Comparative Analysis of the Complete Chloroplast Genomes of Five Quercus Species

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

(2015) Shiliang Hu et al.   BMC GENOMICS

The complete chloroplast genome sequence of Morus mongolica and a comparative analysis within the Fabidae clade

(2015) Weiqing Kong et al.   CURRENT GENETICS

Complete chloroplast genome of the Oriental white oak:Quercus alienaBlume

(2015) Sihai Lu et al.   Mitochondrial DNA

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

An improved method for chloroplast genome sequencing in non-model forest tree species

(2015) Fang K. Du et al.   Tree Genetics & Genomes

Analysis of the complete chloroplast genome of Castanea pumila var. pumila, the Allegheny chinkapin

(2015) Fenny Dane et al.   Tree Genetics & Genomes

Comparative analysis of complete chloroplast genome sequences of two tropical trees Machilus yunnanensis and Machilus balansae in the family Lauraceae

(2015) Yu Song et al.   Frontiers in Plant Science

The complete chloroplast genome of Quercus baronii (Quercus L.)

(2015) Yan-ci Yang et al.   Mitochondrial DNA Part A

Complete Plastid Genome Sequencing of Four Tilia Species (Malvaceae): A Comparative Analysis and Phylogenetic Implications

(2015) Jie Cai et al.   PLoS One

Chloroplast DNA sequence utility for the lowest phylogenetic and phylogeographic inferences in angiosperms: The tortoise and the hare IV

(2014) Joey Shaw et al.   AMERICAN JOURNAL OF BOTANY

The first complete chloroplast genome of the Genistoid legume Lupinus luteus: evidence for a novel major lineage-specific rearrangement and new insights regarding plastome evolution in the legume family

(2014) Guillaume E. Martin et al.   ANNALS OF BOTANY

Thirteen Camellia chloroplast genome sequences determined by high-throughput sequencing: genome structure and phylogenetic relationships

(2014) Hui Huang et al.   BMC EVOLUTIONARY BIOLOGY

Chloroplast Phylogenomic Analyses Resolve Deep-Level Relationships of an Intractable Bamboo Tribe Arundinarieae (Poaceae)

(2014) Peng-Fei Ma et al.   SYSTEMATIC BIOLOGY

Multiple nuclear genes stabilize the phylogenetic backbone of the genusQuercus

(2014) François Hubert et al.   SYSTEMATICS AND BIODIVERSITY

Pyrosequencing of the northern red oak (Quercus rubra L.) chloroplast genome reveals high quality polymorphisms for population management

(2014) Lisa W. Alexander et al.   Tree Genetics & Genomes

Application of plastid and nuclear markers to DNA barcoding of Euro-Mediterranean oaks (Quercus, Fagaceae): problems, prospects and phylogenetic implications

(2013) Marco C. Simeone et al.   BOTANICAL JOURNAL OF THE LINNEAN SOCIETY

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

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

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

Reconstructing mitochondrial genomes directly from genomic next-generation sequencing reads—a baiting and iterative mapping approach

(2013) Christoph Hahn et al.   NUCLEIC ACIDS RESEARCH

OrganellarGenomeDRAW—a suite of tools for generating physical maps of plastid and mitochondrial genomes and visualizing expression data sets

(2013) Marc Lohse et al.   NUCLEIC ACIDS RESEARCH

Uncovering the Protein Translocon at the Chloroplast Inner Envelope Membrane

(2013) S. Kikuchi et al.   SCIENCE

Plastid genomes and deep relationships among the commelinid monocot angiosperms

(2012) Craig F. Barrett et al.   CLADISTICS

Genetic evidence for hybridization in red oaks (Quercus sect. Lobatae , Fagaceae)

(2011) Emily V. Moran et al.   AMERICAN JOURNAL OF BOTANY

MEGA5: Molecular Evolutionary Genetics Analysis Using Maximum Likelihood, Evolutionary Distance, and Maximum Parsimony Methods

(2011) K. Tamura et al.   MOLECULAR BIOLOGY AND EVOLUTION

High-Throughput Sequencing of Six Bamboo Chloroplast Genomes: Phylogenetic Implications for Temperate Woody Bamboos (Poaceae: Bambusoideae)

(2011) Yun-Jie Zhang et al.   PLoS One

Choosing and Using a Plant DNA Barcode

(2011) Peter M. Hollingsworth et al.   PLoS One

Structure and biogenesis of the chloroplast NAD(P)H dehydrogenase complex

(2010) Lianwei Peng et al.   BIOCHIMICA ET BIOPHYSICA ACTA-BIOENERGETICS

Thermodynamic analysis of the wetting behavior of dual scale patterned hydrophobic surfaces

(2010) Seyed Hosein Sajadinia et al.   JOURNAL OF COLLOID AND INTERFACE SCIENCE

Implications of the Plastid Genome Sequence of Typha (Typhaceae, Poales) for Understanding Genome Evolution in Poaceae

(2010) Mary M. Guisinger et al.   JOURNAL OF MOLECULAR 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

Prospects of barcoding the Italian wild dendroflora: oaks reveal severe limitations to tracking species identity

(2010) ROBERTA PIREDDA et al.   Molecular Ecology Resources

Limitations of next-generation genome sequence assembly

(2010) Can Alkan et al.   NATURE METHODS

The Complete Chloroplast Genome Sequence of Date Palm (Phoenix dactylifera L.)

(2010) Meng Yang et al.   PLoS One

Phylogenetic analysis of 83 plastid genes further resolves the early diversification of eudicots

(2010) M. J. Moore et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

DnaSP v5: a software for comprehensive analysis of DNA polymorphism data

(2009) P. Librado et al.   BIOINFORMATICS

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

(2009) Matthew Parks et al.   BMC BIOLOGY

Detection of hybrids in nature: application to oaks (Quercus suber and Q. ilex)

(2009) C Burgarella et al.   HEREDITY

Significance of Pollen Characteristics for Infrageneric Classification and Phylogeny in Quercus (Fagaceae)

(2009) Thomas Denk et al.   INTERNATIONAL JOURNAL OF PLANT SCIENCES

A DNA barcode for land plants

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

Dynamics and evolution of the inverted repeat-large single copy junctions in the chloroplast genomes of monocots

(2008) Rui-Jiang Wang et al.   BMC EVOLUTIONARY BIOLOGY

Extensive Reorganization of the Plastid Genome of Trifolium subterraneum (Fabaceae) Is Associated with Numerous Repeated Sequences and Novel DNA Insertions

(2008) Zhengqiu Cai et al.   JOURNAL OF MOLECULAR EVOLUTION

The Complete Nucleotide Sequences of the 5 Genetically Distinct Plastid Genomes of Oenothera, Subsection Oenothera: II. A Microevolutionary View Using Bioinformatics and Formal Genetic Data

(2008) S. Greiner et al.   MOLECULAR BIOLOGY AND EVOLUTION

Synonymous Substitutions Substantially Improve Evolutionary Inference from Highly Diverged Proteins

(2008) Tae-Kun Seo et al.   SYSTEMATIC BIOLOGY

msatcommander: detection of microsatellite repeat arrays and automated, locus-specific primer design

(2007) BRANT C. FAIRCLOTH   Molecular Ecology Resources