Shared Subgenome Dominance Following Polyploidization Explains Grass Genome Evolutionary Plasticity from a Seven Protochromosome Ancestor with 16K Protogenes

Wheat syntenome unveils new evidences of contrasted evolutionary plasticity between paleo- and neoduplicated subgenomes

(2013) Caroline Pont et al.   PLANT JOURNAL

Genome and gene duplications and gene expression divergence: a view from plants

(2012) Yupeng Wang et al.   Annals of the New York Academy of Sciences

ANGES: reconstructing ANcestral GEnomeS maps

(2012) B. R. Jones et al.   BIOINFORMATICS

Deciphering the genomic structure, function and evolution of carotenogenesis related phytoene synthases in grasses

(2012) Bianca Dibari et al.   BMC GENOMICS

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

(2012) Jérôme Salse   CURRENT OPINION IN PLANT BIOLOGY

Fractionation mutagenesis and similar consequences of mechanisms removing dispensable or less-expressed DNA in plants

(2012) Michael Freeling et al.   CURRENT OPINION IN PLANT BIOLOGY

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

(2012) Florent Murat et al.   Genome Biology and Evolution

Genome-Wide Analysis of Syntenic Gene Deletion in the Grasses

(2012) James C. Schnable et al.   Genome Biology and Evolution

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

The fate of duplicated genes in a polyploid plant genome

(2012) Anne Roulin et al.   PLANT JOURNAL

Dynamic Nucleotide-Binding Site and Leucine-Rich Repeat-Encoding Genes in the Grass Family

(2012) S. Luo et al.   PLANT PHYSIOLOGY

Escape from Preferential Retention Following Repeated Whole Genome Duplications in Plants

(2012) James C. Schnable et al.   Frontiers in Plant Science

Long-Range and Targeted Ectopic Recombination between the Two Homeologous Chromosomes 11 and 12 in Oryza Species

(2011) J. Jacquemin et al.   MOLECULAR BIOLOGY AND EVOLUTION

Ancestral polyploidy in seed plants and angiosperms

(2011) Yuannian Jiao et al.   NATURE

Frequent Gene Movement and Pseudogene Evolution Is Common to the Large and Complex Genomes of Wheat, Barley, and Their Relatives

(2011) Thomas Wicker et al.   PLANT CELL

Seventy Million Years of Concerted Evolution of a Homoeologous Chromosome Pair, in Parallel, in Major Poaceae Lineages

(2011) Xiyin Wang et al.   PLANT CELL

Genes Identified by Visible Mutant Phenotypes Show Increased Bias toward One of Two Subgenomes of Maize

(2011) James C. Schnable et al.   PLoS One

Homoeolog-specific retention and use in allotetraploid Arabidopsis suecica depends on parent of origin and network partners

(2011) Peter L Chang et al.   GENOME BIOLOGY

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

(2011) Caroline Pont et al.   GENOME BIOLOGY

The collapse of gene complement following whole genome duplication

(2010) David Sankoff et al.   BMC GENOMICS

Combined meta-genomics analyses unravel candidate genes for the grain dietary fiber content in bread wheat (Triticum aestivum L.)

(2010) Umar Masood Quraishi et al.   FUNCTIONAL & INTEGRATIVE GENOMICS

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

(2010) F. Murat et al.   GENOME RESEARCH

Patching gaps in plant genomes results in gene movement and erosion of colinearity

(2010) T. Wicker et al.   GENOME RESEARCH

Lowly Expressed Genes in Arabidopsis thaliana Bear the Signature of Possible Pseudogenization by Promoter Degradation

(2010) L. Yang et al.   MOLECULAR BIOLOGY AND EVOLUTION

Genome sequencing and analysis of the model grass Brachypodium distachyon

(2010) John P. Vogel et al.   NATURE

Cross-genome map based dissection of a nitrogen use efficiency ortho-metaQTL in bread wheat unravels concerted cereal genome evolution

(2010) Umar Masood Quraishi et al.   PLANT JOURNAL

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

Transposed Genes in Arabidopsis Are Often Associated with Flanking Repeats

(2010) Margaret R. Woodhouse et al.   PLoS Genetics

A recent duplication revisited: phylogenetic analysis reveals an ancestral duplication highly-conserved throughout the Oryza genus and beyond

(2009) Julie Jacquemin et al.   BMC PLANT BIOLOGY

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

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

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

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

Genomics in cereals: from genome-wide conserved orthologous set (COS) sequences to candidate genes for trait dissection

(2009) Umar Masood Quraishi et al.   FUNCTIONAL & INTEGRATIVE GENOMICS

Comparative inference of illegitimate recombination between rice and sorghum duplicated genes produced by polyploidization

(2009) X. Wang et al.   GENOME RESEARCH

Breakpoint graphs and ancestral genome reconstructions

(2009) M. A. Alekseyev et al.   GENOME RESEARCH

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

The B73 Maize Genome: Complexity, Diversity, and Dynamics

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

Evolutionary Genetics of Genome Merger and Doubling in Plants

(2008) Jeff J. Doyle et al.   Annual Review of Genetics

The ‘inner circle’ of the cereal genomes

(2008) Stéphanie Bolot et al.   CURRENT OPINION IN PLANT BIOLOGY

Unraveling ancient hexaploidy through multiply-aligned angiosperm gene maps

(2008) H. Tang et al.   GENOME RESEARCH

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

(2008) J. Salse et al.   PLANT CELL