Causes and Consequences of Rapidly Evolving mtDNA in a Plant Lineage

A Eukaryote without a Mitochondrial Organelle

(2016) Anna Karnkowska et al.   CURRENT BIOLOGY

Positive Selection in Rapidly Evolving Plastid–Nuclear Enzyme Complexes

(2016) Kate Rockenbach et al.   GENETICS

Linear Plasmids and the Rate of Sequence Evolution in Plant Mitochondrial Genomes

(2016) Jessica M. Warren et al.   Genome Biology and Evolution

Plastid–Nuclear Interaction and Accelerated Coevolution in Plastid Ribosomal Genes in Geraniaceae

(2016) Mao-Lun Weng et al.   Genome Biology and Evolution

Animal Mitochondrial DNA as We Do Not Know It: mt-Genome Organization and Evolution in Nonbilaterian Lineages

(2016) Dennis V. Lavrov et al.   Genome Biology and Evolution

The Roles of Mutation, Selection, and Expression in Determining Relative Rates of Evolution in Mitochondrial versus Nuclear Genomes

(2016) Justin C. Havird et al.   MOLECULAR BIOLOGY AND EVOLUTION

Positive Selection in Rapidly Evolving Plastid–Nuclear Enzyme Complexes

(2016) Kate Rockenbach et al.   GENETICS

Gene flow betweenDrosophila yakubaandDrosophila santomeain subunit V of cytochromecoxidase: A potential case of cytonuclear cointrogression

(2015) Emily A. Beck et al.   EVOLUTION

Conservative and compensatory evolution in oxidative phosphorylation complexes of angiosperms with highly divergent rates of mitochondrial genome evolution

(2015) Justin C. Havird et al.   EVOLUTION

Cytonuclear Interactions in the Evolution of Animal Mitochondrial tRNA Metabolism

(2015) Walker Pett et al.   Genome Biology and Evolution

Mitonuclear Ecology

(2015) Geoffrey E. Hill   MOLECULAR BIOLOGY AND EVOLUTION

Coordinated Rates of Evolution between Interacting Plastid and Nuclear Genes in Geraniaceae

(2015) Jin Zhang et al.   PLANT CELL

Why chloroplasts and mitochondria retain their own genomes and genetic systems: Colocation for redox regulation of gene expression

(2015) John F. Allen   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The massive mitochondrial genome of the angiospermSilene noctiflorais evolving by gain or loss of entire chromosomes

(2015) Zhiqiang Wu et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Mitonuclear linkage disequilibrium in human populations

(2015) Daniel B. Sloan et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

RAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies

(2014) Alexandros Stamatakis   BIOINFORMATICS

Genes and Junk in Plant Mitochondria—Repair Mechanisms and Selection

(2014) Alan C. Christensen   Genome Biology and Evolution

Cytonuclear Evolution of Rubisco in Four Allopolyploid Lineages

(2014) Lei Gong et al.   MOLECULAR BIOLOGY AND EVOLUTION

PopGenome: An Efficient Swiss Army Knife for Population Genomic Analyses in R

(2014) Bastian Pfeifer et al.   MOLECULAR BIOLOGY AND EVOLUTION

Cytonuclear Genomic Interactions and Hybrid Breakdown

(2013) Ronald S. Burton et al.   Annual Review of Ecology Evolution and Systematics

Evolutionary perspectives on the links between mitochondrial genotype and disease phenotype

(2013) Damian K. Dowling   BIOCHIMICA ET BIOPHYSICA ACTA-GENERAL SUBJECTS

Mitochondrial–Nuclear Interactions: Compensatory Evolution or Variable Functional Constraint among Vertebrate Oxidative Phosphorylation Genes?

(2013) Feifei Zhang et al.   Genome Biology and Evolution

Cytonuclear Interactions and Relaxed Selection Accelerate Sequence Evolution in Organelle Ribosomes

(2013) Daniel B. Sloan et al.   MOLECULAR BIOLOGY AND EVOLUTION

MEGA6: Molecular Evolutionary Genetics Analysis Version 6.0

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

The genome of the recently domesticated crop plant sugar beet (Beta vulgaris)

(2013) Juliane C. Dohm et al.   NATURE

Animal Mitochondria, Positive Selection and Cyto-Nuclear Coevolution: Insights from Pulmonates

(2013) Aristeidis Parmakelis et al.   PLoS One

Recent Acceleration of Plastid Sequence and Structural Evolution Coincides with Extreme Mitochondrial Divergence in the Angiosperm Genus Silene

(2012) Daniel B. Sloan et al.   Genome Biology and Evolution

Construction of Plastid Reference Proteomes for Maize and Arabidopsis and Evaluation of Their Orthologous Relationships; The Concept of Orthoproteomics

(2012) Mingshu Huang et al.   JOURNAL OF PROTEOME RESEARCH

Comparative Genomics Reveals Adaptive Protein Evolution and a Possible Cytonuclear Incompatibility between European and American Eels

(2012) Pierre-Alexandre Gagnaire et al.   MOLECULAR BIOLOGY AND EVOLUTION

Purifying Selection in Mammalian Mitochondrial Protein-Coding Genes Is Highly Effective and Congruent with Evolution of Nuclear Genes

(2012) K. Y. Popadin et al.   MOLECULAR BIOLOGY AND EVOLUTION

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

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

Evidence for Compensatory Evolution of Ribosomal Proteins in Response to Rapid Divergence of Mitochondrial rRNA

(2012) F. S. Barreto et al.   MOLECULAR BIOLOGY AND EVOLUTION

A disproportionate role for mtDNA in Dobzhansky-Muller incompatibilities?

(2012) Ronald S. Burton et al.   MOLECULAR ECOLOGY

Phylogenetic Relationships of Silene multinervia and Silene Section Conoimorpha (Caryophyllaceae)

(2012) Anja. Rautenberg et al.   SYSTEMATIC BOTANY

Rapid Evolution of Enormous, Multichromosomal Genomes in Flowering Plant Mitochondria with Exceptionally High Mutation Rates

(2012) Daniel B. Sloan et al.   PLOS BIOLOGY

Mitochondrial–Nuclear Interactions and Accelerated Compensatory Evolution: Evidence from the Primate Cytochrome c Oxidase Complex

(2011) Naoki Osada et al.   MOLECULAR BIOLOGY AND EVOLUTION

Full-length transcriptome assembly from RNA-Seq data without a reference genome

(2011) Manfred G Grabherr et al.   NATURE BIOTECHNOLOGY

Cytonuclear conflict in interpopulation hybrids: the role of RNA polymerase in mtDNA transcription and replication

(2010) C. K. ELLISON et al.   JOURNAL OF EVOLUTIONARY BIOLOGY

Estimation of the Neutrality Index

(2010) N. Stoletzki et al.   MOLECULAR BIOLOGY AND EVOLUTION

Extreme Reconfiguration of Plastid Genomes in the Angiosperm Family Geraniaceae: Rearrangements, Repeats, and Codon Usage

(2010) M. M. Guisinger et al.   MOLECULAR BIOLOGY AND EVOLUTION

Recombination and the maintenance of plant organelle genome stability

(2010) Alexandre Maréchal et al.   NEW PHYTOLOGIST

Diversity and reductive evolution of mitochondria among microbial eukaryotes

(2010) K. Hjort et al.   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

New Algorithms and Methods to Estimate Maximum-Likelihood Phylogenies: Assessing the Performance of PhyML 3.0

(2010) Stéphane Guindon et al.   SYSTEMATIC BIOLOGY

Mitochondrial bioenergetics as a major motive force of speciation

(2009) Moran Gershoni et al.   BIOESSAYS

DnaSP v5: a software for comprehensive analysis of DNA polymorphism data

(2009) P. Librado et al.   BIOINFORMATICS

BLAST+: architecture and applications

(2009) Christiam Camacho et al.   BMC BIOINFORMATICS

Phylogenetic analysis of mitochondrial substitution rate variation in the angiosperm tribe Sileneae

(2009) Daniel B Sloan et al.   BMC EVOLUTIONARY BIOLOGY

The causes of mutation accumulation in mitochondrial genomes

(2009) M. Neiman et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Genotype-dependent variation of mitochondrial transcriptional profiles in interpopulation hybrids

(2008) C. K. Ellison et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

A genome-wide view of the spectrum of spontaneous mutations in yeast

(2008) M. Lynch et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Genome-wide analyses of Geraniaceae plastid DNA reveal unprecedented patterns of increased nucleotide substitutions

(2008) M. M. Guisinger et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

A Rapid Bootstrap Algorithm for the RAxML Web Servers

(2008) Alexandros Stamatakis et al.   SYSTEMATIC BIOLOGY