Architectural instability, inverted skews and mitochondrial phylogenomics of Isopoda: outgroup choice affects the long-branch attraction artefacts

Mitochondrial Architecture Rearrangements Produce Asymmetrical Nonadaptive Mutational Pressures That Subvert the Phylogenetic Reconstruction in Isopoda

(2019) Dong Zhang et al.   Genome Biology and Evolution

PhyloSuite: An integrated and scalable desktop platform for streamlined molecular sequence data management and evolutionary phylogenetics studies

(2019) Dong Zhang et al.   Molecular Ecology Resources

A complete logical approach to resolve the evolution and dynamics of mitochondrial genome in bilaterians

(2018) Laurent Oxusoff et al.   PLoS One

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

(2018) Jialu Yu et al.   SYSTEMATIC PARASITOLOGY

The complete mitochondrial genome of Cymothoa indica has a highly rearranged gene order and clusters at the very base of the Isopoda clade

(2018) Hong Zou et al.   PLoS One

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

(2018) Cong J. Hua et al.   Parasites & Vectors

Molecular phylogeny of obligate fish parasites of the family Cymothoidae (Isopoda, Crustacea): evolution of the attachment mode to host fish and the habitat shift from saline water to freshwater

(2017) Hiroki Hata et al.   MARINE BIOLOGY

An evolutionary timescale for terrestrial isopods and a lack of molecular support for the monophyly of Oniscidea (Crustacea: Isopoda)

(2017) Luana S. F. Lins et al.   ORGANISMS DIVERSITY & EVOLUTION

The first complete mitogenome of the South China deep-sea giant isopodBathynomussp. (Crustacea: Isopoda: Cirolanidae) allows insights into the early mitogenomic evolution of isopods

(2017) Yanjun Shen et al.   Ecology and Evolution

Recombination, meiotic expression and human codon usage

(2017) Fanny Pouyet et al.   eLife

Analytical Biases Associated with GC-Content in Molecular Evolution

(2017) Jonathan Romiguier et al.   Frontiers in Genetics

The mitochondrial genome of Globodera ellingtonae is composed of two circles with segregated gene content and differential copy numbers

(2016) Wendy S. Phillips et al.   BMC GENOMICS

Evolution of mitochondrial genomes in Baikalian amphipods

(2016) Elena V. Romanova et al.   BMC GENOMICS

Resolving the Phylogenetic Position of Coelacanth: The Closest Relative Is Not Always the Most Appropriate Outgroup

(2016) Naoko Takezaki et al.   Genome Biology and Evolution

Review of the fish-parasitic genus Cymothoa Fabricius, 1793 (Crustacea: Isopoda: Cymothoidae) from Australia

(2016) MELISSA B. MARTIN et al.   ZOOTAXA

Monogonont Rotifer, Brachionus calyciflorus, Possesses Exceptionally Large, Fragmented Mitogenome

(2016) Zhi-Juan Nie et al.   PLoS One

Mitochondrial and plastid genome architecture: Reoccurring themes, but significant differences at the extremes

(2015) David Roy Smith et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Large gene overlaps and tRNA processing in the compact mitochondrial genome of the crustaceanArmadillidium vulgare

(2015) Vincent Doublet et al.   RNA Biology

What's in an Outgroup? The Impact of Outgroup Choice on the Phylogenetic Position of Thalattosuchia (Crocodylomorpha) and the Origin of Crocodyliformes

(2015) Eric W. Wilberg   SYSTEMATIC BIOLOGY

The Inversion of the Control Region in Three Mitogenomes Provides Further Evidence for an Asymmetric Model of Vertebrate mtDNA Replication

(2014) Miguel M. Fonseca et al.   PLoS One

Inverted Repeats and Genome Architecture Conversions of Terrestrial Isopods Mitochondrial DNA

(2013) Vincent Doublet et al.   JOURNAL OF MOLECULAR EVOLUTION

Coexistence of Minicircular and a Highly Rearranged mtDNA Molecule Suggests That Recombination Shapes Mitochondrial Genome Organization

(2013) Meng Mao et al.   MOLECULAR BIOLOGY AND EVOLUTION

MAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability

(2013) K. Katoh et al.   MOLECULAR BIOLOGY AND EVOLUTION

Evidence for Permo-Triassic colonization of the deep sea by isopods

(2012) L. S. F. Lins et al.   Biology Letters

Widespread atypical mitochondrial DNA structure in isopods (Crustacea, Peracarida) related to a constitutive heteroplasmy in terrestrial species

(2012) Vincent Doublet et al.   GENOME

High Levels of Gene Expression Explain the Strong Evolutionary Constraint of Mitochondrial Protein-Coding Genes

(2012) B. Nabholz et al.   MOLECULAR BIOLOGY AND EVOLUTION

PartitionFinder: Combined Selection of Partitioning Schemes and Substitution Models for Phylogenetic Analyses

(2012) R. Lanfear et al.   MOLECULAR BIOLOGY AND EVOLUTION

Multiple rearrangements in mitochondrial genomes of Isopoda and phylogenetic implications

(2012) Fabian Kilpert et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Genetic aspects of mitochondrial genome evolution

(2012) Matthias Bernt et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Global Diversity of Marine Isopods (Except Asellota and Crustacean Symbionts)

(2012) Gary C. B. Poore et al.   PLoS One

MrBayes 3.2: Efficient Bayesian Phylogenetic Inference and Model Choice Across a Large Model Space

(2012) Fredrik Ronquist et al.   SYSTEMATIC BIOLOGY

Evolutionary Patterns of the Mitochondrial Genome in Metazoa: Exploring the Role of Mutation and Selection in Mitochondrial Protein–Coding Genes

(2011) S. Castellana et al.   Genome Biology and Evolution

Extensive and Evolutionarily Persistent Mitochondrial tRNA Editing in Velvet Worms (Phylum Onychophora)

(2011) Romulo Segovia et al.   MOLECULAR BIOLOGY AND EVOLUTION

Improved systematic tRNA gene annotation allows new insights into the evolution of mitochondrial tRNA structures and into the mechanisms of mitochondrial genome rearrangements

(2011) Frank Jühling et al.   NUCLEIC ACIDS RESEARCH

New Views on Strand Asymmetry in Insect Mitochondrial Genomes

(2010) Shu-Jun Wei et al.   PLoS One

Molecular Poltergeists: Mitochondrial DNA Copies (numts) in Sequenced Nuclear Genomes

(2010) Einat Hazkani-Covo et al.   PLoS Genetics

Hypervariability of Ascidian Mitochondrial Gene Order: Exposing the Myth of Deuterostome Organelle Genome Stability

(2009) Carmela Gissi et al.   MOLECULAR BIOLOGY AND EVOLUTION

Relationships of Cetacea (Artiodactyla) Among Mammals: Increased Taxon Sampling Alters Interpretations of Key Fossils and Character Evolution

(2009) Michelle Spaulding et al.   PLoS One

The adaptive evolution of the mammalian mitochondrial genome

(2008) Rute R da Fonseca et al.   BMC GENOMICS

GC skew in protein-coding genes between the leading and lagging strands in bacterial genomes: New substitution models incorporating strand bias

(2008) Antonio Marín et al.   JOURNAL OF THEORETICAL BIOLOGY

Rapidly Evolving Mitochondrial Genome and Directional Selection in Mitochondrial Genes in the Parasitic Wasp Nasonia (Hymenoptera: Pteromalidae)

(2008) D. C. S. G. Oliveira et al.   MOLECULAR BIOLOGY AND EVOLUTION