Transcriptome analysis uncovers key regulatory and metabolic aspects of soybean embryonic axes during germination

Genome-wide transcriptome analysis of soybean primary root under varying water-deficit conditions

(2016) Li Song et al.   BMC GENOMICS

The genome sequences of Arachis duranensis and Arachis ipaensis, the diploid ancestors of cultivated peanut

(2016) David John Bertioli et al.   NATURE GENETICS

Oxidation of Monolignols by Members of the Berberine Bridge Enzyme Family Suggests a Role in Plant Cell Wall Metabolism

(2015) Bastian Daniel et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Loss ofArabidopsis thalianaSeed Dormancy is Associated with Increased Accumulation of the GID1 GA Hormone Receptors

(2015) Amber L. Hauvermale et al.   PLANT AND CELL PHYSIOLOGY

How membranes organize during seed germination: three patterns of dynamic lipid remodelling define chilling resistance and affect plastid biogenesis

(2015) XIAOMEI YU et al.   PLANT CELL AND ENVIRONMENT

Trimmomatic: a flexible trimmer for Illumina sequence data

(2014) Anthony M. Bolger et al.   BIOINFORMATICS

RNA-seq analyses of multiple meristems of soybean: novel and alternative transcripts, evolutionary and functional implications

(2014) Lei Wang et al.   BMC PLANT BIOLOGY

Isolation and Characterization of the Brassinosteroid Receptor Gene (GmBRI1) from Glycine max

(2014) Miao Wang et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

A reference genome for common bean and genome-wide analysis of dual domestications

(2014) Jeremy Schmutz et al.   NATURE GENETICS

The AtLRK10L1.2, Arabidopsis ortholog of wheat LRK10, is involved in ABA-mediated signaling and drought resistance

(2014) Chae Woo Lim et al.   PLANT CELL REPORTS

Comprehensive Transcriptome Assembly of Chickpea (Cicer arietinum L.) Using Sanger and Next Generation Sequencing Platforms: Development and Applications

(2014) Himabindu Kudapa et al.   PLoS One

Activation and regulation of primary metabolism during seed germination

(2014) Leah Rosental et al.   SEED SCIENCE RESEARCH

Ethylene, a key factor in the regulation of seed dormancy

(2014) Françoise Corbineau et al.   Frontiers in Plant Science

Seed dormancy and germination—emerging mechanisms and new hypotheses

(2014) Hiroyuki Nonogaki   Frontiers in Plant Science

Brassinosteroids in plant developmental signaling networks

(2013) Hojin Ryu et al.   JOURNAL OF PLANT BIOLOGY

Draft genome sequence of chickpea (Cicer arietinum) provides a resource for trait improvement

(2013) Rajeev K Varshney et al.   NATURE BIOTECHNOLOGY

PlantTFDB 3.0: a portal for the functional and evolutionary study of plant transcription factors

(2013) Jinpu Jin et al.   NUCLEIC ACIDS RESEARCH

Impact of Whole-Genome and Tandem Duplications in the Expansion and Functional Diversification of the F-Box Family in Legumes (Fabaceae)

(2013) Daniel Bellieny-Rabelo et al.   PLoS One

Using RNA-Seq to Profile Soybean Seed Development from Fertilization to Maturity

(2013) Sarah I. Jones et al.   PLoS One

TopHat2: accurate alignment of transcriptomes in the presence of insertions, deletions and gene fusions

(2013) Daehwan Kim et al.   GENOME BIOLOGY

Accumulation of γ-aminobutyric acid in germinated soybean (Glycine max L.) in relation to glutamate decarboxylase and diamine oxidase activity induced by additives under hypoxia

(2012) Yuanxin Guo et al.   EUROPEAN FOOD RESEARCH AND TECHNOLOGY

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

Differential gene and transcript expression analysis of RNA-seq experiments with TopHat and Cufflinks

(2012) Cole Trapnell et al.   Nature Protocols

LBD18 acts as a transcriptional activator that directly binds to theEXPANSIN14promoter in promoting lateral root emergence of Arabidopsis

(2012) Han Woo Lee et al.   PLANT JOURNAL

Arabidopsis LATERAL ORGAN BOUNDARIES negatively regulates brassinosteroid accumulation to limit growth in organ boundaries

(2012) E. M. Bell et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Members of the gibberellin receptor gene family GID1 (GIBBERELLIN INSENSITIVE DWARF1) play distinct roles during Lepidium sativum and Arabidopsis thaliana seed germination

(2011) Antje Voegele et al.   JOURNAL OF EXPERIMENTAL BOTANY

First off the mark: early seed germination

(2011) Karin Weitbrecht et al.   JOURNAL OF EXPERIMENTAL BOTANY

Phytozome: a comparative platform for green plant genomics

(2011) David M. Goodstein et al.   NUCLEIC ACIDS RESEARCH

Accelerating yield potential in soybean: potential targets for biotechnological improvement

(2011) ELIZABETH A. AINSWORTH et al.   PLANT CELL AND ENVIRONMENT

Beyond gibberellins and abscisic acid: how ethylene and jasmonates control seed germination

(2011) Ada Linkies et al.   PLANT CELL REPORTS

Ethylene Receptor ETHYLENE RECEPTOR1 Domain Requirements for Ethylene Responses in Arabidopsis Seedlings

(2011) H. Kim et al.   PLANT PHYSIOLOGY

Gitools: Analysis and Visualisation of Genomic Data Using Interactive Heat-Maps

(2011) Christian Perez-Llamas et al.   PLoS One

REVIGO Summarizes and Visualizes Long Lists of Gene Ontology Terms

(2011) Fran Supek et al.   PLoS One

RNA-Seq Atlas of Glycine max: A guide to the soybean transcriptome

(2010) Andrew J Severin et al.   BMC PLANT BIOLOGY

Genome sequence of the palaeopolyploid soybean

(2010) Jeremy Schmutz et al.   NATURE

agriGO: a GO analysis toolkit for the agricultural community

(2010) Zhou Du et al.   NUCLEIC ACIDS RESEARCH

The Plastid Isoform of Triose Phosphate Isomerase Is Required for the Postgerminative Transition from Heterotrophic to Autotrophic Growth in Arabidopsis

(2010) M. Chen et al.   PLANT CELL

An integrated transcriptome atlas of the crop model Glycine max, and its use in comparative analyses in plants

(2010) Marc Libault et al.   PLANT JOURNAL

The transcriptome landscape of Arabidopsis male meiocytes from high-throughput sequencing: the complexity and evolution of the meiotic process

(2010) Hongxing Yang et al.   PLANT JOURNAL

Gibberellin-GID1-DELLA: A Pivotal Regulatory Module for Plant Growth and Development

(2010) T.-p. Sun   PLANT PHYSIOLOGY

Karrikins enhance light responses during germination and seedling development in Arabidopsis thaliana

(2010) D. C. Nelson et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Ethylene Interacts with Abscisic Acid to Regulate Endosperm Rupture during Germination: A Comparative Approach Using Lepidium sativum and Arabidopsis thaliana

(2009) A. Linkies et al.   PLANT CELL

Three related receptor-like kinases are required for optimal cell elongation in Arabidopsis thaliana

(2009) H. Guo et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Seed Storage Oil Mobilization

(2008) Ian A. Graham   Annual Review of Plant Biology

Structural basis for gibberellin recognition by its receptor GID1

(2008) Asako Shimada et al.   NATURE

Gibberellin-induced DELLA recognition by the gibberellin receptor GID1

(2008) Kohji Murase et al.   NATURE

Molecular networks regulating Arabidopsis seed maturation, after-ripening, dormancy and germination

(2008) Michael J. Holdsworth et al.   NEW PHYTOLOGIST

A small plant-specific protein family of ABI five binding proteins (AFPs) regulates stress response in germinating Arabidopsis seeds and seedlings

(2008) Mary Emily Garcia et al.   PLANT MOLECULAR BIOLOGY

Overexpression of a cytosol-localized rhamnose biosynthesis protein encoded by Arabidopsis RHM1 gene increases rhamnose content in cell wall

(2008) Jinfeng Wang et al.   PLANT PHYSIOLOGY AND BIOCHEMISTRY