The evolution of gene regulatory networks controlling Arabidopsis thaliana L. trichome development

Diversification of Root Hair Development Genes in Vascular Plants

(2017) Ling Huang et al.   PLANT PHYSIOLOGY

Perspectives on Gene Regulatory Network Evolution

(2017) Marc S. Halfon   TRENDS IN GENETICS

Sequence entropy of folding and the absolute rate of amino acid substitutions

(2017) Richard A. Goldstein et al.   Nature Ecology & Evolution

Exploring the past and the future of protein evolution with ancestral sequence reconstruction: the 'retro approach to protein engineering

(2016) Y. Gumulya et al.   BIOCHEMICAL JOURNAL

Ancestral protein reconstruction: techniques and applications

(2016) Rainer Merkl et al.   BIOLOGICAL CHEMISTRY

Growth regulation in tip-growing cells that develop on the epidermis

(2016) Suvi Honkanen et al.   CURRENT OPINION IN PLANT BIOLOGY

The regulation and plasticity of root hair patterning and morphogenesis

(2016) Jorge E. Salazar-Henao et al.   DEVELOPMENT

ETE 3: Reconstruction, Analysis, and Visualization of Phylogenomic Data

(2016) Jaime Huerta-Cepas et al.   MOLECULAR BIOLOGY AND EVOLUTION

Epistasis in protein evolution

(2016) Tyler N. Starr et al.   PROTEIN SCIENCE

An experimental phylogeny to benchmark ancestral sequence reconstruction

(2016) Ryan N. Randall et al.   Nature Communications

Ectopic expression of R3 MYB transcription factor gene OsTCL1 in Arabidopsis, but not rice, affects trichome and root hair formation

(2016) Kaijie Zheng et al.   Scientific Reports

Ancestral Reconstruction

(2016) Jeffrey B. Joy et al.   PLoS Computational Biology

Evolution of an ancient protein function involved in organized multicellularity in animals

(2016) Douglas P Anderson et al.   eLife

Two IIIf Clade-bHLHs from Freesia hybrida Play Divergent Roles in Flavonoid Biosynthesis and Trichome Formation when Ectopically Expressed in Arabidopsis

(2016) Yueqing Li et al.   Scientific Reports

ANDSystem: an Associative Network Discovery System for automated literature mining in the field of biology

(2015) Vladimir A Ivanisenko et al.   BMC Systems Biology

Large-scale determination of previously unsolved protein structures using evolutionary information

(2015) Sergey Ovchinnikov et al.   eLife

MYB82 functions in regulation of trichome development in Arabidopsis

(2014) Gang Liang et al.   JOURNAL OF EXPERIMENTAL BOTANY

Why Human Disease-Associated Residues Appear as the Wild-Type in Other Species: Genome-Scale Structural Evidence for the Compensation Hypothesis

(2014) Jinrui Xu et al.   MOLECULAR BIOLOGY AND EVOLUTION

A Model of Substitution Trajectories in Sequence Space and Long-Term Protein Evolution

(2014) Dinara R. Usmanova et al.   MOLECULAR BIOLOGY AND EVOLUTION

Gene Ontology Consortium: going forward

(2014)   NUCLEIC ACIDS RESEARCH

PLAZA 3.0: an access point for plant comparative genomics

(2014) Sebastian Proost et al.   NUCLEIC ACIDS RESEARCH

A storage-based model of heterocyst commitment and patterning in cyanobacteria

(2014) Aidan I Brown et al.   PHYSICAL BIOLOGY

Robust and accurate prediction of residue–residue interactions across protein interfaces using evolutionary information

(2014) Sergey Ovchinnikov et al.   eLife

Protein threading using context-specific alignment potential

(2013) J. Ma et al.   BIOINFORMATICS

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

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

Functional dissection and evidence for intercellular transfer of the heterocyst-differentiation PatS morphogen

(2013) Laura Corrales-Guerrero et al.   MOLECULAR MICROBIOLOGY

Gene networks controllingArabidopsis thalianaflower development

(2013) Diarmuid Seosamh Ó'Maoiléidigh et al.   NEW PHYTOLOGIST

Zinc Finger Protein 6(ZFP6) regulates trichome initiation by integrating gibberellin and cytokinin signaling inArabidopsis thaliana

(2013) Zhongjing Zhou et al.   NEW PHYTOLOGIST

Challenges in homology search: HMMER3 and convergent evolution of coiled-coil regions

(2013) Jaina Mistry et al.   NUCLEIC ACIDS RESEARCH

The evolution of root hairs and rhizoids

(2012) Victor A.S. Jones et al.   ANNALS OF BOTANY

Functional Divergence of MYB-Related Genes,WEREWOLFandAtMYB23inArabidopsis

(2012) Rumi TOMINAGA-WADA et al.   BIOSCIENCE BIOTECHNOLOGY AND BIOCHEMISTRY

Trichomes as models for studying plant cell differentiation

(2012) Changxian Yang et al.   CELLULAR AND MOLECULAR LIFE SCIENCES

A Single Amino Acid Substitution in IIIf Subfamily of Basic Helix-Loop-Helix Transcription Factor AtMYC1 Leads to Trichome and Root Hair Patterning Defects by Abolishing Its Interaction with Partner Proteins inArabidopsis

(2012) Hongtao Zhao et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

GLABROUS INFLORESCENCE STEMS (GIS) is Required for Trichome Branching Through Gibberellic Acid Signaling in Arabidopsis

(2012) L. An et al.   PLANT AND CELL PHYSIOLOGY

Functional characterization of TRICHOMELESS2, a new single-repeat R3 MYB transcription factor in the regulation of trichome patterning in Arabidopsis

(2011) Lijun Gan et al.   BMC PLANT BIOLOGY

RSL genes are sufficient for rhizoid system development in early diverging land plants

(2011) G. Jang et al.   DEVELOPMENT

The Arabidopsis Information Resource (TAIR): improved gene annotation and new tools

(2011) Philippe Lamesch et al.   NUCLEIC ACIDS RESEARCH

The Jasmonate-ZIM-Domain Proteins Interact with the WD-Repeat/bHLH/MYB Complexes to Regulate Jasmonate-Mediated Anthocyanin Accumulation and Trichome Initiation inArabidopsis thaliana

(2011) Tiancong Qi et al.   PLANT CELL

Zinc Finger Protein5 Is Required for the Control of Trichome Initiation by Acting Upstream of Zinc Finger Protein8 in Arabidopsis

(2011) Z. Zhou et al.   PLANT PHYSIOLOGY

Direct-coupling analysis of residue coevolution captures native contacts across many protein families

(2011) F. Morcos et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Natural Allelic Variation Defines a Role for ATMYC1: Trichome Cell Fate Determination

(2011) V. Vaughan Symonds et al.   PLoS Genetics

FastTree 2 – Approximately Maximum-Likelihood Trees for Large Alignments

(2010) Morgan N. Price et al.   PLoS One

New Algorithms and Methods to Estimate Maximum-Likelihood Phylogenies: Assessing the Performance of PhyML 3.0

(2010) Stéphane Guindon et al.   SYSTEMATIC BIOLOGY

MYB transcription factors in Arabidopsis

(2010) Christian Dubos et al.   TRENDS IN PLANT SCIENCE

BLAST+: architecture and applications

(2009) Christiam Camacho et al.   BMC BIOINFORMATICS

Functional diversity of R3 single-repeat genes in trichome development

(2009) K. Wester et al.   DEVELOPMENT

The Arabidopsis MYB5 Transcription Factor Regulates Mucilage Synthesis, Seed Coat Development, and Trichome Morphogenesis

(2009) S. F. Li et al.   PLANT CELL

A Systems Approach Reveals Regulatory Circuitry for Arabidopsis Trichome Initiation by the GL3 and GL1 Selectors

(2009) Kengo Morohashi et al.   PLoS Genetics

Comprehensive analysis of single-repeat R3 MYB proteins in epidermal cell patterning and their transcriptional regulation in Arabidopsis

(2008) Shucai Wang et al.   BMC PLANT BIOLOGY

The TTG1-bHLH-MYB complex controls trichome cell fate and patterning through direct targeting of regulatory loci

(2008) M. Zhao et al.   DEVELOPMENT

The R2R3 MYB Transcription Factor GhMYB109 Is Required for Cotton Fiber Development

(2008) L. Pu et al.   GENETICS

The HD-Zip IV geneGaHOX1from cotton is a functional homologue of theArabidopsis GLABRA2

(2008) Xue-Ying Guan et al.   PHYSIOLOGIA PLANTARUM

Regulation of the anthocyanin biosynthetic pathway by the TTG1/bHLH/Myb transcriptional complex in Arabidopsis seedlings

(2008) Antonio Gonzalez et al.   PLANT JOURNAL

Functional Specialization of the TRANSPARENT TESTA GLABRA1 Network Allows Differential Hormonal Control of Laminal and Marginal Trichome Initiation in Arabidopsis Rosette Leaves

(2008) L. Maes et al.   PLANT PHYSIOLOGY