Global poplar root and leaf transcriptomes reveal links between growth and stress responses under nitrogen starvation and excess

Short-term growth and morphological responses to nitrogen availability and plant density in hybrid poplars and willows

(2015) Takamitsu Mamashita et al.   BIOMASS & BIOENERGY

High throughput RNA sequencing of a hybrid maize and its parents shows different mechanisms responsive to nitrogen limitation

(2014) Yong-Mei Bi et al.   BMC GENOMICS

Nitrogen-driven stem elongation in poplar is linked with wood modification and gene clusters for stress, photosynthesis and cell wall formation

(2014) Dejuan Euring et al.   BMC PLANT BIOLOGY

Exogenous abscisic acid alleviates zinc uptake and accumulation inPopulus × canescensexposed to excess zinc

(2014) WEN-GUANG SHI et al.   PLANT CELL AND ENVIRONMENT

Auxin biosynthetic geneTAR2is involved in low nitrogen-mediated reprogramming of root architecture in Arabidopsis

(2014) Wenying Ma et al.   PLANT JOURNAL

Deciphering the Mechanism of β-Aminobutyric Acid-Induced Resistance in Wheat to the Grain Aphid, Sitobion avenae

(2014) He-He Cao et al.   PLoS One

CLE-CLAVATA1 peptide-receptor signaling module regulates the expansion of plant root systems in a nitrogen-dependent manner

(2014) Takao Araya et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Plant nitrogen status and co-occurrence of organic and inorganic nitrogen sources influence root uptake by Scots pine seedlings

(2014) L. Gruffman et al.   TREE PHYSIOLOGY

Systems analysis of transcriptome data provides new hypotheses about Arabidopsis root response to nitrate treatments

(2014) Javier Canales et al.   Frontiers in Plant Science

Changes in carbon, nutrients and stoichiometric relations under different soil depths, plant tissues and ages in black locust plantations

(2013) Hong Li et al.   ACTA PHYSIOLOGIAE PLANTARUM

Poplar genetic engineering: promoting desirable wood characteristics and pest resistance

(2013) A. Polle et al.   APPLIED MICROBIOLOGY AND BIOTECHNOLOGY

Nitrogen metabolism of two contrasting poplar species during acclimation to limiting nitrogen availability

(2013) Jie Luo et al.   JOURNAL OF EXPERIMENTAL BOTANY

GASA14 regulates leaf expansion and abiotic stress resistance by modulating reactive oxygen species accumulation

(2013) Shulan Sun et al.   JOURNAL OF EXPERIMENTAL BOTANY

Nitrogen deprivation promotesPopulusroot growth through global transcriptome reprogramming and activation of hierarchical genetic networks

(2013) Hairong Wei et al.   NEW PHYTOLOGIST

Ectomycorrhizas withPaxillus involutusenhance cadmium uptake and tolerance inPopulus × canescens

(2013) YONGLU MA et al.   PLANT CELL AND ENVIRONMENT

A Transcriptomic Network Underlies Microstructural and Physiological Responses to Cadmium in Populus x canescens

(2013) J. He et al.   PLANT PHYSIOLOGY

Rapid Ammonia Gas Transport Accounts for Futile Transmembrane Cycling under NH3/NH4+ Toxicity in Plant Roots

(2013) D. Coskun et al.   PLANT PHYSIOLOGY

A Computational Systems Biology Study for Understanding Salt Tolerance Mechanism in Rice

(2013) Juexin Wang et al.   PLoS One

The Nitrate Transporter (NRT) Gene Family in Poplar

(2013) Hua Bai et al.   PLoS One

Systems approaches map regulatory networks downstream of the auxin receptor AFB3 in the nitrate response of Arabidopsis thaliana roots

(2013) E. A. Vidal et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Plant Nitrogen Assimilation and Use Efficiency

(2012) Guohua Xu et al.   Annual Review of Plant Biology

Cadmium tolerance in six poplar species

(2012) Jiali He et al.   ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH

N-fertilization has different effects on the growth, carbon and nitrogen physiology, and wood properties of slow- and fast-growing Populus species

(2012) Hong Li et al.   JOURNAL OF EXPERIMENTAL BOTANY

Nitrogen fluxes during the initial stage of willows and poplars in short-rotation coppices

(2012) Antje Balasus et al.   JOURNAL OF PLANT NUTRITION AND SOIL SCIENCE

A travel guide to Cytoscape plugins

(2012) Rintaro Saito et al.   NATURE METHODS

Gene expression patterns underlying changes in xylem structure and function in response to increased nitrogen availability in hybrid poplar

(2012) LENKA PLAVCOVÁ et al.   PLANT CELL AND ENVIRONMENT

Net fluxes of ammonium and nitrate in association with H+ fluxes in fine roots of Populus popularis

(2012) Jie Luo et al.   PLANTA

Costs of Defense and a Test of the Carbon-Nutrient Balance and Growth-Differentiation Balance Hypotheses for Two Co-Occurring Classes of Plant Defense

(2012) Tara Joy Massad et al.   PLoS One

Systems Biology for Enhanced Plant Nitrogen Nutrition

(2012) R. A. Gutierrez   SCIENCE

Nitrogen fertilization has differential effects on N allocation and lignin in two Populus species with contrasting ecology

(2012) Dejuan Euring et al.   TREES-STRUCTURE AND FUNCTION

FIMO: scanning for occurrences of a given motif

(2011) Charles E. Grant et al.   BIOINFORMATICS

Hormonal control of nitrogen acquisition: roles of auxin, abscisic acid, and cytokinin

(2011) Takatoshi Kiba et al.   JOURNAL OF EXPERIMENTAL BOTANY

Nitrate transceptor(s) in plants

(2011) A. Gojon et al.   JOURNAL OF EXPERIMENTAL BOTANY

Net cadmium flux and accumulation reveal tissue-specific oxidative stress and detoxification in Populus × canescens

(2011) Jiali He et al.   PHYSIOLOGIA PLANTARUM

Photosynthesis, water use efficiency and stable carbon isotope composition are associated with anatomical properties of leaf and xylem in six poplar species

(2011) X. Cao et al.   PLANT BIOLOGY

The Arabidopsis concentration-dependent influx/efflux transporter ABCB4 regulates cellular auxin levels in the root epidermis

(2011) Martin Kubeš et al.   PLANT JOURNAL

Arabidopsis Roots and Shoots Show Distinct Temporal Adaptation Patterns toward Nitrogen Starvation

(2011) A. Krapp et al.   PLANT PHYSIOLOGY

Nitrogen economics of root foraging: Transitive closure of the nitrate-cytokinin relay and distinct systemic signaling for N supply vs. demand

(2011) S. Ruffel et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

A framework integrating plant growth with hormones and nutrients

(2011) Gabriel Krouk et al.   TRENDS IN PLANT SCIENCE

Identification of genes regulated by ammonium availability in the roots of maritime pine trees

(2010) Javier Canales et al.   AMINO ACIDS

Nitrogen and phosphorus transformations in the rhizospheres of three tree species in a nutrient-poor sandy soil

(2010) Qiong Zhao et al.   APPLIED SOIL ECOLOGY

Nitrate-Regulated Auxin Transport by NRT1.1 Defines a Mechanism for Nutrient Sensing in Plants

(2010) Gabriel Krouk et al.   DEVELOPMENTAL CELL

Juvenile growth of hybrid poplars on acidic boreal soil determined by environmental effects of soil preparation, vegetation control, and fertilization

(2010) Simon Bilodeau-Gauthier et al.   FOREST ECOLOGY AND MANAGEMENT

Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation

(2010) Cole Trapnell et al.   NATURE BIOTECHNOLOGY

agriGO: a GO analysis toolkit for the agricultural community

(2010) Zhou Du et al.   NUCLEIC ACIDS RESEARCH

Nitrogen nutrition of poplar trees

(2010) H. Rennenberg et al.   PLANT BIOLOGY

A putative transporter is essential for integrating nutrient and hormone signaling with lateral root growth and nodule development inMedicago truncatula

(2010) Craig R. Yendrek et al.   PLANT JOURNAL

Arabidopsis PIS1 encodes the ABCG37 transporter of auxinic compounds including the auxin precursor indole-3-butyric acid

(2010) K. Ruzicka et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

High nitrogen fertilization and stem leaning have overlapping effects on wood formation in poplar but invoke largely distinct molecular pathways

(2010) F. E. Pitre et al.   TREE PHYSIOLOGY

Influence of nitrogen fertilization on xylem traits and aquaporin expression in stems of hybrid poplar

(2010) U. G. Hacke et al.   TREE PHYSIOLOGY

Ectomycorrhizal fungus (Paxillus involutus) and hydrogels affect performance of Populus euphratica exposed to drought stress

(2009) Zhi-Bin Luo et al.   ANNALS OF FOREST SCIENCE

Nitrogen in Agriculture: Balancing the Cost of an Essential Resource

(2009) G. Philip Robertson et al.   Annual Review of Environment and Resources

DEGseq: an R package for identifying differentially expressed genes from RNA-seq data

(2009) Likun Wang et al.   BIOINFORMATICS

TopHat: discovering splice junctions with RNA-Seq

(2009) Cole Trapnell et al.   BIOINFORMATICS

The extracellular EXO protein mediates cell expansion in Arabidopsis leaves

(2009) Florian Schröder et al.   BMC PLANT BIOLOGY

Wood composition and energy content in a poplar short rotation plantation on fertilized agricultural land in a future CO2atmosphere

(2009) ZHI-BIN LUO et al.   GLOBAL CHANGE BIOLOGY

Quantitative genetic analysis of biomass and wood chemistry ofPopulusunder different nitrogen levels

(2009) Evandro Novaes et al.   NEW PHYTOLOGIST

Uptake of organic nitrogen by plants

(2009) Torgny Näsholm et al.   NEW PHYTOLOGIST

MEME SUITE: tools for motif discovery and searching

(2009) T. L. Bailey et al.   NUCLEIC ACIDS RESEARCH

Nitrogen balance in forest soils: nutritional limitation of plants under climate change stresses

(2009) H. Rennenberg et al.   PLANT BIOLOGY

Upgrading Root Physiology for Stress Tolerance by Ectomycorrhizas: Insights from Metabolite and Transcriptional Profiling into Reprogramming for Stress Anticipation

(2009) Z.-B. Luo et al.   PLANT PHYSIOLOGY

Carbon-based secondary metabolites and internal nitrogen pools in Populus nigra under Free Air CO2 Enrichment (FACE) and nitrogen fertilisation

(2008) Zhi-Bin Luo et al.   PLANT AND SOIL

Differential regulation of two glutamine synthetase genes by a single Dof transcription factor

(2008) Marina Rueda-López et al.   PLANT JOURNAL

Hormone interactions during lateral root formation

(2008) Hidehiro Fukaki et al.   PLANT MOLECULAR BIOLOGY

High Humidity Induces Abscisic Acid 8'-Hydroxylase in Stomata and Vasculature to Regulate Local and Systemic Abscisic Acid Responses in Arabidopsis

(2008) M. Okamoto et al.   PLANT PHYSIOLOGY

Inhibition of maize root growth by high nitrate supply is correlated with reduced IAA levels in roots

(2007) Qiuying Tian et al.   JOURNAL OF PLANT PHYSIOLOGY