History of Plastid DNA Insertions Reveals Weak Deletion and AT Mutation Biases in Angiosperm Mitochondrial Genomes

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

Ancient Nuclear Plastid DNA in the Yew Family (Taxaceae)

(2014) C.-Y. Hsu et al.   Genome Biology and Evolution

Unprecedented Heterogeneity in the Synonymous Substitution Rate within a Plant Genome

(2014) Andan Zhu et al.   MOLECULAR BIOLOGY AND EVOLUTION

Modernizing the Nonhomologous End-Joining Repertoire: Alternative and Classical NHEJ Share the Stage

(2013) Ludovic Deriano et al.   Annual Review of Genetics

The “fossilized” mitochondrial genome of Liriodendron tulipifera: ancestral gene content and order, ancestral editing sites, and extraordinarily low mutation rate

(2013) Aaron O Richardson et al.   BMC BIOLOGY

SHORT INDELS ARE SUBJECT TO INSERTION-BIASED GENE CONVERSION

(2013) Evgeny V. Leushkin et al.   EVOLUTION

Horizontal Transfer of DNA from the Mitochondrial to the Plastid Genome and Its Subsequent Evolution in Milkweeds (Apocynaceae)

(2013) Shannon C.K. Straub et al.   Genome Biology and Evolution

Plant Mitochondrial Genome Evolution Can Be Explained by DNA Repair Mechanisms

(2013) Alan C. Christensen   Genome Biology and Evolution

Horizontal Transfer of Entire Genomes via Mitochondrial Fusion in the Angiosperm Amborella

(2013) D. W. Rice et al.   SCIENCE

Massive Mitochondrial Gene Transfer in a Parasitic Flowering Plant Clade

(2013) Zhenxiang Xi et al.   PLoS Genetics

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

Plastid Sequences Contribute to Some Plant Mitochondrial Genes

(2012) D. Wang et al.   MOLECULAR BIOLOGY AND EVOLUTION

Intraspecific variation in mitochondrial genome sequence, structure, and gene content inSilene vulgaris, an angiosperm with pervasive cytoplasmic male sterility

(2012) Daniel B. Sloan et al.   NEW PHYTOLOGIST

A Complete Sequence and Transcriptomic Analyses of Date Palm (Phoenix dactylifera L.) Mitochondrial Genome

(2012) Yongjun Fang et al.   PLoS One

Selfish Little Circles: Transmission Bias and Evolution of Large Deletion-Bearing Mitochondrial DNA in Caenorhabditis briggsae Nematodes

(2012) Katie A. Clark et al.   PLoS One

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

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

A Strong Deletion Bias in Nonallelic Gene Conversion

(2012) Raquel Assis et al.   PLoS Genetics

An AT Mutational Bias in the Tiny GC-Rich Endosymbiont Genome of Hodgkinia

(2011) James T. Van Leuven et al.   Genome Biology and Evolution

Structural and Content Diversity of Mitochondrial Genome in Beet: A Comparative Genomic Analysis

(2011) A. Darracq et al.   Genome Biology and Evolution

Origins and Recombination of the Bacterial-Sized Multichromosomal Mitochondrial Genome of Cucumber

(2011) A. J. Alverson et al.   PLANT CELL

Conservation of Plastid Sequences in the Plant Nuclear Genome for Millions of Years Facilitates Endosymbiotic Evolution

(2011) M. Rousseau-Gueutin et al.   PLANT PHYSIOLOGY

Extensive loss of translational genes in the structurally dynamic mitochondrial genome of the angiosperm Silene latifolia

(2010) Daniel B Sloan et al.   BMC EVOLUTIONARY BIOLOGY

Localized hypermutation and associated gene losses in legume chloroplast genomes

(2010) A. M. Magee et al.   GENOME RESEARCH

Testing for Selection on Synonymous Sites in Plant Mitochondrial DNA: The Role of Codon Bias and RNA Editing

(2010) Daniel B. Sloan et al.   JOURNAL OF MOLECULAR EVOLUTION

Insights into the Evolution of Mitochondrial Genome Size from Complete Sequences of Citrullus lanatus and Cucurbita pepo (Cucurbitaceae)

(2010) A. J. Alverson et al.   MOLECULAR BIOLOGY AND EVOLUTION

Gorgeous mosaic of mitochondrial genes created by horizontal transfer and gene conversion

(2010) W. Hao et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Evidence of Selection upon Genomic GC-Content in Bacteria

(2010) Falk Hildebrand et al.   PLoS Genetics

Evidence That Mutation Is Universally Biased towards AT in Bacteria

(2010) Ruth Hershberg et al.   PLoS Genetics

Molecular Poltergeists: Mitochondrial DNA Copies (numts) in Sequenced Nuclear Genomes

(2010) Einat Hazkani-Covo et al.   PLoS Genetics

Biased Gene Conversion and the Evolution of Mammalian Genomic Landscapes

(2009) Laurent Duret et al.   Annual Review of Genomics and Human Genetics

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

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

Deletional Bias across the Three Domains of Life

(2009) Chih-Horng Kuo et al.   Genome Biology and Evolution

Fine-scale mergers of chloroplast and mitochondrial genes create functional, transcompartmentally chimeric mitochondrial genes

(2009) W. Hao et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Angiosperm mitochondrial genomes and mutations

(2007) Tomohiko Kubo et al.   MITOCHONDRION