Evolution by duplication: paleopolyploidy events in plants reconstructed by deciphering the evolutionary history of VOZ transcription factors

Resolution of deep eudicot phylogeny and their temporal diversification using nuclear genes from transcriptomic and genomic datasets

(2017) Liping Zeng et al.   NEW PHYTOLOGIST

Subgenome Dominance in an Interspecific Hybrid, Synthetic Allopolyploid, and a 140-Year-Old Naturally Established Neo-Allopolyploid Monkeyflower

(2017) Patrick P. Edger et al.   PLANT CELL

An update of the Angiosperm Phylogeny Group classification for the orders and families of flowering plants: APG IV

(2016)   BOTANICAL JOURNAL OF THE LINNEAN SOCIETY

Analyses of transcriptome sequences reveal multiple ancient large-scale duplication events in the ancestor of Sphagnopsida (Bryophyta)

(2016) Nicolas Devos et al.   NEW PHYTOLOGIST

PlantTFDB 4.0: toward a central hub for transcription factors and regulatory interactions in plants

(2016) Jinpu Jin et al.   NUCLEIC ACIDS RESEARCH

FLOR-ID: an interactive database of flowering-time gene networks inArabidopsis thaliana

(2015) Frédéric Bouché et al.   NUCLEIC ACIDS RESEARCH

Early genome duplications in conifers and other seed plants

(2015) Z. Li et al.   Science Advances

De Novo Assembly of Coding Sequences of the Mangrove Palm (Nypa fruticans) Using RNA-Seq and Discovery of Whole-Genome Duplications in the Ancestor of Palms

(2015) Ziwen He et al.   PLoS One

The MADS-Box Gene Family of the Basal Eudicot and HybridAquilegia coerulea‘Origami' (Ranunculaceae)1

(2014) Bharti Sharma et al.   ANNALS OF THE MISSOURI BOTANICAL GARDEN

RAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies

(2014) Alexandros Stamatakis   BIOINFORMATICS

VASCULAR PLANT ONE-ZINC FINGER1andVOZ2repress theFLOWERING LOCUS Cclade members to control flowering time in Arabidopsis

(2014) Yukiko Yasui et al.   BIOSCIENCE BIOTECHNOLOGY AND BIOCHEMISTRY

The willow genome and divergent evolution from poplar after the common genome duplication

(2014) Xiaogang Dai et al.   CELL RESEARCH

Analysis of 41 plant genomes supports a wave of successful genome duplications in association with the Cretaceous–Paleogene boundary

(2014) Kevin Vanneste et al.   GENOME RESEARCH

Multiple Polyploidy Events in the Early Radiation of Nodulating and Nonnodulating Legumes

(2014) Steven B. Cannon et al.   MOLECULAR BIOLOGY AND EVOLUTION

Integrated Syntenic and Phylogenomic Analyses Reveal an Ancient Genome Duplication in Monocots

(2014) Yuannian Jiao et al.   PLANT CELL

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

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

The Norway spruce genome sequence and conifer genome evolution

(2013) Björn Nystedt et al.   NATURE

Oil palm genome sequence reveals divergence of interfertile species in Old and New worlds

(2013) Rajinder Singh et al.   NATURE

Xanthomonas oryzae pv. oryzae Type III Effector XopN Targets OsVOZ2 and a Putative Thiamine Synthase as a Virulence Factor in Rice

(2013) Hoon Cheong et al.   PLoS One

The Amborella Genome and the Evolution of Flowering Plants

(2013) et al.   SCIENCE

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

(2013) Ray Ming et al.   GENOME BIOLOGY

Arabidopsis thaliana VOZ (Vascular plant One-Zinc finger) transcription factors are required for proper regulation of flowering time

(2013) H. Celesnik et al.   Biology Open

Gamma Paleohexaploidy in the Stem Lineage of Core Eudicots: Significance for MADS-Box Gene and Species Diversification

(2012) Dries Vekemans et al.   MOLECULAR BIOLOGY AND EVOLUTION

The banana (Musa acuminata) genome and the evolution of monocotyledonous plants

(2012) Angélique D’Hont et al.   NATURE

The tomato genome sequence provides insights into fleshy fruit evolution

(2012)   NATURE

PGDD: a database of gene and genome duplication in plants

(2012) Tae-Ho Lee et al.   NUCLEIC ACIDS RESEARCH

The Phytochrome-Interacting VASCULAR PLANT ONE-ZINC FINGER1 and VOZ2 Redundantly Regulate Flowering in Arabidopsis

(2012) Y. Yasui et al.   PLANT CELL

Vascular plant one-zinc-finger protein 1/2 transcription factors regulate abiotic and biotic stress responses in Arabidopsis

(2012) Yusuke Nakai et al.   PLANT JOURNAL

NAC proteins: regulation and role in stress tolerance

(2012) Swati Puranik et al.   TRENDS IN PLANT SCIENCE

A genome triplication associated with early diversification of the core eudicots

(2012) Yuannian Jiao et al.   GENOME BIOLOGY

NAC transcription factors in plant abiotic stress responses

(2011) Kazuo Nakashima et al.   Biochimica et Biophysica Acta-Gene Regulatory Mechanisms

Genome sequence and analysis of the tuber crop potato

(2011) Xun Xu et al.   NATURE

Ancestral polyploidy in seed plants and angiosperms

(2011) Yuannian Jiao et al.   NATURE

Accelerated Profile HMM Searches

(2011) Sean R. Eddy   PLoS Computational Biology

Cytoscape 2.8: new features for data integration and network visualization

(2010) M. E. Smoot et al.   BIOINFORMATICS

Expression divergence of the AGL6 MADS domain transcription factor lineage after a core eudicot duplication suggests functional diversification

(2010) Tom Viaene et al.   BMC PLANT 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

Genome sequence of the palaeopolyploid soybean

(2010) Jeremy Schmutz et al.   NATURE

Genomic Analysis of Wild Tomato Introgressions Determining Metabolism- and Yield-Associated Traits

(2010) L. Kamenetzky et al.   PLANT PHYSIOLOGY

On the origin of MADS-domain transcription factors

(2010) Lydia Gramzow et al.   TRENDS IN GENETICS

Bias in Plant Gene Content Following Different Sorts of Duplication: Tandem, Whole-Genome, Segmental, or by Transposition

(2009) Michael Freeling   Annual Review of Plant Biology

TheArabidopsis thalianaNAC transcription factor family: structure–function relationships and determinants of ANAC019 stress signalling

(2009) Michael K. Jensen et al.   BIOCHEMICAL JOURNAL

trimAl: a tool for automated alignment trimming in large-scale phylogenetic analyses

(2009) S. Capella-Gutierrez et al.   BIOINFORMATICS

Molecular evolution of synonymous codon usage in Populus

(2009) Pär K Ingvarsson   BMC EVOLUTIONARY BIOLOGY

Gene and genome duplications: the impact of dosage-sensitivity on the fate of nuclear genes

(2009) Patrick P. Edger et al.   CHROMOSOME RESEARCH

Dating the origins of polyploidy events

(2009) Jeff J. Doyle et al.   NEW PHYTOLOGIST

PlnTFDB: updated content and new features of the plant transcription factor database

(2009) Paulino Pérez-Rodríguez et al.   NUCLEIC ACIDS RESEARCH

Angiosperm genome comparisons reveal early polyploidy in the monocot lineage

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

The meaning of Darwin's “abominable mystery”

(2008) William E. Friedman   AMERICAN JOURNAL OF BOTANY

Unraveling ancient hexaploidy through multiply-aligned angiosperm gene maps

(2008) H. Tang et al.   GENOME RESEARCH

jModelTest: Phylogenetic Model Averaging

(2008) D. Posada   MOLECULAR BIOLOGY AND EVOLUTION

Rates of Molecular Evolution Are Linked to Life History in Flowering Plants

(2008) S. A. Smith et al.   SCIENCE

Synteny and Collinearity in Plant Genomes

(2008) H. Tang et al.   SCIENCE