Leaf form diversification in an ornamental heirloom tomato results from alterations in two different HOMEOBOX genes

UF, a WOX gene, regulates a novel phenotype of un-fused flower in tomato

(2020) Chunli Zhang et al.   PLANT SCIENCE

A WOX/Auxin Biosynthesis Module Controls Growth to Shape Leaf Form

(2020) Zhongjuan Zhang et al.   CURRENT BIOLOGY

Leaflet initiation and blade expansion are separable in compound leaf development

(2020) Fei Du et al.   PLANT JOURNAL

The WOX family transcriptional regulator SlLAM1 controls compound leaf and floral organ development in Solanum lycopersicum

(2020) Chaoqun Wang et al.   JOURNAL OF EXPERIMENTAL BOTANY

A Growth-Based Framework for Leaf Shape Development and Diversity

(2019) Daniel Kierzkowski et al.   CELL

CRISPR/Cas9-mediated mutagenesis of CAROTENOID CLEAVAGE DIOXYGENASE 8 in tomato provides resistance against the parasitic weed Phelipanche aegyptiaca

(2019) Vinay Kumar Bari et al.   Scientific Reports

Leaf shape is a predictor of fruit quality and cultivar performance in tomato

(2019) Steven D. Rowland et al.   NEW PHYTOLOGIST

PhyloNetworks: A Package for Phylogenetic Networks

(2017) Claudia Solís-Lemus et al.   MOLECULAR BIOLOGY AND EVOLUTION

A chemical genetic roadmap to improved tomato flavor

(2017) Denise Tieman et al.   SCIENCE

Using gene networks in EvoDevo analyses

(2016) Neelima R Sinha et al.   CURRENT OPINION IN PLANT BIOLOGY

Exploring Tree-Like and Non-Tree-Like Patterns Using Genome Sequences: An Example Using the Inbreeding Plant SpeciesArabidopsis thaliana(L.) Heynh

(2015) Noah W. M. Stenz et al.   SYSTEMATIC BIOLOGY

BrAD-seq: Breath Adapter Directional sequencing: a streamlined, ultra-simple and fast library preparation protocol for strand specific mRNA library construction

(2015) Brad T. Townsley et al.   Frontiers in Plant Science

SNPhylo: a pipeline to construct a phylogenetic tree from huge SNP data

(2014) Tae-Ho Lee et al.   BMC GENOMICS

Genotyping-in-Thousands by sequencing (GT-seq): A cost effective SNP genotyping method based on custom amplicon sequencing

(2014) Nathan R. Campbell et al.   Molecular Ecology Resources

Genomic analyses provide insights into the history of tomato breeding

(2014) Tao Lin et al.   NATURE GENETICS

Analysis of 3D gene expression patterns in plants using whole-mount RNA in situ hybridization

(2014) Frédérique Rozier et al.   Nature Protocols

Regulation of the KNOX-GA Gene Module Induces Heterophyllic Alteration in North American Lake Cress

(2014) Hokuto Nakayama et al.   PLANT CELL

Resolving Distinct Genetic Regulators of Tomato Leaf Shape within a Heteroblastic and Ontogenetic Context

(2014) D. H. Chitwood et al.   PLANT CELL

STENOFOLIA Recruits TOPLESS to Repress ASYMMETRIC LEAVES2 at the Leaf Margin and Promote Leaf Blade Outgrowth in Medicago truncatula

(2014) F. Zhang et al.   PLANT CELL

Both CRISPR/Cas-based nucleases and nickases can be used efficiently for genome engineering inArabidopsis thaliana

(2014) Friedrich Fauser et al.   PLANT JOURNAL

Evolutionary developmental transcriptomics reveals a gene network module regulating interspecific diversity in plant leaf shape

(2014) Y. Ichihashi et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

MEGA6: Molecular Evolutionary Genetics Analysis Version 6.0

(2013) Koichiro Tamura et al.   MOLECULAR BIOLOGY AND EVOLUTION

Evolution of crop species: genetics of domestication and diversification

(2013) Rachel S. Meyer et al.   NATURE REVIEWS GENETICS

Patterning of Leaf Vein Networks by Convergent Auxin Transport Pathways

(2013) Megan G. Sawchuk et al.   PLoS Genetics

A high-performance computing toolset for relatedness and principal component analysis of SNP data

(2012) X. Zheng et al.   BIOINFORMATICS

DiffCorr: An R package to analyze and visualize differential correlations in biological networks

(2012) Atsushi Fukushima   GENE

NIH Image to ImageJ: 25 years of image analysis

(2012) Caroline A Schneider et al.   NATURE METHODS

Roles of the Middle Domain-Specific WUSCHEL-RELATED HOMEOBOX Genes in Early Development of Leaves in Arabidopsis

(2012) M. Nakata et al.   PLANT CELL

Predicting the Functional Effect of Amino Acid Substitutions and Indels

(2012) Yongwook Choi et al.   PLoS One

Dendroscope 3: An Interactive Tool for Rooted Phylogenetic Trees and Networks

(2012) Daniel H. Huson et al.   SYSTEMATIC BIOLOGY

The variant call format and VCFtools

(2011) P. Danecek et al.   BIOINFORMATICS

RSEM: accurate transcript quantification from RNA-Seq data with or without a reference genome

(2011) Bo Li et al.   BMC BIOINFORMATICS

STENOFOLIARegulates Blade Outgrowth and Leaf Vascular Patterning inMedicago truncatulaandNicotiana sylvestris

(2011) Million Tadege et al.   PLANT CELL

The iPlant Collaborative: Cyberinfrastructure for Plant Biology

(2011) Stephen A. Goff et al.   Frontiers in Plant Science

Arabidopsis thaliana Leaf Form Evolved via Loss of KNOX Expression in Leaves in Association with a Selective Sweep

(2010) Paolo Piazza et al.   CURRENT BIOLOGY

KNOX genes: versatile regulators of plant development and diversity

(2010) A. Hay et al.   DEVELOPMENT

edgeR: a Bioconductor package for differential expression analysis of digital gene expression data

(2009) M. D. Robinson et al.   BIOINFORMATICS

Natural Variation in Leaf Morphology Results from Mutation of a Novel KNOX Gene

(2008) Seisuke Kimura et al.   CURRENT BIOLOGY

The Amborella genome: an evolutionary reference for plant biology

(2008) Douglas E Soltis et al.   GENOME BIOLOGY