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

Low-copy nuclear primers and ycf1 primers in Cactaceae

(2012) Alan R. Franck et al.   AMERICAN JOURNAL OF BOTANY

Polymorphic chloroplast microsatellite loci in Nelumbo (Nelumbonaceae)

(2012) J. Xue et al.   AMERICAN JOURNAL OF BOTANY

The Complete Chloroplast Genome of Ginkgo biloba Reveals the Mechanism of Inverted Repeat Contraction

(2012) Ching-Ping Lin et al.   Genome Biology and Evolution

Mutational Dynamics of Aroid Chloroplast Genomes

(2012) Ibrar Ahmed et al.   Genome Biology and Evolution

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

Nelumbonaceae: Systematic position and species diversification revealed by the complete chloroplast genome

(2012) Jian-Hua XUE et al.   Journal of Systematics and Evolution

Angiosperm phylogeny: 17 genes, 640 taxa

(2011) Douglas E. Soltis et al.   AMERICAN JOURNAL OF BOTANY

The Complete Chloroplast Genome of 17 Individuals of Pest Species Jacobaea vulgaris: SNPs, Microsatellites and Barcoding Markers for Population and Phylogenetic Studies

(2011) L. Doorduin et al.   DNA RESEARCH

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

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

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

Phylogenetic Analysis of the Plastid Inverted Repeat for 244 Species: Insights into Deeper-Level Angiosperm Relationships from a Long, Slowly Evolving Sequence Region

(2011) Michael J. Moore et al.   INTERNATIONAL JOURNAL OF PLANT SCIENCES

A Set of 100 Chloroplast DNA Primer Pairs to Study Population Genetics and Phylogeny in Monocotyledons

(2011) Nora Scarcelli et al.   PLoS One

How Many Species Are There on Earth and in the Ocean?

(2011) Camilo Mora et al.   PLOS BIOLOGY

Primer development for the plastid region ycf1 in Annonaceae and other magnoliids

(2010) Kurt M. Neubig et al.   AMERICAN JOURNAL OF BOTANY

Complete chloroplast genome of Oncidium Gower Ramsey and evaluation of molecular markers for identification and breeding in Oncidiinae

(2010) Fu-Hui Wu et al.   BMC PLANT BIOLOGY

Comparative Chloroplast Genomics Reveals the Evolution of Pinaceae Genera and Subfamilies

(2010) Ching-Ping Lin et al.   Genome 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

Whole genome sequencing of enriched chloroplast DNA using the Illumina GAII platform

(2010) Robin A Atherton et al.   Plant Methods

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

AIR: A batch-oriented web program package for construction of supermatrices ready for phylogenomic analyses

(2009) Surendra Kumar et al.   BMC BIOINFORMATICS

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

(2009) Matthew Parks et al.   BMC BIOLOGY

Comparative analysis of the complete sequence of the plastid genome of Parthenium argentatum and identification of DNA barcodes to differentiate Parthenium species and lines

(2009) Shashi Kumar et al.   BMC PLANT BIOLOGY

The Complete Chloroplast Genome of Coix lacryma-jobi and a Comparative Molecular Evolutionary Analysis of Plastomes in Cereals

(2009) Charles H. Leseberg et al.   JOURNAL OF MOLECULAR EVOLUTION

Evolution of reduced and compact chloroplast genomes (cpDNAs) in gnetophytes: Selection toward a lower-cost strategy

(2009) Chung-Shien Wu et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Complete nucleotide sequence of Dendrocalamus latiflorus and Bambusa oldhamii chloroplast genomes

(2009) F.-H. Wu et al.   TREE PHYSIOLOGY

Chloroplast genome sequencing analysis of Heterosigma akashiwo CCMP452 (West Atlantic) and NIES293 (West Pacific) strains

(2008) Rose Cattolico et al.   BMC GENOMICS

Velvet: Algorithms for de novo short read assembly using de Bruijn graphs

(2008) D. R. Zerbino et al.   GENOME RESEARCH

Complete Sequence of the Duckweed (Lemna minor) Chloroplast Genome: Structural Organization and Phylogenetic Relationships to Other Angiosperms

(2008) Andrey V. Mardanov et al.   JOURNAL OF MOLECULAR EVOLUTION

Extensive Rearrangements in the Chloroplast Genome of Trachelium caeruleum Are Associated with Repeats and tRNA Genes

(2008) Rosemarie C. Haberle et al.   JOURNAL OF MOLECULAR EVOLUTION

Resolving an Ancient, Rapid Radiation in Saxifragales

(2008) Shuguang Jian et al.   SYSTEMATIC BIOLOGY