Structure, Transcription, and Variability of Metazoan Mitochondrial Genome: Perspectives from an Unusual Mitochondrial Inheritance System

A Comparative Analysis of Mitochondrial ORFans: New Clues on Their Origin and Role in Species with Doubly Uniparental Inheritance of Mitochondria

(2013) Liliana Milani et al.   Genome Biology and Evolution

The evolutionary causes and consequences of sex-biased gene expression

(2013) John Parsch et al.   NATURE REVIEWS GENETICS

Energy, ageing, fidelity and sex: oocyte mitochondrial DNA as a protected genetic template

(2013) W. B. M. de Paula et al.   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Pseudoscorpion mitochondria show rearranged genes and genome-wide reductions of RNA gene sizes and inferred structures, yet typical nucleotide composition bias

(2012) Sergey Ovchinnikov et al.   BMC EVOLUTIONARY BIOLOGY

Biparental Inheritance Through Uniparental Transmission: The Doubly Uniparental Inheritance (DUI) of Mitochondrial DNA

(2012) Eleftherios Zouros   Evolutionary Biology

A program for annotating and predicting the effects of single nucleotide polymorphisms, SnpEff

(2012) Pablo Cingolani et al.   FLY

Biochemistry and Evolution of Anaerobic Energy Metabolism in Eukaryotes

(2012) M. Muller et al.   MICROBIOLOGY AND MOLECULAR BIOLOGY REVIEWS

Adaptive evolution: evaluating empirical support for theoretical predictions

(2012) Carrie F. Olson-Manning et al.   NATURE REVIEWS GENETICS

Mitochondrial Fission, Fusion, and Stress

(2012) R. J. Youle et al.   SCIENCE

The Repatterning of Eukaryotic Genomes by Random Genetic Drift

(2011) Michael Lynch et al.   Annual Review of Genomics and Human Genetics

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

(2011) Jianfeng Ren et al.   BMC EVOLUTIONARY BIOLOGY

Mitochondrial genomes and Doubly Uniparental Inheritance: new insights from Musculista senhousia sex-linked mitochondrial DNAs (Bivalvia Mytilidae)

(2011) Marco Passamonti et al.   BMC GENOMICS

Cruciform structures are a common DNA feature important for regulating biological processes

(2011) Václav Brázda et al.   BMC MOLECULAR BIOLOGY

Bacterial genome chimaerism and the origin of mitochondria

(2011) Ankur Abhishek et al.   CANADIAN JOURNAL OF MICROBIOLOGY

Homologous Recombination between Highly Diverged Mitochondrial Sequences: Examples from Maternally and Paternally Transmitted Genomes

(2011) E. D. Ladoukakis et al.   MOLECULAR BIOLOGY AND EVOLUTION

De Novo Assembly of the Manila Clam Ruditapes philippinarum Transcriptome Provides New Insights into Expression Bias, Mitochondrial Doubly Uniparental Inheritance and Sex Determination

(2011) F. Ghiselli et al.   MOLECULAR BIOLOGY AND EVOLUTION

MEGA5: Molecular Evolutionary Genetics Analysis Using Maximum Likelihood, Evolutionary Distance, and Maximum Parsimony Methods

(2011) K. Tamura et al.   MOLECULAR BIOLOGY AND EVOLUTION

A framework for variation discovery and genotyping using next-generation DNA sequencing data

(2011) Mark A DePristo et al.   NATURE GENETICS

MitoZoa 2.0: a database resource and search tools for comparative and evolutionary analyses of mitochondrial genomes in Metazoa

(2011) Paolo D'Onorio de Meo et al.   NUCLEIC ACIDS RESEARCH

Evidence for a Fourteenth mtDNA-Encoded Protein in the Female-Transmitted mtDNA of Marine Mussels (Bivalvia: Mytilidae)

(2011) Sophie Breton et al.   PLoS One

Doubly Uniparental Inheritance of Mitochondria As a Model System for Studying Germ Line Formation

(2011) Liliana Milani et al.   PLoS One

Phylogenomic evidence for a common ancestor of mitochondria and the SAR11 clade

(2011) J. Cameron Thrash et al.   Scientific Reports

Multilign: an algorithm to predict secondary structures conserved in multiple RNA sequences

(2010) Zhenjiang Xu et al.   BIOINFORMATICS

Assigning roles to DNA regulatory motifs using comparative genomics

(2010) Fabian A. Buske et al.   BIOINFORMATICS

Mitochondrial phylogenomics of the Bivalvia (Mollusca): searching for the origin and mitogenomic correlates of doubly uniparental inheritance of mtDNA

(2010) Hélène Doucet-Beaupré et al.   BMC EVOLUTIONARY BIOLOGY

Scottish Mytilus trossulus mussels retain ancestral mitochondrial DNA: Complete sequences of male and female mtDNA genomes

(2010) Małgorzata Zbawicka et al.   GENE

The Genome Analysis Toolkit: A MapReduce framework for analyzing next-generation DNA sequencing data

(2010) A. McKenna et al.   GENOME RESEARCH

Characterization of a mitochondrial ORF from the gender-associated mtDNAs of Mytilus spp. (Bivalvia: Mytilidae): Identification of the “missing” ATPase 8 gene

(2010) Sophie Breton et al.   Marine Genomics

MitoZoa: A curated mitochondrial genome database of metazoans for comparative genomics studies

(2010) Renato Lupi et al.   MITOCHONDRION

Novel Protein Genes in Animal mtDNA: A New Sex Determination System in Freshwater Mussels (Bivalvia: Unionoida)?

(2010) Sophie Breton et al.   MOLECULAR BIOLOGY AND EVOLUTION

Strict Sex-Specific mtDNA Segregation in the Germ line of the DUI Species Venerupis philippinarum (Bivalvia: Veneridae)

(2010) F. Ghiselli et al.   MOLECULAR BIOLOGY AND EVOLUTION

Mitochondrial whims: metabolic rate, longevity and the rate of molecular evolution

(2009) N. Galtier et al.   Biology Letters

Doubly Uniparental Inheritance: Two Mitochondrial Genomes, One Precious Model for Organelle DNA Inheritance and Evolution

(2009) Marco Passamonti et al.   DNA AND CELL BIOLOGY

Comparative Mitochondrial Genomics of Freshwater Mussels (Bivalvia: Unionoida) With Doubly Uniparental Inheritance of mtDNA: Gender-Specific Open Reading Frames and Putative Origins of Replication

(2009) Sophie Breton et al.   GENETICS

The Control Region of Maternally and Paternally Inherited Mitochondrial Genomes of Three Species of the Sea Mussel Genus Mytilus

(2009) L. Cao et al.   GENETICS

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

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

A Proteomic Survey of Chlamydomonas reinhardtii Mitochondria Sheds New Light on the Metabolic Plasticity of the Organelle and on the Nature of the  -Proteobacterial Mitochondrial Ancestor

(2009) A. Atteia et al.   MOLECULAR BIOLOGY AND EVOLUTION

Mitochondrial DNA as a marker of molecular diversity: a reappraisal

(2009) N. GALTIER et al.   MOLECULAR ECOLOGY

MEME SUITE: tools for motif discovery and searching

(2009) T. L. Bailey et al.   NUCLEIC ACIDS RESEARCH

DOUBLY UNIPARENTAL INHERITANCE (DUI) OF MITOCHONDRIAL DNA INDONAX TRUNCULUS(BIVALVIA: DONACIDAE) AND THE PROBLEM OF ITS SPORADIC DETECTION IN BIVALVIA

(2008) Ioannis Theologidis et al.   EVOLUTION

Evolution of the mitochondrial genome of Metazoa as exemplified by comparison of congeneric species

(2008) C Gissi et al.   HEREDITY

Speciation and the evolution of gamete recognition genes: pattern and process

(2008) S R Palumbi   HEREDITY

Evolution of genome architecture

(2008) Eugene V. Koonin   INTERNATIONAL JOURNAL OF BIOCHEMISTRY & CELL BIOLOGY

Evidence for Variable Selective Pressures at a Large Secondary Structure of the Human Mitochondrial DNA Control Region

(2008) F. Pereira et al.   MOLECULAR BIOLOGY AND EVOLUTION

Mapping and quantifying mammalian transcriptomes by RNA-Seq

(2008) Ali Mortazavi et al.   NATURE METHODS