The Arabidopsis transcription factor NLP2 regulates early nitrate responses and integrates nitrate assimilation with energy and carbon skeleton supply

Arabidopsis nitrate-induced aspartate oxidase gene expression is necessary to maintain metabolic balance under nitrogen nutrient fluctuation

(2022) Moriaki Saito et al.   Communications Biology

NIN-like protein 7 transcription factor is a plant nitrate sensor

(2022) Kun-Hsiang Liu et al.   SCIENCE

HAND1 and BARX1 act as transcriptional and anatomic determinants of malignancy in gastrointestinal stromal tumor

(2021) Matthew L Hemming et al.   CLINICAL CANCER RESEARCH

GARP transcription factors repress Arabidopsis nitrogen starvation response via ROS-dependent and -independent pathways

(2021) Alaeddine Safi et al.   JOURNAL OF EXPERIMENTAL BOTANY

Nitrate-responsive NIN-like protein transcription factors perform unique and redundant roles in Arabidopsis

(2021) Mineko Konishi et al.   JOURNAL OF EXPERIMENTAL BOTANY

Transient genome-wide interactions of the master transcription factor NLP7 initiate a rapid nitrogen-response cascade

(2020) José M. Alvarez et al.   Nature Communications

Nitrate 2020: Thirty years from transport to signaling networks

(2020) Elena A Vidal et al.   PLANT CELL

Nutrient dose-responsive transcriptome changes driven by Michaelis–Menten kinetics underlie plant growth rates

(2020) Joseph Swift et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Evolution of NIN and NIN-like Genes in Relation to Nodule Symbiosis

(2020) Jieyu Liu et al.   Genes

A moonlighting role for enzymes of glycolysis in the co-localization of mitochondria and chloroplasts

(2020) Youjun Zhang et al.   Nature Communications

The role of protein-protein interactions mediated by the PB1 domain of NLP transcription factors in nitrate-inducible gene expression

(2019) Mineko Konishi et al.   BMC PLANT BIOLOGY

Evolutionary analyses of NIN-like proteins in plants and their roles in nitrate signaling

(2019) Xiaohuan Mu et al.   CELLULAR AND MOLECULAR LIFE SCIENCES

Network Walking charts transcriptional dynamics of nitrogen signaling by integrating validated and predicted genome-wide interactions

(2019) Matthew D. Brooks et al.   Nature Communications

Mutations of the AtYAK1 Kinase Suppress TOR Deficiency in Arabidopsis

(2019) Céline Forzani et al.   Cell Reports

Changes in nitrogen availability lead to a reprogramming of pyruvate metabolism

(2018) Nazeer Fataftah et al.   BMC PLANT BIOLOGY

Repression of Nitrogen Starvation Responses by Members of the Arabidopsis GARP-Type Transcription Factor NIGT1/HRS1 Subfamily

(2018) Takatoshi Kiba et al.   PLANT CELL

Characterization of l -aspartate oxidase from Arabidopsis thaliana

(2018) Jingfang Hao et al.   PLANT SCIENCE

Temporal transcriptional logic of dynamic regulatory networks underlying nitrogen signaling and use in plants

(2018) Kranthi Varala et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

A NIGT1-centred transcriptional cascade regulates nitrate signalling and incorporates phosphorus starvation signals in Arabidopsis

(2018) Yoshie Maeda et al.   Nature Communications

Transcriptional regulation of nitrogen-associated metabolism and growth

(2018) Allison Gaudinier et al.   NATURE

Genome-wide identification of RETINOBLASTOMA RELATED 1 binding sites in Arabidopsis reveals novel DNA damage regulators

(2018) Daniel Bouyer et al.   PLoS Genetics

Discovery of nitrate–CPK–NLP signalling in central nutrient–growth networks

(2017) Kun-hsiang Liu et al.   NATURE

Interacting TCP and NLP transcription factors control plant responses to nitrate availability

(2017) Peizhu Guan et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Cistrome and Epicistrome Features Shape the Regulatory DNA Landscape

(2016) Ronan C. O’Malley et al.   CELL

A Tale of Two Sugars: Trehalose 6-Phosphate and Sucrose

(2016) Carlos M. Figueroa et al.   PLANT PHYSIOLOGY

A transcription factor hierarchy defines an environmental stress response network

(2016) L. Song et al.   SCIENCE

NIN-like protein 8 is a master regulator of nitrate-promoted seed germination in Arabidopsis

(2016) Dawei Yan et al.   Nature Communications

The Arabidopsis thaliana mobilome and its impact at the species level

(2016) Leandro Quadrana et al.   eLife

The MEME Suite

(2015) Timothy L. Bailey et al.   NUCLEIC ACIDS RESEARCH

AtNIGT1/HRS1 integrates nitrate and phosphate signals at the Arabidopsis root tip

(2015) Anna Medici et al.   Nature Communications

Trimmomatic: a flexible trimmer for Illumina sequence data

(2014) Anthony M. Bolger et al.   BIOINFORMATICS

HAND2 Targets Define a Network of Transcriptional Regulators that Compartmentalize the Early Limb Bud Mesenchyme

(2014) Marco Osterwalder et al.   DEVELOPMENTAL CELL

The Primary Nitrate Response: a multifaceted signalling pathway

(2014) Anna Medici et al.   JOURNAL OF EXPERIMENTAL BOTANY

The plant RWP-RK transcription factors: key regulators of nitrogen responses and of gametophyte development

(2014) Camille Chardin et al.   JOURNAL OF EXPERIMENTAL BOTANY

Nitrate transport and signalling in Arabidopsis

(2014) Anne Krapp et al.   JOURNAL OF EXPERIMENTAL BOTANY

Systems approach identifies TGA1 and TGA4 transcription factors as important regulatory components of the nitrate response ofArabidopsis thalianaroots

(2014) José M. Alvarez et al.   PLANT JOURNAL

Hit-and-run transcriptional control by bZIP1 mediates rapid nutrient signaling in Arabidopsis

(2014) A. Para et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The metabolic flux phenotype of heterotrophic Arabidopsis cells reveals a complex response to changes in nitrogen supply

(2013) Shyam K. Masakapalli et al.   PLANT JOURNAL

GreenGate - A Novel, Versatile, and Efficient Cloning System for Plant Transgenesis

(2013) Athanasios Lampropoulos et al.   PLoS One

Arabidopsis NIN-like transcription factors have a central role in nitrate signalling

(2013) Mineko Konishi et al.   Nature Communications

Nuclear retention of the transcription factor NLP7 orchestrates the early response to nitrate in plants

(2013) Chloé Marchive et al.   Nature Communications

Plant Nitrogen Assimilation and Use Efficiency

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

SortMeRNA: fast and accurate filtering of ribosomal RNAs in metatranscriptomic data

(2012) Evguenia Kopylova et al.   BIOINFORMATICS

Bacterial sensor kinases using Fe–S cluster binding PAS or GAF domains for O2sensing

(2012) Gottfried Unden et al.   DALTON TRANSACTIONS

ChIP-seq guidelines and practices of the ENCODE and modENCODE consortia

(2012) S. G. Landt et al.   GENOME RESEARCH

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

Integrative genomics viewer

(2011) James T Robinson et al.   NATURE BIOTECHNOLOGY

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

(2011) A. Krapp et al.   PLANT PHYSIOLOGY

Simple Combinations of Lineage-Determining Transcription Factors Prime cis-Regulatory Elements Required for Macrophage and B Cell Identities

(2010) Sven Heinz et al.   MOLECULAR CELL

Identification of a nitrate-responsive cis-element in the Arabidopsis NIR1 promoter defines the presence of multiple cis-regulatory elements for nitrogen response

(2010) Mineko Konishi et al.   PLANT JOURNAL

Arabidopsis has a cytosolic fumarase required for the massive allocation of photosynthate into fumaric acid and for rapid plant growth on high nitrogen

(2010) Itsara Pracharoenwattana et al.   PLANT JOURNAL

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

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

An archived activation tagged population of Arabidopsis thaliana to facilitate forward genetics approaches

(2009) Stephen J Robinson et al.   BMC PLANT BIOLOGY

Members of the LBD Family of Transcription Factors Repress Anthocyanin Synthesis and Affect Additional Nitrogen Responses in Arabidopsis

(2009) G. Rubin et al.   PLANT CELL

Adjustment of growth, starch turnover, protein content and central metabolism to a decrease of the carbon supply whenArabidopsisis grown in very short photoperiods

(2009) YVES GIBON et al.   PLANT CELL AND ENVIRONMENT

Arabidopsis TONNEAU1 Proteins Are Essential for Preprophase Band Formation and Interact with Centrin

(2008) J. Azimzadeh et al.   PLANT CELL

Adjustment of growth and central metabolism to a mild but sustained nitrogen-limitation inArabidopsis

(2008) HENDRIK TSCHOEP et al.   PLANT CELL AND ENVIRONMENT

The nodule inception-like protein 7 modulates nitrate sensing and metabolism in Arabidopsis

(2008) Loren Castaings et al.   PLANT JOURNAL