The first complete mitochondrial genome of a parasitic isopod supports Epicaridea Latreille, 1825 as a suborder and reveals the less conservative genome of isopods

@article{Yu2018TheFC,
  title={The first complete mitochondrial genome of a parasitic isopod supports Epicaridea Latreille, 1825 as a suborder and reveals the less conservative genome of isopods},
  author={Jialu Yu and Jianmei An and Yue Li and Christopher B. Boyko},
  journal={Systematic Parasitology},
  year={2018},
  volume={95},
  pages={465-478}
}
The complete mitochondrial genome sequence of the holoparasitic isopod Gyge ovalis (Shiino, 1939) has been determined. The mitogenome is 14,268 bp in length and contains 34 genes: 13 protein-coding genes, two ribosomal RNA, 19 tRNA and a control region. Three tRNA genes (trnE, trnI and trnS1) are missing. Most of the tRNA genes show secondary structures which derive from the usual cloverleaf pattern except for trnC which is characterised by the loss of the DHU-arm. Compared to the isopod ground… 
Basal position of two new complete mitochondrial genomes of parasitic Cymothoida (Crustacea: Isopoda) challenges the monophyly of the suborder and phylogeny of the entire order
TLDR
The results did not recover the suborders Cymothoida and Oniscidea Latreille, 1802 as monophyletic, with parasitic and free-living cymothoidans forming separate clades.
Disrupted architecture and fast evolution of the mitochondrial genome of Argeia pugettensis (Isopoda): implications for speciation and fitness
TLDR
A highly architecturally disrupted mitogenome and decoupling of mitochondrial and nuclear rates would normally be expected to have strong negative impacts on the fitness of the organism, so the existence of this lineage is a puzzling evolutionary question.
The complete mitochondrial genome of Cymothoa indica has a highly rearranged gene order and clusters at the very base of the Isopoda clade
TLDR
Isopods might present an important model system to study the proposed discontinuity in the dynamics of mitochondrial genomic architecture evolution, and nucleotide analyses conducted using nucleotide sequences of all mitochondrial genes resolved Oniscidea and Cymothoida suborders as paraphyletic.
Phylogenetic position of Bopyroides hippolytes, with comments on the rearrangement of the mitochondrial genome in isopods (Isopoda: Epicaridea: Bopyridae)
TLDR
Bopyroides hippolytes should be excluded from the Bopyrinae and has a close affinity with Argeia pugettensis based on molecular and morphological data, and conserved syntenic blocks of mitochondrial gene order have distinctive characteristics at a subordinal level and may be helpful for understanding the higher taxonomic level relationships of Isopoda.
Mitochondrial Architecture Rearrangements Produce Asymmetrical Nonadaptive Mutational Pressures That Subvert the Phylogenetic Reconstruction in Isopoda
TLDR
The findings show that architectural rearrangements might produce major compositional biases even on relatively short evolutionary timescales, and that proving the suitability of data via composition skew analyses should be a prerequisite for every study that aims to use mitochondrial data for phylogenetic reconstruction, even among closely related taxa.
Mitochondrial architecture rearrangements produce asymmetrical nonadaptive mutational pressures that subvert the phylogenetic reconstruction in Isopoda
TLDR
It is concluded that inverted skews cause long-branch attraction phylogenetic artefacts between these taxa, and support Asellota are the most likely candidate for the basal isopod branch.
Architectural instability, inverted skews and mitochondrial phylogenomics of Isopoda: outgroup choice affects the long-branch attraction artefacts
TLDR
The new mitogenome of Asotana magnifica (Cymothoidae) exhibits a unique gene order, which corroborates that isopods possess exceptionally destabilized mitogenomic architecture, and tests whether conclusions were biased by poor taxon sampling and inclusion of outgroups.
Long-read sequencing reveals atypical mitochondrial genome structure in a New Zealand marine isopod
TLDR
The presence of an atypical mitochondrial structure in the New Zealand endemic marine isopod, Isocladus armatus, and data from an additional divergent isopoda lineage (Sphaeromatidae) lends support to the hypothesis that atypicals structure evolved early in the evolution of Isopoda.
Evolutionary history of inversions in the direction of architecture-driven mutational pressures in crustacean mitochondrial genomes
TLDR
It is argued that such compositional biases may produce misleading signals not only in phylogenetic but also in other types of evolutionary analyses (dN/dS ratios, codon usage bias, base composition, branch length comparison, etc.), and discuss several such examples.
Building on 150 Years of Knowledge: The Freshwater Isopod Asellus aquaticus as an Integrative Eco-Evolutionary Model System
TLDR
The freshwater isopod Asellus aquaticus is introduced, a keystone species and an emerging invertebrate model system, as a prime candidate to address fundamental questions in ecology and evolution, and the interfaces therein.
...
1
2
...

References

SHOWING 1-10 OF 38 REFERENCES
The complete mitochondrial genome of Limnoria quadripunctata Holthuis (Isopoda: Limnoriidae)
TLDR
The complete mitochondrial genome of Limnoria quadripunctata, a marine wood-eating isopod crustacean, was determined from whole genome sequence data and support the idea that each isopOD species belongs to a distinct lineage as implied by their current placement in separate suborders.
The Australian fresh water isopod (Phreatoicidea: Isopoda) allows insights into the early mitogenomic evolution of isopods.
THE SCUTOCOXIFERA TAX. NOV. AND THE INFORMATION CONTENT OF NUCLEAR SSU RDNA SEQUENCES FOR RECONSTRUCTION OF ISOPOD PHYLOGENY (PERACARIDA: ISOPODA)
TLDR
The results of maximum parsimony analyses are congruent with major aspects of earlier hypotheses on isopod phylogeny and a major monophyletic group found in the molecular phylogenies and also supported by distinct morphological characters is named Scutocoxifera tax.
The first complete mitogenome of the South China deep‐sea giant isopod Bathynomus sp. (Crustacea: Isopoda: Cirolanidae) allows insights into the early mitogenomic evolution of isopods
TLDR
The complete mitochondrial (mt) genome sequence of the South China deep‐sea giant isopod Bathynomus sp.
The complete mitochondrial genome of the common sea slater, Ligia oceanica (Crustacea, Isopoda) bears a novel gene order and unusual control region features
TLDR
Gene order is not conserved among Peracarida, not even among isopods, and the first complete mitochondrial DNA sequence from a peracarid crustacean is revealed.
Multiple rearrangements in mitochondrial genomes of Isopoda and phylogenetic implications.
Structure and Evolution of the Atypical Mitochondrial Genome of Armadillidium vulgare (Isopoda, Crustacea)
TLDR
The results provide empirical evidence for the tRNA gene recruitment model of tRNA evolution and suggest that the junction zone between monomers of the dimer structure is located in or near the control region of A. vulgare mitochondrial genome.
Organization of the large mitochondrial genome in the isopod Armadillidium vulgare.
TLDR
It is proposed that the large A. vulgare mtDNA is produced by the tripling of a 14-kb monomer with a singular rearrangement: one monomer is linear and the other two form a circular dimer, which suggests that replication occurs during the monomer phase.
...
1
2
3
4
...