distribution with these solvents for the fractionation of purified extracts. 5. A second moulting hormone, deoxycrustecdysone, and the red-concentrating hormone were obtained in a partially purified form.

| S-EPMC1186834 | biostudies-other

Complete chloroplast genome of green alga Caulerpa serrulata (Forsskal) J.Agardh, 1837.

Project description:The complete chloroplast genome of Caulerpa serrulata from South China Sea has been assembled and characterized for the first time. The circular chloroplast genome was 177,848?bp in length, with a GC content of 33.80%. It contained 117 genes, which included 78 protein-coding genes, 37 tRNA genes, and 2 ribosomal RNA genes. Like other species in Caulerpa, the chloroplast genome of C. serrulata did not demonstrate a typical quadripartite structure. A total of 35 microsatellites (SSRs) were identified in the genome using MISA. Phylogenetic analysis showed that C. serrulata was closer to Caulerpa cupressoides, which further clarified the phylogenetic relationships of species in Caulerpa.

| S-EPMC7687584 | biostudies-literature