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

Coevolution between Nuclear-Encoded DNA Replication, Recombination, and Repair Genes and Plastid Genome Complexity

(2016) Jin Zhang et al.   Genome Biology and Evolution

Complete plastome sequence of Thalictrum coreanum (Ranunculaceae) and transfer of the rpl32 gene to the nucleus in the ancestor of the subfamily Thalictroideae

(2015) Seongjun Park et al.   BMC PLANT BIOLOGY

NDH expression marks major transitions in plant evolution and reveals coordinate intracellular gene loss

(2015) Tracey A Ruhlman et al.   BMC PLANT BIOLOGY

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

(2015) Jin Zhang et al.   PLANT CELL

Compensatory Mutations Occur Within the Electrostatic Interaction Range of Deleterious Mutations in Protein Structure

(2014) Amrita Bhattacherjee et al.   JOURNAL OF MOLECULAR EVOLUTION

RELAX: Detecting Relaxed Selection in a Phylogenetic Framework

(2014) Joel O. Wertheim et al.   MOLECULAR BIOLOGY AND EVOLUTION

Using plants to elucidate the mechanisms of cytonuclear co-evolution

(2014) Daniel B. Sloan   NEW PHYTOLOGIST

CDD: NCBI's conserved domain database

(2014) Aron Marchler-Bauer et al.   NUCLEIC ACIDS RESEARCH

Tuning a ménage à trois: Co-evolution and co-adaptation of nuclear and organellar genomes in plants

(2013) Stephan Greiner et al.   BIOESSAYS

Comparative analyses of two Geraniaceae transcriptomes using next-generation sequencing

(2013) Jin Zhang et al.   BMC PLANT BIOLOGY

Massively Convergent Evolution for Ribosomal Protein Gene Content in Plastid and Mitochondrial Genomes

(2013) Uwe-G Maier et al.   Genome Biology and Evolution

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

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

Reconstruction of the Ancestral Plastid Genome in Geraniaceae Reveals a Correlation between Genome Rearrangements, Repeats, and Nucleotide Substitution Rates

(2013) Mao-Lun Weng et al.   MOLECULAR BIOLOGY AND EVOLUTION

Cytonuclear Interactions and Relaxed Selection Accelerate Sequence Evolution in Organelle Ribosomes

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

Convergent gene loss following gene and genome duplications creates single-copy families in flowering plants

(2013) R. De Smet et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Geneious Basic: An integrated and extendable desktop software platform for the organization and analysis of sequence data

(2012) M. Kearse et al.   BIOINFORMATICS

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

Phylogeny, rate variation, and genome size evolution of Pelargonium (Geraniaceae)

(2012) Mao-Lun Weng et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

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

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

Ancestral polyploidy in seed plants and angiosperms

(2011) Yuannian Jiao et al.   NATURE

Phytozome: a comparative platform for green plant genomics

(2011) David M. Goodstein et al.   NUCLEIC ACIDS RESEARCH

Nonessential Plastid-Encoded Ribosomal Proteins in Tobacco: A Developmental Role for Plastid Translation and Implications for Reductive Genome Evolution

(2011) Tobias T. Fleischmann et al.   PLANT CELL

Prevalence of Epistasis in the Evolution of Influenza A Surface Proteins

(2011) Sergey Kryazhimskiy et al.   PLoS Genetics

An Integrated View of Molecular Coevolution in Protein-Protein Interactions

(2010) S. C. Lovell et al.   MOLECULAR BIOLOGY AND EVOLUTION

Complete Plastid Genome Sequences of Three Rosids (Castanea, Prunus, Theobroma): Evidence for At Least Two Independent Transfers of rpl22 to the Nucleus

(2010) R. K. Jansen 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

Hybrid incompatibility genes: remnants of a genomic battlefield?

(2010) Norman A. Johnson   TRENDS IN GENETICS

The Functional Transfer of Genes From the Mitochondria to the Nucleus: The Effects of Selection, Mutation, Population Size and Rate of Self-Fertilization

(2009) Yaniv Brandvain et al.   GENETICS

The causes of mutation accumulation in mitochondrial genomes

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

DNA Transfer from Organelles to the Nucleus: The Idiosyncratic Genetics of Endosymbiosis

(2008) Tatjana Kleine et al.   Annual Review of Plant Biology

Substitution of the Gene for Chloroplast RPS16 Was Assisted by Generation of a Dual Targeting Signal

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

Relative rates of synonymous substitutions in the mitochondrial, chloroplast and nuclear genomes of seed plants

(2008) G DROUIN et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

PPDB, the Plant Proteomics Database at Cornell

(2008) Qi Sun et al.   NUCLEIC ACIDS RESEARCH

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