Phylogeny and comparative genomic analysis of Pteriomorphia (Mollusca: Bivalvia) based on complete mitochondrial genomes

Clarifying phylogenetic relationships and the evolutionary history of the bivalve order Arcida (Mollusca: Bivalvia: Pteriomorphia)

(2016) David J. Combosch et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Molecular phylogeny of Arcoidea with emphasis on Arcidae species (Bivalvia: Pteriomorphia) along the coast of China: Challenges to current classification of arcoids

(2015) Yanwei Feng et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

A phylogenetic backbone for Bivalvia: an RNA-seq approach

(2015) V. L. Gonzalez et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Analysis of codon usage bias of mitochondrial genome in Bombyx moriand its relation to evolution

(2014) Lei Wei et al.   BMC EVOLUTIONARY BIOLOGY

Investigating the Bivalve Tree of Life – an exemplar-based approach combining molecular and novel morphological characters

(2014) Rüdiger Bieler et al.   INVERTEBRATE SYSTEMATICS

Mutation and Selection Cause Codon Usage and Bias in Mitochondrial Genomes of Ribbon Worms (Nemertea)

(2014) Haixia Chen et al.   PLoS One

Molecular Phylogenetics and Systematics of the Bivalve Family Ostreidae Based on rRNA Sequence-Structure Models and Multilocus Species Tree

(2014) Daniele Salvi et al.   PLoS One

BEAST 2: A Software Platform for Bayesian Evolutionary Analysis

(2014) Remco Bouckaert et al.   PLoS Computational Biology

Insect Mitochondrial Genomics: Implications for Evolution and Phylogeny

(2013) Stephen L. Cameron   Annual Review of Entomology

DAMBE5: A Comprehensive Software Package for Data Analysis in Molecular Biology and Evolution

(2013) Xuhua Xia   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

MEGA6: Molecular Evolutionary Genetics Analysis Version 6.0

(2013) Koichiro Tamura et al.   MOLECULAR BIOLOGY AND EVOLUTION

The Mitochondrial Genome of Arctica islandica; Phylogeny and Variation

(2013) Gernot Glöckner et al.   PLoS One

New features of Asian Crassostrea oyster mitochondrial genomes: A novel alloacceptor tRNA gene recruitment and two novel ORFs

(2012) Xiangyun Wu et al.   GENE

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

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

Phylogenetic analysis of four nuclear protein-encoding genes largely corroborates the traditional classification of Bivalvia (Mollusca)

(2012) Prashant P. Sharma et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Oysters and oyster-like bivalves from the Middle Triassic Muschelkalk of the Germanic Basin

(2012) M. Hautmann et al.   Palaeontologische Zeitschrift

The Complete Mitochondrial Genomes of Six Heterodont Bivalves (Tellinoidea and Solenoidea): Variable Gene Arrangements and Phylogenetic Implications

(2012) Yang Yuan et al.   PLoS One

Unusual conservation of mitochondrial gene order in Crassostrea oysters: evidence for recent speciation in Asia

(2011) Jianfeng Ren et al.   BMC EVOLUTIONARY BIOLOGY

Complete mitochondrial genome sequences of three bats species and whole genome mitochondrial analyses reveal patterns of codon bias and lend support to a basal split in Chiroptera

(2011) P.R. Meganathan et al.   GENE

Comparative studies of the complete mitochondrial genomes of four Paphia clams and reconsideration of subgenus Neotapes (Bivalvia: Veneridae)

(2011) Xiaodong Xu et al.   GENE

Resolving the evolutionary relationships of molluscs with phylogenomic tools

(2011) Stephen A. Smith et al.   NATURE

Phylogenomics reveals deep molluscan relationships

(2011) Kevin M. Kocot et al.   NATURE

raxmlGUI: a graphical front-end for RAxML

(2011) Daniele Silvestro et al.   ORGANISMS DIVERSITY & EVOLUTION

A Molecular Phylogeny of Bivalve Mollusks: Ancient Radiations and Divergences as Revealed by Mitochondrial Genes

(2011) Federico Plazzi et al.   PLoS One

Comparison of seven Crassostrea mitogenomes and phylogenetic analyses

(2010) Xiangyun Wu et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Towards a molecular phylogeny of Mollusks: Bivalves’ early evolution as revealed by mitochondrial genes

(2010) Federico Plazzi et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

KaKs_Calculator 2.0: A Toolkit Incorporating Gamma-Series Methods and Sliding Window Strategies

(2010) Dapeng Wang et al.   GENOMICS PROTEOMICS & BIOINFORMATICS

Biopython: freely available Python tools for computational molecular biology and bioinformatics

(2009) P. J. A. Cock et al.   BIOINFORMATICS

Relaxation of selective constraints on avian mitochondrial DNA following the degeneration of flight ability

(2009) Y.-Y. Shen et al.   GENOME RESEARCH

Evolution of mitochondrial gene orders in echinoderms

(2008) Marleen Perseke et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

A Rapid Bootstrap Algorithm for the RAxML Web Servers

(2008) Alexandros Stamatakis et al.   SYSTEMATIC BIOLOGY