Cytonuclear Interactions in the Evolution of Animal Mitochondrial tRNA Metabolism

Structure of the nuclease subunit of human mitochondrial RNase P

(2015) L. Reinhard et al.   NUCLEIC ACIDS RESEARCH

The Analysis of Eight Transcriptomes from All Poriferan Classes Reveals Surprising Genetic Complexity in Sponges

(2014) Ana Riesgo et al.   MOLECULAR BIOLOGY AND EVOLUTION

Dynamic evolution of mitochondrial ribosomal proteins in Holozoa

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

The ctenophore genome and the evolutionary origins of neural systems

(2014) Leonid L. Moroz et al.   NATURE

Structure of the large ribosomal subunit from human mitochondria

(2014) A. Brown et al.   SCIENCE

Complete mitochondrial genomes elucidate phylogenetic relationships of the deep-sea octocoral families Coralliidae and Paragorgiidae

(2013) Diego F. Figueroa et al.   DEEP-SEA RESEARCH PART II-TOPICAL STUDIES IN OCEANOGRAPHY

Eight new mtDNA sequences of glass sponges reveal an extensive usage of +1 frameshifting in mitochondrial translation

(2013) Karri M. Haen et al.   GENE

Strikingly Bacteria-Like and Gene-Rich Mitochondrial Genomes throughout Jakobid Protists

(2013) Gertraud Burger 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

The Genome of the Ctenophore Mnemiopsis leidyi and Its Implications for Cell Type Evolution

(2013) J. F. Ryan et al.   SCIENCE

PhyloBayes MPI: Phylogenetic Reconstruction with Infinite Mixtures of Profiles in a Parallel Environment

(2013) Nicolas Lartillot et al.   SYSTEMATIC BIOLOGY

Accessorizing the human mitochondrial transcription machinery

(2013) Megan L. Bestwick et al.   TRENDS IN BIOCHEMICAL SCIENCES

Immune response of the Caribbean sea fan, Gorgonia ventalina, exposed to an Aplanochytrium parasite as revealed by transcriptome sequencing

(2013) Colleen A. Burge et al.   Frontiers in Physiology

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

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

Comparative description of ten transcriptomes of newly sequenced invertebrates and efficiency estimation of genomic sampling in non-model taxa

(2012) Ana Riesgo et al.   Frontiers in Zoology

Mitochondrial genomes from the lichenized fungi Peltigera membranacea and Peltigera malacea: Features and phylogeny

(2012) Basil Britto Xavier et al.   Fungal Biology

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

(2012) Fredrik Ronquist et al.   SYSTEMATIC BIOLOGY

SOAPdenovo2: an empirically improved memory-efficient short-read de novo assembler

(2012) Ruibang Luo et al.   GigaScience

Mitochondrial tRNA Import and Its Consequences for Mitochondrial Translation

(2011) André Schneider   Annual Review of Biochemistry

ProtTest 3: fast selection of best-fit models of protein evolution

(2011) Diego Darriba et al.   BIOINFORMATICS

Evolution of Linear Mitochondrial Genomes in Medusozoan Cnidarians

(2011) Ehsan Kayal et al.   Genome Biology and Evolution

Extreme mitochondrial evolution in the ctenophoreMnemiopsis leidyi: Insight from mtDNA and the nuclear genome

(2011) Walker Pett et al.   Mitochondrial DNA

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

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

Rapid evolution of the compact and unusual mitochondrial genome in the ctenophore, Pleurobrachia bachei

(2011) Andrea B. Kohn et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

HMMER web server: interactive sequence similarity searching

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

phangorn: phylogenetic analysis in R

(2010) Klaus Peter Schliep   BIOINFORMATICS

pplacer: linear time maximum-likelihood and Bayesian phylogenetic placement of sequences onto a fixed reference tree

(2010) Frederick A Matsen et al.   BMC BIOINFORMATICS

Evolutionary History of Arabidopsis thaliana Aminoacyl-tRNA Synthetase Dual-Targeted Proteins

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

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

The Amphimedon queenslandica genome and the evolution of animal complexity

(2010) Mansi Srivastava et al.   NATURE

A single Arabidopsis organellar protein has RNase P activity

(2010) Anthony Gobert et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Molecular Phylogeny Restores the Supra-Generic Subdivision of Homoscleromorph Sponges (Porifera, Homoscleromorpha)

(2010) Eve Gazave et al.   PLoS One

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

(2010) Stéphane Guindon et al.   SYSTEMATIC BIOLOGY

The mitochondrial genomes of sponges provide evidence for multiple invasions by Repetitive Hairpin-forming Elements (RHE)

(2009) Dirk Erpenbeck et al.   BMC GENOMICS

Phylogenomics Revives Traditional Views on Deep Animal Relationships

(2009) Hervé Philippe et al.   CURRENT BIOLOGY

Discovery and characterization of tRNAIle lysidine synthetase (TilS)

(2009) Tsutomu Suzuki et al.   FEBS LETTERS

Unexpected diversity of RNase P, an ancient tRNA processing enzyme: Challenges and prospects

(2009) Lien B. Lai et al.   FEBS LETTERS

Yeast mitochondrial Gln-tRNAGln is generated by a GatFAB-mediated transamidation pathway involving Arc1p-controlled subcellular sorting of cytosolic GluRS

(2009) M. Frechin et al.   GENES & DEVELOPMENT

Structural basis for translational fidelity ensured by transfer RNA lysidine synthetase

(2009) Kotaro Nakanishi et al.   NATURE

Protein structure prediction on the Web: a case study using the Phyre server

(2009) Lawrence A Kelley et al.   Nature Protocols

Biogenesis of glutaminyl-mt tRNAGln in human mitochondria

(2009) A. Nagao et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Compagen, a comparative genomics platform for early branching metazoan animals, reveals early origins of genes regulating stem-cell differentiation

(2008) Georg Hemmrich et al.   BIOESSAYS

Recent developments in the MAFFT multiple sequence alignment program

(2008) K. Katoh et al.   BRIEFINGS IN BIOINFORMATICS

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

(2008) Johann Holzmann et al.   CELL

On the Evolution of the tRNA-Dependent Amidotransferases, GatCAB and GatDE

(2008) Kelly Sheppard et al.   JOURNAL OF MOLECULAR BIOLOGY

The Mitochondrial Genome of a Deep-Sea Bamboo Coral (Cnidaria, Anthozoa, Octocorallia, Isididae): Genome Structure and Putative Origins of Replication Are Not Conserved Among Octocorals

(2008) Mercer R. Brugler et al.   JOURNAL OF MOLECULAR EVOLUTION

The Trichoplax genome and the nature of placozoans

(2008) Mansi Srivastava et al.   NATURE

Seventeen New Complete mtDNA Sequences Reveal Extensive Mitochondrial Genome Evolution within the Demospongiae

(2008) Xiujuan Wang et al.   PLoS One

Dual-targeted tRNA-dependent amidotransferase ensures both mitochondrial and chloroplastic Gln-tRNAGln synthesis in plants

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