Genome-Wide Dosage-Dependent and -Independent Regulation Contributes to Gene Expression and Evolutionary Novelty in Plant Polyploids

Epigenetic and developmental regulation in plant polyploids

(2015) Qingxin Song et al.   CURRENT OPINION IN PLANT BIOLOGY

The polyploidy revolution then...and now: Stebbins revisited

(2014) D. E. Soltis et al.   AMERICAN JOURNAL OF BOTANY

miR828 and miR858 regulate homoeologous MYB2 gene functions in Arabidopsis trichome and cotton fibre development

(2014) Xueying Guan et al.   Nature Communications

The Arabidopsis Nucleosome Remodeler DDM1 Allows DNA Methyltransferases to Access H1-Containing Heterochromatin

(2013) Assaf Zemach et al.   CELL

Genomic and epigenetic insights into the molecular bases of heterosis

(2013) Z. Jeffrey Chen   NATURE REVIEWS GENETICS

Polyploids Exhibit Higher Potassium Uptake and Salinity Tolerance in Arabidopsis

(2013) D.-Y. Chao et al.   SCIENCE

Global transgenerational gene expression dynamics in two newly synthesized allohexaploid wheat (Triticum aestivum) lines

(2012) Bao Qi et al.   BMC BIOLOGY

A transcriptomic hourglass in plant embryogenesis

(2012) Marcel Quint et al.   NATURE

Integrative analysis of chromatin states in Arabidopsis identified potential regulatory mechanisms for natural antisense transcript production

(2012) Chongyuan Luo et al.   PLANT JOURNAL

Widespread dynamic DNA methylation in response to biotic stress

(2012) R. H. Dowen et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Cis- and trans-regulatory divergence between progenitor species determines gene-expression novelty in Arabidopsis allopolyploids

(2012) Xiaoli Shi et al.   Nature Communications

Ploidy and Hybridity Effects on Growth Vigor and Gene Expression in Arabidopsis thaliana Hybrids and Their Parents

(2012) Marisa Miller et al.   G3-Genes Genomes Genetics

Transcriptomic Shock Generates Evolutionary Novelty in a Newly Formed, Natural Allopolyploid Plant

(2011) Richard J.A. Buggs et al.   CURRENT BIOLOGY

Copy-Number Variation: The Balance between Gene Dosage and Expression in Drosophila melanogaster

(2011) Jun Zhou et al.   Genome Biology and Evolution

Coordinated histone modifications are associated with gene expression variation within and between species

(2011) M. Ha et al.   GENOME RESEARCH

Spontaneous epigenetic variation in the Arabidopsis thaliana methylome

(2011) Claude Becker et al.   NATURE

Ancestral polyploidy in seed plants and angiosperms

(2011) Yuannian Jiao et al.   NATURE

The evolutionary origin of orphan genes

(2011) Diethard Tautz et al.   NATURE REVIEWS GENETICS

cis- andtrans-Regulation of miR163 and Target Genes Confers Natural Variation of Secondary Metabolites in TwoArabidopsisSpecies and Their Allopolyploids

(2011) Danny W-K. Ng et al.   PLANT CELL

Transposable elements and small RNAs contribute to gene expression divergence between Arabidopsis thaliana and Arabidopsis lyrata

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

Recently Formed Polyploid Plants Diversify at Lower Rates

(2011) I. Mayrose et al.   SCIENCE

Quantifying Whole Transcriptome Size, a Prerequisite for Understanding Transcriptome Evolution Across Species: An Example from a Plant Allopolyploid

(2010) Jeremy E. Coate et al.   Genome Biology and Evolution

Aneuploidy confers quantitative proteome changes and phenotypic variation in budding yeast

(2010) Norman Pavelka et al.   NATURE

Regulation of heterochromatic DNA replication by histone H3 lysine 27 methyltransferases

(2010) Yannick Jacob et al.   NATURE

Circadian control of carbohydrate availability for growth in Arabidopsis plants at night

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

The Role of Hybridization in Plant Speciation

(2009) Pamela S. Soltis et al.   Annual Review of Plant Biology

A new multitest correction (SGoF) that increases its statistical power when increasing the number of tests

(2009) Antonio Carvajal-Rodríguez et al.   BMC BIOINFORMATICS

BSMAP: whole genome bisulfite sequence MAPping program

(2009) Yuanxin Xi et al.   BMC BIOINFORMATICS

The evolutionary significance of ancient genome duplications

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

Origin and evolution of metabolic pathways

(2009) Renato Fani et al.   Physics of Life Reviews

Small RNAs serve as a genetic buffer against genomic shock in Arabidopsis interspecific hybrids and allopolyploids

(2009) M. Ha et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The frequency of polyploid speciation in vascular plants

(2009) T. E. Wood et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

An Abundance of Ubiquitously Expressed Genes Revealed by Tissue Transcriptome Sequence Data

(2009) Daniel Ramsköld et al.   PLoS Computational Biology

Highly Integrated Single-Base Resolution Maps of the Epigenome in Arabidopsis

(2008) Ryan Lister et al.   CELL

Altered circadian rhythms regulate growth vigour in hybrids and allopolyploids

(2008) Zhongfu Ni et al.   NATURE

Shotgun bisulphite sequencing of the Arabidopsis genome reveals DNA methylation patterning

(2008) Shawn J. Cokus et al.   NATURE

Mapping and quantifying mammalian transcriptomes by RNA-Seq

(2008) Ali Mortazavi et al.   NATURE METHODS

The Epigenetic Landscape of Plants

(2008) X. Zhang   SCIENCE

Genomic Plasticity and the Diversity of Polyploid Plants

(2008) A. R. Leitch et al.   SCIENCE

Aneuploidy Affects Proliferation and Spontaneous Immortalization in Mammalian Cells

(2008) B. R. Williams et al.   SCIENCE

Cellular reactions to gene dosage imbalance: genomic, transcriptomic and proteomic effects

(2008) Reiner A. Veitia et al.   TRENDS IN GENETICS