Interspecific Plastome Recombination Reflects Ancient Reticulate Evolution in Picea (Pinaceae)

Biparental chloroplast inheritance leads to rescue from cytonuclear incompatibility

(2016) Karen B. Barnard-Kubow et al.   NEW PHYTOLOGIST

Plastome organization and evolution of chloroplast genes in Cardamine species adapted to contrasting habitats

(2015) Shiliang Hu et al.   BMC GENOMICS

Interspecific plastidial recombination in the diatom genusPseudo-nitzschia

(2015) Domenico D'Alelio et al.   JOURNAL OF PHYCOLOGY

A Phylogenetic Analysis of 34 Chloroplast Genomes Elucidates the Relationships between Wild and Domestic Species within the GenusCitrus

(2015) Jose Carbonell-Caballero et al.   MOLECULAR BIOLOGY AND EVOLUTION

Mitochondrial introgression and complex biogeographic history of the genus Picea

(2015) Jin-Hua Ran et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

YCF1: A Green TIC?

(2015) Jan de Vries et al.   PLANT CELL

DNA barcoding of recently diversified tree species: a case study on spruces based on 20 DNA fragments from three different genomes

(2015) Jiabin Zou et al.   TREES-STRUCTURE AND FUNCTION

The complete plastid genome sequence ofPicea jezoensis(Pinaceae: Piceoideae)

(2015) Jong Cheol Yang et al.   Mitochondrial DNA Part A

ycf1, the most promising plastid DNA barcode of land plants

(2015) Wenpan Dong et al.   Scientific Reports

ExSPAnder: a universal repeat resolver for DNA fragment assembly

(2014) A. D. Prjibelski et al.   BIOINFORMATICS

RAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies

(2014) Alexandros Stamatakis   BIOINFORMATICS

Selecting optimal partitioning schemes for phylogenomic datasets

(2014) Robert Lanfear et al.   BMC EVOLUTIONARY BIOLOGY

PopGenome: An Efficient Swiss Army Knife for Population Genomic Analyses in R

(2014) Bastian Pfeifer et al.   MOLECULAR BIOLOGY AND EVOLUTION

Mitochondrial DNA capture and divergence in Pinus provide new insights into the evolution of the genus

(2014) Baosheng Wang et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Genetic and morphological structure of a spruce hybrid (Picea sitchensis × P. glauca ) zone along a climatic gradient

(2013) Jill A. Hamilton et al.   AMERICAN JOURNAL OF BOTANY

Structural and Functional Evolution of Positively Selected Sites in Pine GlutathioneS-Transferase Enzyme Family

(2013) Ting Lan et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

MAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability

(2013) K. Katoh et al.   MOLECULAR BIOLOGY AND EVOLUTION

A new phylogeny for the genus Picea from plastid, mitochondrial, and nuclear sequences

(2013) Jared D. Lockwood et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

The Norway spruce genome sequence and conifer genome evolution

(2013) Björn Nystedt et al.   NATURE

Uncovering the Protein Translocon at the Chloroplast Inner Envelope Membrane

(2013) S. Kikuchi et al.   SCIENCE

A Lower Cretaceous (Valanginian) seed cone provides the earliest fossil record for Picea (Pinaceae)

(2012) Ashley A. Klymiuk et al.   AMERICAN JOURNAL OF BOTANY

Contrasting patterns of nucleotide diversity for four conifers of Alpine European forests

(2012) Elena Mosca et al.   Evolutionary Applications

SPAdes: A New Genome Assembly Algorithm and Its Applications to Single-Cell Sequencing

(2012) Anton Bankevich et al.   JOURNAL OF COMPUTATIONAL BIOLOGY

PartitionFinder: Combined Selection of Partitioning Schemes and Substitution Models for Phylogenetic Analyses

(2012) R. Lanfear et al.   MOLECULAR BIOLOGY AND EVOLUTION

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

Comparative Chloroplast Genomes of Pinaceae: Insights into the Mechanism of Diversified Genomic Organizations

(2011) Chung-Shien Wu et al.   Genome Biology and Evolution

Direction and extent of organelle DNA introgression between two spruce species in the Qinghai-Tibetan Plateau

(2011) Fang K. Du et al.   NEW PHYTOLOGIST

phangorn: phylogenetic analysis in R

(2010) Klaus Peter Schliep   BIOINFORMATICS

Recombination and the maintenance of plant organelle genome stability

(2010) Alexandre Maréchal et al.   NEW PHYTOLOGIST

Patterns of hybridization in plants

(2010) Kenneth D. Whitney et al.   PERSPECTIVES IN PLANT ECOLOGY EVOLUTION AND SYSTEMATICS

Discordant mtDNA and cpDNA phylogenies indicate geographic speciation and reticulation as driving factors for the diversification of the genus Picea

(2010) Marie Bouillé et al.   Tree Genetics & Genomes

Parallelized phylogenetic post-analysis on multi-core architectures

(2010) Andre J. Aberer et al.   Journal of Computational Science

Increasing phylogenetic resolution at low taxonomic levels using massively parallel sequencing of chloroplast genomes

(2009) Matthew Parks et al.   BMC BIOLOGY

Circos: An information aesthetic for comparative genomics

(2009) M. Krzywinski et al.   GENOME RESEARCH

Detection of rare paternal chloroplast inheritance in controlled crosses of the endangered sunflower Helianthus verticillatus

(2008) J R Ellis et al.   HEREDITY

Reticulate or tree-like chloroplast DNA evolution in Sileneae (Caryophyllaceae)?

(2008) Per Erixon et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Chlamydomonas chloroplasts can use short dispersed repeats and multiple pathways to repair a double-strand break in the genome

(2008) Obed W. Odom et al.   PLANT JOURNAL

Surfing during population expansions promotes genetic revolutions and structuration

(2008) Laurent Excoffier et al.   TRENDS IN ECOLOGY & EVOLUTION