Dynamic evolution and phylogenomic analysis of the chloroplast genome in Schisandraceae

The Complete Chloroplast Genome Sequences of the Medicinal Plant Forsythia suspensa (Oleaceae)

(2017) Wenbin Wang et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

Species-level phylogeny, fruit evolution and diversification history of Geranium (Geraniaceae)

(2017) Thomas Marcussen et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

ModelFinder: fast model selection for accurate phylogenetic estimates

(2017) Subha Kalyaanamoorthy et al.   NATURE METHODS

Complete chloroplast genome sequences of Schisandra chinensis: genome structure, comparative analysis, and phylogenetic relationship of basal angiosperms

(2017) Haojie Guo et al.   Science China-Life Sciences

The Complete Chloroplast Genome of Wild Rice (Oryza minuta) and Its Comparison to Related Species

(2017) Sajjad Asaf et al.   Frontiers in Plant Science

Phylogenetic Resolution in Juglans Based on Complete Chloroplast Genomes and Nuclear DNA Sequences

(2017) Wenpan Dong et al.   Frontiers in Plant Science

The complete chloroplast genome sequences of three Adenophora species and comparative analysis with Campanuloid species (Campanulaceae)

(2017) Kyeong-Sik Cheon et al.   PLoS One

Phylogenomics and historical biogeography of the monocot order Liliales: out of Australia and through Antarctica

(2016) Thomas J. Givnish et al.   CLADISTICS

Plastid genome sequencing reveals biogeographical structure and extensive population genetic variation in wild populations ofPhalaris arundinaceaL. in north-western Europe

(2016) Aude Perdereau et al.   Global Change Biology Bioenergy

Integration of complete chloroplast genome sequences with small amplicon datasets improves phylogenetic resolution in Acacia

(2016) Anna V. Williams et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

PMDBase: a database for studying microsatellite DNA and marker development in plants

(2016) Jingyin Yu et al.   NUCLEIC ACIDS RESEARCH

Development of chloroplast genomic resources for Akebia quinata (Lardizabalaceae)

(2016) Bin Li et al.   Conservation Genetics Resources

Plastid phylogenomics and molecular evolution of Alismatales

(2015) T. Gregory Ross et al.   CLADISTICS

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

The Root of Flowering Plants and Total Evidence

(2015) V. V. Goremykin et al.   SYSTEMATIC BIOLOGY

Plastid genome sequences of legumes reveal parallel inversions and multiple losses ofrps16in papilionoids

(2015) Erika N. Schwarz et al.   Journal of Systematics and Evolution

Plann: A Command-Line Application for Annotating Plastome Sequences

(2015) Daisie I. Huang et al.   Applications in Plant Sciences

Evaluation of Four Commonly Used DNA Barcoding Loci for Chinese Medicinal Plants of the Family Schisandraceae

(2015) Jian Zhang et al.   PLoS One

Plant DNA barcoding: from gene to genome

(2014) Xiwen Li et al.   BIOLOGICAL REVIEWS

From algae to angiosperms–inferring the phylogeny of green plants (Viridiplantae) from 360 plastid genomes

(2014) Brad R Ruhfel et al.   BMC EVOLUTIONARY BIOLOGY

IQ-TREE: A Fast and Effective Stochastic Algorithm for Estimating Maximum-Likelihood Phylogenies

(2014) Lam-Tung Nguyen et al.   MOLECULAR BIOLOGY AND EVOLUTION

Evolutionary and biotechnology implications of plastid genome variation in the inverted-repeat-lacking clade of legumes

(2014) Jamal Sabir et al.   PLANT BIOTECHNOLOGY JOURNAL

The dynamic history of plastid genomes in the Campanulaceae sensu lato is unique among angiosperms

(2014) E. B. Knox   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

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

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

How many species of bracken (Pteridium) are there? Assessing the Chinese brackens using molecular evidence

(2014) Shiliang Zhou et al.   TAXON

Sequencing Angiosperm Plastid Genomes Made Easy: A Complete Set of Universal Primers and a Case Study on the Phylogeny of Saxifragales

(2013) Wenpan Dong 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

Streptophyte Algae and the Origin of Land Plants Revisited Using Heterogeneous Models with Three New Algal Chloroplast Genomes

(2013) Bojian Zhong 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

Complete Chloroplast Genome of Sedum sarmentosum and Chloroplast Genome Evolution in Saxifragales

(2013) Wenpan Dong et al.   PLoS One

Plastid genomes and deep relationships among the commelinid monocot angiosperms

(2012) Craig F. Barrett et al.   CLADISTICS

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

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

Highly Variable Chloroplast Markers for Evaluating Plant Phylogeny at Low Taxonomic Levels and for DNA Barcoding

(2012) Wenpan Dong et al.   PLoS One

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

(2012) Fredrik Ronquist et al.   SYSTEMATIC BIOLOGY

Loss of Different Inverted Repeat Copies from the Chloroplast Genomes of Pinaceae and Cupressophytes and Influence of Heterotachy on the Evaluation of Gymnosperm Phylogeny

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

Piecing together the puzzle of parasitic plant plastome evolution

(2011) Kirsten Krause   PLANTA

Flower heating following anthesis and the evolution of gall midge pollination in Schisandraceae

(2010) Shi-Xiao Luo et al.   AMERICAN JOURNAL OF BOTANY

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

(2009) P. Librado et al.   BIOINFORMATICS

A phylogenetic classification of the land plants to accompany APG III

(2009) MARK W. CHASE et al.   BOTANICAL JOURNAL OF THE LINNEAN SOCIETY

Palynological data on Illiciaceae and Schisandraceae confirm phylogenetic relationships within these two basally-branching angiosperm families

(2009) Hong Wang et al.   FLORA

Chloroplast simple sequence repeats (cpSSRs): technical resources and recommendations for expanding cpSSR discovery and applications to a wide array of plant species

(2009) DANIEL EBERT et al.   Molecular Ecology Resources

Mutational dynamics and phylogenetic utility of noncoding chloroplast DNA

(2009) Thomas Borsch et al.   PLANT SYSTEMATICS AND EVOLUTION

GenomeVx: simple web-based creation of editable circular chromosome maps

(2008) G. C. Conant et al.   BIOINFORMATICS

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

Homology in coding and non-coding DNA sequences: a parsimony perspective

(2008) Helga Ochoterena   PLANT SYSTEMATICS AND EVOLUTION

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