Does mitochondrial DNA evolution in metazoa drive the origin of new mitochondrial proteins?

A Completely Reimplemented MPI Bioinformatics Toolkit with a New HHpred Server at its Core

(2018) Lukas Zimmermann et al.   JOURNAL OF MOLECULAR BIOLOGY

Dedicated surveillance mechanism controls G-quadruplex forming non-coding RNAs in human mitochondria

(2018) Zbigniew Pietras et al.   Nature Communications

Deep mitochondrial origin outside the sampled alphaproteobacteria

(2018) Joran Martijn et al.   NATURE

Transcription profiling suggests that mitochondrial topoisomerase IB acts as a topological barrier and regulator of mitochondrial DNA transcription

(2017) Ilaria Dalla Rosa et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

The FASTK family of proteins: emerging regulators of mitochondrial RNA biology

(2017) Alexis A. Jourdain et al.   NUCLEIC ACIDS RESEARCH

Genome-scale detection of positive selection in nine primates predicts human-virus evolutionary conflicts

(2017) Robin van der Lee et al.   NUCLEIC ACIDS RESEARCH

Structure and Function of the Mitochondrial Ribosome

(2016) Basil J. Greber et al.   Annual Review of Biochemistry

The origin of the supernumerary subunits and assembly factors of complex I: A treasure trove of pathway evolution

(2016) Dei M. Elurbe et al.   BIOCHIMICA ET BIOPHYSICA ACTA-BIOENERGETICS

A pseudouridine synthase module is essential for mitochondrial protein synthesis and cell viability

(2016) Hana Antonicka et al.   EMBO REPORTS

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

Mechanism of super-assembly of respiratory complexes III and IV

(2016) Sara Cogliati et al.   NATURE

Atomic structure of the entire mammalian mitochondrial complex I

(2016) Karol Fiedorczuk et al.   NATURE

Interactive tree of life (iTOL) v3: an online tool for the display and annotation of phylogenetic and other trees

(2016) Ivica Letunic et al.   NUCLEIC ACIDS RESEARCH

COX7A2L Is a Mitochondrial Complex III Binding Protein that Stabilizes the III2+IV Supercomplex without Affecting Respirasome Formation

(2016) Rafael Pérez-Pérez et al.   Cell Reports

Parallel Structural Evolution of Mitochondrial Ribosomes and OXPHOS Complexes

(2015) Eli O. van der Sluis et al.   Genome Biology and Evolution

MitoCarta2.0: an updated inventory of mammalian mitochondrial proteins

(2015) Sarah E. Calvo et al.   NUCLEIC ACIDS RESEARCH

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

Mitochondrial genomes are retained by selective constraints on protein targeting

(2015) Patrik Björkholm et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Mechanistic insight from the crystal structure of mitochondrial complex I

(2015) V. Zickermann et al.   SCIENCE

Mitochondrial RNA Granules Are Centers for Posttranscriptional RNA Processing and Ribosome Biogenesis

(2015) Hana Antonicka et al.   Cell Reports

Mapping Topoisomerase Sites in Mitochondrial DNA with a Poisonous Mitochondrial Topoisomerase I (Top1mt)

(2014) Ilaria Dalla Rosa et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Dynamic evolution of mitochondrial ribosomal proteins in Holozoa

(2014) Bettina M. Scheel et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Architecture of mammalian respiratory complex I

(2014) Kutti R. Vinothkumar et al.   NATURE

Increased negative supercoiling of mtDNA in TOP1mt knockout mice and presence of topoisomerases II  and II  in vertebrate mitochondria

(2014) H. Zhang et al.   NUCLEIC ACIDS RESEARCH

A multicenter study on Leigh syndrome: disease course and predictors of survival

(2014) Kalliopi Sofou et al.   Orphanet Journal of Rare Diseases

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

Origins and functional consequences of somatic mitochondrial DNA mutations in human cancer

(2014) Young Seok Ju et al.   eLife

Structures of mitochondrial oxidative phosphorylation supercomplexes and mechanisms for their stabilisation

(2013) Yuriy Chaban et al.   BIOCHIMICA ET BIOPHYSICA ACTA-BIOENERGETICS

GRSF1 Regulates RNA Processing in Mitochondrial RNA Granules

(2013) Alexis A. Jourdain et al.   Cell Metabolism

The Mitochondrial RNA-Binding Protein GRSF1 Localizes to RNA Granules and Is Required for Posttranscriptional Mitochondrial Gene Expression

(2013) Hana Antonicka et al.   Cell Metabolism

Crystal structure of the entire respiratory complex I

(2013) Rozbeh Baradaran et al.   NATURE

Replication factors transiently associate with mtDNA at the mitochondrial inner membrane to facilitate replication

(2013) N. Rajala et al.   NUCLEIC ACIDS RESEARCH

TreeFam v9: a new website, more species and orthology-on-the-fly

(2013) Fabian Schreiber et al.   NUCLEIC ACIDS RESEARCH

Loss, replacement and gain of proteins at the origin of the mitochondria

(2012) Martijn A. Huynen et al.   BIOCHIMICA ET BIOPHYSICA ACTA-BIOENERGETICS

Constructive neutral evolution: exploring evolutionary theory’s curious disconnect

(2012) Arlin Stoltzfus   Biology Direct

Evolution and Diversification of the Organellar Release Factor Family

(2012) Isabel Duarte 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

Alternative translation initiation augments the human mitochondrial proteome

(2012) Lawrence Kazak et al.   NUCLEIC ACIDS RESEARCH

A subcomplex of human mitochondrial RNase P is a bifunctional methyltransferase—extensive moonlighting in mitochondrial tRNA biogenesis

(2012) Elisa Vilardo et al.   NUCLEIC ACIDS RESEARCH

QGRS-H Predictor: a web server for predicting homologous quadruplex forming G-rich sequence motifs in nucleotide sequences

(2012) Camille Menendez et al.   NUCLEIC ACIDS RESEARCH

Iterative orthology prediction uncovers new mitochondrial proteins and identifies C12orf62 as the human ortholog of COX14, a protein involved in the assembly of cytochrome c oxidase

(2012) Radek Szklarczyk et al.   GENOME BIOLOGY

RNA processing in human mitochondria

(2011) Maria I.G. Lopez Sanchez et al.   CELL CYCLE

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

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

PDE12 removes mitochondrial RNA poly(A) tails and controls translation in human mitochondria

(2011) Joanna Rorbach et al.   NUCLEIC ACIDS RESEARCH

HMMER web server: interactive sequence similarity searching

(2011) R. D. Finn et al.   NUCLEIC ACIDS RESEARCH

Involvement of human ELAC2 gene product in 3' end processing of mitochondrial tRNAs

(2011) Lien K. Brzezniak et al.   RNA Biology

Truncation of subunit ND2 disrupts the threefold symmetry of the antiporter-like subunits in complex I from higher metazoans

(2010) James A. Birrell et al.   FEBS LETTERS

Parallel Loss of Nuclear-Encoded Mitochondrial Aminoacyl-tRNA Synthetases and mtDNA-Encoded tRNAs in Cnidaria

(2010) Karri M. Haen et al.   MOLECULAR BIOLOGY AND EVOLUTION

Targeting of the cytosolic poly(A) binding protein PABPC1 to mitochondria causes mitochondrial translation inhibition

(2010) Mateusz Wydro et al.   NUCLEIC ACIDS RESEARCH

Adaptation of topoisomerase I paralogs to nuclear and mitochondrial DNA

(2009) Ilaria Dalla Rosa et al.   NUCLEIC ACIDS RESEARCH

Visualization of ATP levels inside single living cells with fluorescence resonance energy transfer-based genetically encoded indicators

(2009) H. Imamura et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The causes of mutation accumulation in mitochondrial genomes

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

Expansion of the human mitochondrial proteome by intra- and inter-compartmental protein duplication

(2009) Radek Szklarczyk et al.   GENOME BIOLOGY

Mitochondrial Topoisomerase I Sites in the Regulatory D-Loop Region of Mitochondrial DNA†

(2008) Hongliang Zhang et al.   BIOCHEMISTRY

RNase P without RNA: Identification and Functional Reconstitution of the Human Mitochondrial tRNA Processing Enzyme

(2008) Johann Holzmann et al.   CELL

Translational regulation of glutathione peroxidase 4 expression through guanine-rich sequence-binding factor 1 is essential for embryonic brain development

(2008) C. Ufer et al.   GENES & DEVELOPMENT

Inverted Replication of Vertebrate Mitochondria

(2008) M. M. Fonseca et al.   MOLECULAR BIOLOGY AND EVOLUTION