The Amborella Genome and the Evolution of Flowering Plants

Land plant evolutionary timeline: Gene effects are secondary to fossil constraints in relaxed clock estimation of age and substitution rates

(2013) Susana Magallón et al.   AMERICAN JOURNAL OF BOTANY

Phylogeny and evolutionary history of glycogen synthase kinase 3/SHAGGY-like kinase genes in land plants

(2013) Xinshuai Qi et al.   BMC EVOLUTIONARY BIOLOGY

The Norway spruce genome sequence and conifer genome evolution

(2013) Björn Nystedt et al.   NATURE

Architecture and evolution of a minute plant genome

(2013) Enrique Ibarra-Laclette et al.   NATURE

The high-quality draft genome of peach (Prunus persica) identifies unique patterns of genetic diversity, domestication and genome evolution

(2013) Ignazio Verde et al.   NATURE GENETICS

Gene body methylation is conserved between plant orthologs and is of evolutionary consequence

(2013) S. Takuno et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Assembly and Validation of the Genome of the Nonmodel Basal Angiosperm Amborella

(2013) S. Chamala et al.   SCIENCE

Genome of the long-living sacred lotus (Nelumbo nucifera Gaertn.)

(2013) Ray Ming et al.   GENOME BIOLOGY

Molecular and Fossil Evidence on the Origin of Angiosperms

(2012) James A. Doyle   Annual Review of Earth and Planetary Sciences

Gene duplication and an accelerated evolutionary rate in 11S globulin genes are associated with higher protein synthesis in dicots as compared to monocots

(2012) Chun Li et al.   BMC EVOLUTIONARY BIOLOGY

Whole genome comparisons of Fragaria, Prunus and Malus reveal different modes of evolution between Rosaceous subfamilies

(2012) Sook Jung et al.   BMC GENOMICS

The tomato genome sequence provides insights into fleshy fruit evolution

(2012)   NATURE

Highly conserved low-copy nuclear genes as effective markers for phylogenetic analyses in angiosperms

(2012) Ning Zhang et al.   NEW PHYTOLOGIST

A MicroRNA Superfamily Regulates Nucleotide Binding Site-Leucine-Rich Repeats and Other mRNAs

(2012) P. V. Shivaprasad et al.   PLANT CELL

Molecular basis for the specification of floral organs by APETALA3 and PISTILLATA

(2012) S. E. Wuest et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

MicroRNA regulation of plant innate immune receptors

(2012) F. Li et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The Evolutionary Root of Flowering Plants

(2012) Vadim V. Goremykin et al.   SYSTEMATIC BIOLOGY

A genome triplication associated with early diversification of the core eudicots

(2012) Yuannian Jiao et al.   GENOME BIOLOGY

Angiosperm phylogeny: 17 genes, 640 taxa

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

MicroRNAs as master regulators of the plant NB-LRR defense gene family via the production of phased, trans-acting siRNAs

(2011) J. Zhai et al.   GENES & DEVELOPMENT

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

Inference of human population history from individual whole-genome sequences

(2011) Heng Li et al.   NATURE

Ancestral polyploidy in seed plants and angiosperms

(2011) Yuannian Jiao et al.   NATURE

Journey through the past: 150 million years of plant genome evolution

(2011) Sebastian Proost et al.   PLANT JOURNAL

The family of terpene synthases in plants: a mid-size family of genes for specialized metabolism that is highly diversified throughout the kingdom

(2011) Feng Chen et al.   PLANT JOURNAL

Function and evolution of ‘green’ GSK3/Shaggy-like kinases

(2011) Younousse Saidi et al.   TRENDS IN PLANT SCIENCE

A Functional Phylogenomic View of the Seed Plants

(2011) Ernest K. Lee et al.   PLoS Genetics

A physical map for the Amborella trichopoda genome sheds light on the evolution of angiosperm genome structure

(2011) Andrea Zuccolo et al.   GENOME BIOLOGY

A mystery unveiled

(2011) Yves Van de Peer   GENOME BIOLOGY

The age and diversification of the angiosperms re-revisited

(2010) Charles D. Bell et al.   AMERICAN JOURNAL OF BOTANY

Conservation and divergence on plant seed 11S globulins based on crystal structures

(2010) Mary Rose G. Tandang-Silvas et al.   BIOCHIMICA ET BIOPHYSICA ACTA-PROTEINS AND PROTEOMICS

Multigene Phylogeny of the Green Lineage Reveals the Origin and Diversification of Land Plants

(2010) Cédric Finet et al.   CURRENT BIOLOGY

Interactions among Proteins of Floral MADS-Box Genes in Basal Eudicots: Implications for Evolution of the Regulatory Network for Flower Development

(2010) C. Liu et al.   MOLECULAR BIOLOGY AND EVOLUTION

The genome of Theobroma cacao

(2010) Xavier Argout et al.   NATURE GENETICS

Establishing, maintaining and modifying DNA methylation patterns in plants and animals

(2010) Julie A. Law et al.   NATURE REVIEWS GENETICS

Conservation and canalization of gene expression during angiosperm diversification accompany the origin and evolution of the flower

(2010) A. S. Chanderbali et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

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

Genome-Wide Evolutionary Analysis of Eukaryotic DNA Methylation

(2010) A. Zemach et al.   SCIENCE

Genome-Scale Phylogenetics: Inferring the Plant Tree of Life from 18,896 Gene Trees

(2010) J. Gordon Burleigh et al.   SYSTEMATIC BIOLOGY

Angiosperm phylogeny inferred from sequences of four mitochondrial genes

(2010) Yin-Long QIU et al.   Journal of Systematics and Evolution

Polyploidy and angiosperm diversification

(2009) Douglas E. Soltis et al.   AMERICAN JOURNAL OF BOTANY

Expression-based discovery of candidate ovule development regulators through transcriptional profiling of ovule mutants

(2009) Debra J Skinner et al.   BMC PLANT BIOLOGY

DnaSAM: Software to perform neutrality testing for large datasets with complex null models

(2009) ANDREW J. ECKERT et al.   Molecular Ecology Resources

The DAWGPAWS pipeline for the annotation of genes and transposable elements in plant genomes

(2009) James C Estill et al.   Plant Methods

Macroevolution and the biological diversity of plants and herbivores

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

Exceptional Diversity, Non-Random Distribution, and Rapid Evolution of Retroelements in the B73 Maize Genome

(2009) Regina S. Baucom et al.   PLoS Genetics

Origin and Early Evolution of Angiosperms

(2008) Douglas E. Soltis et al.   Annals of the New York Academy of Sciences

Multiple Paleopolyploidizations during the Evolution of the Compositae Reveal Parallel Patterns of Duplicate Gene Retention after Millions of Years

(2008) M. S. Barker et al.   MOLECULAR BIOLOGY AND EVOLUTION

The Carbohydrate-Active EnZymes database (CAZy): an expert resource for Glycogenomics

(2008) B. L. Cantarel et al.   NUCLEIC ACIDS RESEARCH

Finding and Comparing Syntenic Regions among Arabidopsis and the Outgroups Papaya, Poplar, and Grape: CoGe with Rosids

(2008) E. Lyons et al.   PLANT PHYSIOLOGY

Genome-Wide Analysis of MIKCC-Type MADS Box Genes in Grapevine

(2008) J. Diaz-Riquelme et al.   PLANT PHYSIOLOGY

Independent origins of syringyl lignin in vascular plants

(2008) J.-K. Weng et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Automated eukaryotic gene structure annotation using EVidenceModeler and the Program to Assemble Spliced Alignments

(2008) Brian J Haas et al.   GENOME BIOLOGY