Comparative Chloroplast Genomes of Photosynthetic Orchids: Insights into Evolution of the Orchidaceae and Development of Molecular Markers for Phylogenetic Applications

RNA Editing in Plants and Its Evolution

(2013) Mizuki Takenaka et al.   Annual Review of Genetics

Complete plastid genomes from Ophioglossum californicum, Psilotum nudum, and Equisetum hyemale reveal an ancestral land plant genome structure and resolve the position of Equisetales among monilophytes

(2013) Felix Grewe et al.   BMC EVOLUTIONARY BIOLOGY

Complete chloroplast genome of the genus Cymbidium: lights into the species identification, phylogenetic implications and population genetic analyses

(2013) Jun-Bo Yang et al.   BMC EVOLUTIONARY BIOLOGY

Complete Genome Sequence of Streptococcus dysgalactiae subsp. equisimilis 167 Carrying Lancefield Group C Antigen and Comparative Genomics of S. dysgalactiae subsp. equisimilis Strains

(2013) Shinya Watanabe et al.   Genome Biology and Evolution

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

The Complete Chloroplast Genome Sequence of the Medicinal Plant Salvia miltiorrhiza

(2013) Jun Qian et al.   PLoS One

Complete Chloroplast Genome Sequences of Mongolia Medicine Artemisia frigida and Phylogenetic Relationships with Other Plants

(2013) Yue Liu et al.   PLoS One

Complete Sequence and Comparative Analysis of the Chloroplast Genome of Coconut Palm (Cocos nucifera)

(2013) Ya-Yi Huang et al.   PLoS One

The plastid genome of the mycoheterotrophic Corallorhiza striata (Orchidaceae) is in the relatively early stages of degradation

(2012) Craig F. Barrett et al.   AMERICAN JOURNAL OF BOTANY

Systematic investigation of insertional and deletional RNA-DNA differences in the human transcriptome

(2012) Cai Chen et al.   BMC GENOMICS

Complete cpDNA genome sequence of Smilax china and phylogenetic placement of Liliales – Influences of gene partitions and taxon sampling

(2012) Juan Liu et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

The comparative chloroplast genomic analysis of photosynthetic orchids and developing DNA markers to distinguish Phalaenopsis orchids

(2012) Cheng-Fong Jheng et al.   PLANT SCIENCE

Complete Chloroplast Genome Sequence of an Orchid Model Plant Candidate: Erycina pusilla Apply in Tropical Oncidium Breeding

(2012) I-Chun Pan et al.   PLoS One

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

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

Sequencing and Analysis of Plastid Genome in Mycoheterotrophic Orchid Neottia nidus-avis

(2011) Maria D. Logacheva et al.   Genome Biology and Evolution

Rampant Gene Loss in the Underground Orchid Rhizanthella gardneri Highlights Evolutionary Constraints on Plastid Genomes

(2011) E. Delannoy et al.   MOLECULAR BIOLOGY AND EVOLUTION

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

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

The phylogeny of the BEP clade in grasses revisited: Evidence from the whole-genome sequences of chloroplasts

(2011) Zhi-Qiang Wu et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

raxmlGUI: a graphical front-end for RAxML

(2011) Daniele Silvestro et al.   ORGANISMS DIVERSITY & EVOLUTION

Chloroplast genomes of photosynthetic eukaryotes

(2011) Beverley R. Green   PLANT JOURNAL

To Thy Proteins Be True: RNA Editing in Plants

(2011) A. K. Grennan   PLANT PHYSIOLOGY

Large Scale Library Generation for High Throughput Sequencing

(2011) Erik Borgström et al.   PLoS One

Reassessing the temporal evolution of orchids with new fossils and a Bayesian relaxed clock, with implications for the diversification of the rare South American genus Hoffmannseggella (Orchidaceae: Epidendroideae)

(2010) A Lovisa S Gustafsson et al.   BMC EVOLUTIONARY BIOLOGY

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

When you can’t trust the DNA: RNA editing changes transcript sequences

(2010) Volker Knoop   CELLULAR AND MOLECULAR LIFE SCIENCES

The evolution of chloroplast genome structure in ferns

(2010) Paul G. Wolf et al.   GENOME

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

Phylogenetic relationships within Orchidaceae based on a low-copy nuclear coding gene, Xdh: Congruence with organellar and nuclear ribosomal DNA results

(2010) Marcin Górniak et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Plastid ndh genes in plant evolution

(2010) Mercedes Martín et al.   PLANT PHYSIOLOGY AND BIOCHEMISTRY

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

(2010) Meng Yang et al.   PLoS One

The complete chloroplast genome of tall fescue (Lolium arundinaceum ; Poaceae) and comparison of whole plastomes from the family Poaceae

(2009) A. Bruce Cahoon et al.   AMERICAN JOURNAL OF BOTANY

PhyloBayes 3: a Bayesian software package for phylogenetic reconstruction and molecular dating

(2009) Nicolas Lartillot et al.   BIOINFORMATICS

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

(2009) P. Librado et al.   BIOINFORMATICS

Complete chloroplast genome sequence of a tree fern Alsophila spinulosa: insights into evolutionary changes in fern chloroplast genomes

(2009) Lei Gao et al.   BMC EVOLUTIONARY 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

The sequence and de novo assembly of the giant panda genome

(2009) Ruiqiang Li et al.   NATURE

The PREP suite: predictive RNA editors for plant mitochondrial genes, chloroplast genes and user-defined alignments

(2009) J. P. Mower   NUCLEIC ACIDS RESEARCH

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

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

The complete plastid genome sequence of Welwitschia mirabilis: an unusually compact plastome with accelerated divergence rates

(2008) Skip R McCoy et al.   BMC EVOLUTIONARY BIOLOGY

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

Cucumber, melon, pumpkin, and squash: Are rules of editing in flowering plants chloroplast genes so well known indeed?

(2008) Magdalena Guzowska-Nowowiejska et al.   GENE

Molecular evolution of rbcL in the mycoheterotrophic coralroot orchids (Corallorhiza Gagnebin, Orchidaceae)

(2008) Craig F. Barrett et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Phylogenetic utility of ycf1 in orchids: a plastid gene more variable than matK

(2008) Kurt M. Neubig et al.   PLANT SYSTEMATICS AND EVOLUTION