Decoding Plant and Animal Genome Plasticity from Differential Paleo-Evolutionary Patterns and Processes

In silico archeogenomics unveils modern plant genome organisation, regulation and evolution

(2012) Jérôme Salse   CURRENT OPINION IN PLANT BIOLOGY

Grass MicroRNA Gene Paleohistory Unveils New Insights into Gene Dosage Balance in Subgenome Partitioning after Whole-Genome Duplication

(2012) M. Abrouk et al.   PLANT CELL

Mapping ancestral genomes with massive gene loss: A matrix sandwich problem

(2011) H. Gavranovic et al.   BIOINFORMATICS

Genome-wide identification of conserved regulatory function in diverged sequences

(2011) L. Taher et al.   GENOME RESEARCH

Ancestral polyploidy in seed plants and angiosperms

(2011) Yuannian Jiao et al.   NATURE

Evolutionary divergence and limits of conserved non-coding sequence detection in plant genomes

(2011) Anna R. Reineke et al.   NUCLEIC ACIDS RESEARCH

Phytozome: a comparative platform for green plant genomics

(2011) David M. Goodstein et al.   NUCLEIC ACIDS RESEARCH

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

(2011) Sebastian Proost et al.   PLANT JOURNAL

Dissecting Plant Genomes with the PLAZA Comparative Genomics Platform

(2011) M. Van Bel et al.   PLANT PHYSIOLOGY

Differentiation of the maize subgenomes by genome dominance and both ancient and ongoing gene loss

(2011) J. C. Schnable et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

RNA-seq in grain unveils fate of neo- and paleopolyploidization events in bread wheat (Triticum aestivum L.)

(2011) Caroline Pont et al.   GENOME BIOLOGY

Vive la différence: biogenesis and evolution of microRNAs in plants and animals

(2011) Michael J Axtell et al.   GENOME BIOLOGY

Ancestral grass karyotype reconstruction unravels new mechanisms of genome shuffling as a source of plant evolution

(2010) F. Murat et al.   GENOME RESEARCH

Deciphering the splicing code

(2010) Yoseph Barash et al.   NATURE

Genome sequencing and analysis of the model grass Brachypodium distachyon

(2010) John P. Vogel et al.   NATURE

Genome sequence of the palaeopolyploid soybean

(2010) Jeremy Schmutz et al.   NATURE

The genome of Theobroma cacao

(2010) Xavier Argout et al.   NATURE GENETICS

The genome of woodland strawberry (Fragaria vesca)

(2010) Vladimir Shulaev et al.   NATURE GENETICS

The genome of the domesticated apple (Malus × domestica Borkh.)

(2010) Riccardo Velasco et al.   NATURE GENETICS

2R or not 2R is not the question anymore

(2010) Yves Van de Peer et al.   NATURE REVIEWS GENETICS

Palaeogenomics of plants: synteny-based modelling of extinct ancestors

(2010) Michael Abrouk et al.   TRENDS IN PLANT SCIENCE

Following Tetraploidy in Maize, a Short Deletion Mechanism Removed Genes Preferentially from One of the Two Homeologs

(2010) Margaret R. Woodhouse et al.   PLOS BIOLOGY

Discovery of cis-elements between sorghum and rice using co-expression and evolutionary conservation

(2009) Xi Wang et al.   BMC GENOMICS

Improved criteria and comparative genomics tool provide new insights into grass paleogenomics

(2009) J. Salse et al.   BRIEFINGS IN BIOINFORMATICS

Molecular Phylogenetics, Temporal Diversification, and Principles of Evolution in the Mustard Family (Brassicaceae)

(2009) T. L. P. Couvreur et al.   MOLECULAR BIOLOGY AND EVOLUTION

The Sorghum bicolor genome and the diversification of grasses

(2009) Andrew H. Paterson et al.   NATURE

The evolutionary significance of ancient genome duplications

(2009) Yves Van de Peer et al.   NATURE REVIEWS GENETICS

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

Reconstruction of monocotelydoneous proto-chromosomes reveals faster evolution in plants than in animals

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

Plants with double genomes might have had a better chance to survive the Cretaceous-Tertiary extinction event

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

Genome Sequence, Comparative Analysis, and Population Genetics of the Domestic Horse

(2009) C. M. Wade et al.   SCIENCE

The B73 Maize Genome: Complexity, Diversity, and Dynamics

(2009) P. S. Schnable et al.   SCIENCE

Contrasting evolutionary dynamics between angiosperm and mammalian genomes

(2009) Eduard Kejnovsky et al.   TRENDS IN ECOLOGY & EVOLUTION

The flowering world: a tale of duplications

(2009) Yves Van de Peer et al.   TRENDS IN PLANT SCIENCE

Plant sex chromosomes: molecular structure and function

(2008) M. Jamilena et al.   CYTOGENETIC AND GENOME RESEARCH

DUPCAR: Reconstructing Contiguous Ancestral Regions with Duplications

(2008) Jian Ma et al.   JOURNAL OF COMPUTATIONAL BIOLOGY

Identification and Characterization of Shared Duplications between Rice and Wheat Provide New Insight into Grass Genome Evolution

(2008) J. Salse et al.   PLANT CELL

Widespread Translational Inhibition by Plant miRNAs and siRNAs

(2008) P. Brodersen et al.   SCIENCE

Tuning in to the signals: noncoding sequence conservation in vertebrate genomes

(2008) Greg Elgar et al.   TRENDS IN GENETICS