Molecular mechanisms governing differential robustness of development and environmental responses in plants

Effector-Triggered Immunity: From Pathogen Perception to Robust Defense

(2015) Haitao Cui et al.   Annual Review of Plant Biology

ELF3-PIF4 Interaction Regulates Plant Growth Independently of the Evening Complex

(2015) Cristina Nieto et al.   CURRENT BIOLOGY

ELF3 Controls Thermoresponsive Growth in Arabidopsis

(2015) Mathew S. Box et al.   CURRENT BIOLOGY

Single Mammalian Cells Compensate for Differences in Cellular Volume and DNA Copy Number through Independent Global Transcriptional Mechanisms

(2015) Olivia Padovan-Merhar et al.   MOLECULAR CELL

Essential gene disruptions reveal complex relationships between phenotypic robustness, pleiotropy, and fitness

(2015) C. R. Bauer et al.   Molecular Systems Biology

A Recently Evolved Isoform of the Transcription Factor BES1 Promotes Brassinosteroid Signaling and Development inArabidopsis thaliana

(2015) Jianjun Jiang et al.   PLANT CELL

Epigenetic Basis of Morphological Variation and Phenotypic Plasticity inArabidopsis thaliana

(2015) Rik Kooke et al.   PLANT CELL

Concerted copy number variation balances ribosomal DNA dosage in human and mouse genomes

(2015) John G. Gibbons et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Vernalizing cold is registered digitally atFLC

(2015) Andrew Angel et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

MicroRNA control of protein expression noise

(2015) J. M. Schmiedel et al.   SCIENCE

AtGGM2014, an Arabidopsis gene co-expression network for functional studies

(2015) ShiSong Ma et al.   Science China-Life Sciences

Century-scale Methylome Stability in a Recently Diverged Arabidopsis thaliana Lineage

(2015) Jörg Hagmann et al.   PLoS Genetics

DEF- and GLO-like proteins may have lost most of their interaction partners during angiosperm evolution

(2014) Rainer Melzer et al.   ANNALS OF BOTANY

Over-expression of Arabidopsis AtCHR23 chromatin remodeling ATPase results in increased variability of growth and gene expression

(2014) Adam Folta et al.   BMC PLANT BIOLOGY

Costs and benefits of reticulate leaf venation

(2014) Charles A Price et al.   BMC PLANT BIOLOGY

Mechanisms Underlying Robustness and Tunability in a Plant Immune Signaling Network

(2014) Yungil Kim et al.   Cell Host & Microbe

Ancient Gene Duplicates in Gossypium (Cotton) Exhibit Near-Complete Expression Divergence

(2014) Simon Renny-Byfield et al.   Genome Biology and Evolution

The Hsp90-Dependent Proteome Is Conserved and Enriched for Hub Proteins with High Levels of Protein–Protein Connectivity

(2014) Rajaneesh Karimpurath Gopinath et al.   Genome Biology and Evolution

An Arabidopsis gene regulatory network for secondary cell wall synthesis

(2014) M. Taylor-Teeples et al.   NATURE

Ambient Temperature Signal Feeds into the Circadian Clock Transcriptional Circuitry Through the EC Night-Time Repressor in Arabidopsis thaliana

(2014) Takeshi Mizuno et al.   PLANT AND CELL PHYSIOLOGY

Genetic Perturbation of the Maize Methylome

(2014) Qing Li et al.   PLANT CELL

Ribosomal RNA gene repeats, their stability and cellular senescence

(2014) Takehiko KOBAYASHI   PROCEEDINGS OF THE JAPAN ACADEMY SERIES B-PHYSICAL AND BIOLOGICAL SCIENCES

AntisenseCOOLAIRmediates the coordinated switching of chromatin states atFLCduring vernalization

(2014) Tibor Csorba et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Light intensity modulates the regulatory network of the shade avoidance response in Arabidopsis

(2014) M. Hersch et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The Robustness and Evolvability of Transcription Factor Binding Sites

(2014) J. L. Payne et al.   SCIENCE

Genomic Signatures of Specialized Metabolism in Plants

(2014) L. Chae et al.   SCIENCE

Ribosomal DNA copy number is coupled with gene expression variation and mitochondrial abundance in humans

(2014) John G. Gibbons et al.   Nature Communications

Mapping and Dynamics of Regulatory DNA and Transcription Factor Networks in A. thaliana

(2014) Alessandra M. Sullivan et al.   Cell Reports

Natural variation reveals that intracellular distribution of ELF3 protein is associated with function in the circadian clock

(2014) Muhammad Usman Anwer et al.   eLife

miR-9a Minimizes the Phenotypic Impact of Genomic Diversity by Buffering a Transcription Factor

(2013) Justin J. Cassidy et al.   CELL

Heterochromatin dynamics during developmental transitions in Arabidopsis — a focus on ribosomal DNA loci

(2013) Matthias Benoit et al.   GENE

Inheritance Patterns and Stability of DNA Methylation Variation in Maize Near-Isogenic Lines

(2013) Q. Li et al.   GENETICS

The Protein Chaperone HSP90 Can Facilitate the Divergence of Gene Duplicates

(2013) J. Lachowiec et al.   GENETICS

Whole Genome and Tandem Duplicate Retention Facilitated Glucosinolate Pathway Diversification in the Mustard Family

(2013) Johannes A. Hofberger et al.   Genome Biology and Evolution

The million mutation project: A new approach to genetics in Caenorhabditis elegans

(2013) O. Thompson et al.   GENOME RESEARCH

Molecular mechanisms of paralogous compensation and the robustness of cellular networks

(2013) Guillaume Diss et al.   JOURNAL OF EXPERIMENTAL ZOOLOGY PART B-MOLECULAR AND DEVELOPMENTAL EVOLUTION

Cytokinin signalling inhibitory fields provide robustness to phyllotaxis

(2013) Fabrice Besnard et al.   NATURE

Massive genomic variation and strong selection in Arabidopsis thaliana lines from Sweden

(2013) Quan Long et al.   NATURE GENETICS

Leaf venation: structure, function, development, evolution, ecology and applications in the past, present and future

(2013) Lawren Sack et al.   NEW PHYTOLOGIST

Arabidopsis Basic Helix-Loop-Helix Transcription Factors MYC2, MYC3, and MYC4 Regulate Glucosinolate Biosynthesis, Insect Performance, and Feeding Behavior

(2013) F. Schweizer et al.   PLANT CELL

A heuristic model on the role of plasticity in adaptive evolution: plasticity increases adaptation, population viability and genetic variation

(2013) I. Gomez-Mestre et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Incorporating Motif Analysis into Gene Co-expression Networks Reveals Novel Modular Expression Pattern and New Signaling Pathways

(2013) Shisong Ma et al.   PLoS Genetics

POWERDRESS and Diversified Expression of the MIR172 Gene Family Bolster the Floral Stem Cell Network

(2013) Rae Eden Yumul et al.   PLoS Genetics

A Natural Polymorphism in rDNA Replication Origins Links Origin Activation with Calorie Restriction and Lifespan

(2013) Elizabeth X. Kwan et al.   PLoS Genetics

Molecular mechanisms of robustness in plants

(2012) Janne Lempe et al.   CURRENT OPINION IN PLANT BIOLOGY

Replication–transcription conflicts in bacteria

(2012) Houra Merrikh et al.   NATURE REVIEWS MICROBIOLOGY

Epigenetic variation creates potential for evolution of plant phenotypic plasticity

(2012) Yuan-Ye Zhang et al.   NEW PHYTOLOGIST

TIME FOR COFFEE Represses Accumulation of the MYC2 Transcription Factor to Provide Time-of-Day Regulation of Jasmonate Signaling inArabidopsis

(2012) Jieun Shin et al.   PLANT CELL

A Meta-Analysis Reveals the Commonalities and Differences in Arabidopsis thaliana Response to Different Viral Pathogens

(2012) Guillermo Rodrigo et al.   PLoS One

MYBL2 is a substrate of GSK3-like kinase BIN2 and acts as a corepressor of BES1 in brassinosteroid signaling pathway in Arabidopsis

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

Noise and Robustness in Phyllotaxis

(2012) Vincent Mirabet et al.   PLoS Computational Biology

Epialleles in plant evolution

(2012) Detlef Weigel et al.   GENOME BIOLOGY

Biological Robustness: Paradigms, Mechanisms, and Systems Principles

(2012) James Michael Whitacre   Frontiers in Genetics

Regulation of ribosomal RNA gene copy number and its role in modulating genome integrity and evolutionary adaptability in yeast

(2011) Takehiko Kobayashi   CELLULAR AND MOLECULAR LIFE SCIENCES

The Orchestration of Mammalian Tissue Morphogenesis through a Series of Coherent Feed-forward Loops

(2011) Qing Xie et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

The ELF4–ELF3–LUX complex links the circadian clock to diurnal control of hypocotyl growth

(2011) Dmitri A. Nusinow et al.   NATURE

Co-directional replication–transcription conflicts lead to replication restart

(2011) Houra Merrikh et al.   NATURE

A Polycomb-based switch underlying quantitative epigenetic memory

(2011) Andrew Angel et al.   NATURE

Water supply and demand remain balanced during leaf acclimation of Nothofagus cunninghamii trees

(2011) Timothy J. Brodribb et al.   NEW PHYTOLOGIST

Evidence for Network Evolution in an Arabidopsis Interactome Map

(2011) et al.   SCIENCE

Independently Evolved Virulence Effectors Converge onto Hubs in a Plant Immune System Network

(2011) M. S. Mukhtar et al.   SCIENCE

Transgenerational Epigenetic Instability Is a Source of Novel Methylation Variants

(2011) R. J. Schmitz et al.   SCIENCE

Genomic Analysis of QTLs and Genes Altering Natural Variation in Stochastic Noise

(2011) Jose M. Jimenez-Gomez et al.   PLoS Genetics

Ribosomal DNA Deletions Modulate Genome-Wide Gene Expression: “rDNA–Sensitive” Genes and Natural Variation

(2011) Silvana Paredes et al.   PLoS Genetics

Expression of heat shock proteins in anoxic crucian carp (Carassius carassius): support for cold as a preparatory cue for anoxia

(2010) Kåre-Olav Stensløkken et al.   AMERICAN JOURNAL OF PHYSIOLOGY-REGULATORY INTEGRATIVE AND COMPARATIVE PHYSIOLOGY

Protein Homeostasis and the Phenotypic Manifestation of Genetic Diversity: Principles and Mechanisms

(2010) Daniel F. Jarosz et al.   Annual Review of Genetics

Biological and molecular responses of Chironomus riparius (Diptera, Chironomidae) to herbicide 2,4-D (2,4-dichlorophenoxyacetic acid)

(2010) Kiyun Park et al.   COMPARATIVE BIOCHEMISTRY AND PHYSIOLOGY C-TOXICOLOGY & PHARMACOLOGY

Proposal for a role of the Hsp90/Hsp70-based chaperone machinery in making triage decisions when proteins undergo oxidative and toxic damage

(2010) William B Pratt et al.   EXPERIMENTAL BIOLOGY AND MEDICINE

Functional Compensation of Primary and Secondary Metabolites by Duplicate Genes in Arabidopsis thaliana

(2010) K. Hanada et al.   MOLECULAR BIOLOGY AND EVOLUTION

When ribosomes go bad: diseases of ribosome biogenesis

(2010) Emily F. Freed et al.   Molecular BioSystems

The Molecular Chaperone Hsp90 Regulates Accumulation of DNA Polymerase η at Replication Stalling Sites in UV-Irradiated Cells

(2010) Takayuki Sekimoto et al.   MOLECULAR CELL

The Nucleolus under Stress

(2010) Séverine Boulon et al.   MOLECULAR CELL

Chromatin regulators as capacitors of interspecies variations in gene expression

(2010) Itay Tirosh et al.   Molecular Systems Biology

Cell signalling by microRNA165/6 directs gene dose-dependent root cell fate

(2010) Annelie Carlsbecker et al.   NATURE

HSP90 at the hub of protein homeostasis: emerging mechanistic insights

(2010) Mikko Taipale et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

A Complex Interplay of Three R2R3 MYB Transcription Factors Determines the Profile of Aliphatic Glucosinolates in Arabidopsis

(2010) I. E. Sonderby et al.   PLANT PHYSIOLOGY

Proteomic analysis of the response of an acidophilic strain of Chlamydomonas sp. (Chlorophyta) to natural metal-rich water

(2010) Cristina Cid et al.   PROTEOMICS

Hsp90 and Environmental Stress Transform the Adaptive Value of Natural Genetic Variation

(2010) D. F. Jarosz et al.   SCIENCE

Chaperones and multitasking proteins in the nucleolus: networking together for survival?

(2010) Piotr Bański et al.   TRENDS IN BIOCHEMICAL SCIENCES

Leaf hydraulic evolution led a surge in leaf photosynthetic capacity during early angiosperm diversification

(2009) Tim J. Brodribb et al.   ECOLOGY LETTERS

Evolutionary Persistence of Functional Compensation by Duplicate Genes in Arabidopsis

(2009) Kousuke Hanada et al.   Genome Biology and Evolution

Cold-induced silencing by long antisense transcripts of an Arabidopsis Polycomb target

(2009) Szymon Swiezewski et al.   NATURE

System-wide molecular evidence for phenotypic buffering in Arabidopsis

(2009) Jingyuan Fu et al.   NATURE GENETICS

Decanalization and the origin of complex disease

(2009) Greg Gibson   NATURE REVIEWS GENETICS

Duplicate genes increase expression diversity in closely related species and allopolyploids

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

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

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

Stable, Precise, and Reproducible Patterning of Bicoid and Hunchback Molecules in the Early Drosophila Embryo

(2009) Yurie Okabe-Oho et al.   PLoS Computational Biology

A Pol V–Mediated Silencing, Independent of RNA–Directed DNA Methylation, Applies to 5S rDNA

(2009) Julien Douet et al.   PLoS Genetics

Network Properties of Robust Immunity in Plants

(2009) Kenichi Tsuda et al.   PLoS Genetics

Making bigger plants: key regulators of final organ size

(2008) Beth A Krizek   CURRENT OPINION IN PLANT BIOLOGY

Turning a hobby into a job: How duplicated genes find new functions

(2008) Gavin C. Conant et al.   NATURE REVIEWS GENETICS

Biochemical Networks and Epistasis Shape the Arabidopsis thaliana Metabolome

(2008) H. C. Rowe et al.   PLANT CELL

Subclade of Flavin-Monooxygenases Involved in Aliphatic Glucosinolate Biosynthesis

(2008) J. Li et al.   PLANT PHYSIOLOGY

A Novel 2-Oxoacid-Dependent Dioxygenase Involved in the Formation of the Goiterogenic 2-Hydroxybut-3-enyl Glucosinolate and Generalist Insect Resistance in Arabidopsis

(2008) B. G. Hansen et al.   PLANT PHYSIOLOGY

A Role for Gene Duplication and Natural Variation of Gene Expression in the Evolution of Metabolism

(2008) Daniel J. Kliebenstein   PLoS One

HSP90-buffered genetic variation is common in Arabidopsis thaliana

(2008) T. A. Sangster et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Network Hubs Buffer Environmental Variation in Saccharomyces cerevisiae

(2008) Sasha F Levy et al.   PLOS BIOLOGY