System-level network analysis of nitrogen starvation and recovery in Chlamydomonas reinhardtii reveals potential new targets for increased lipid accumulation

AlgaePath: comprehensive analysis of metabolic pathways using transcript abundance data from next-generation sequencing in green algae

(2014) Han-Qin Zheng et al.   BMC GENOMICS

Integrated Quantitative Analysis of Nitrogen Stress Response in Chlamydomonas reinhardtii Using Metabolite and Protein Profiling

(2014) Nishikant Wase et al.   JOURNAL OF PROTEOME RESEARCH

A universal protocol for the combined isolation of metabolites, DNA, long RNAs, small RNAs, and proteins from plants and microorganisms

(2014) Luis Valledor et al.   PLANT JOURNAL

Activity of the Brassinosteroid Transcription Factors BRASSINAZOLE RESISTANT1 and BRASSINOSTEROID INSENSITIVE1-ETHYL METHANESULFONATE-SUPPRESSOR1/BRASSINAZOLE RESISTANT2 Blocks Developmental Reprogramming in Response to Low Phosphate Availability

(2014) A. P. Singh et al.   PLANT PHYSIOLOGY

Mathematical modeling reveals that metabolic feedback regulation of SnRK1 and hexokinase is sufficient to control sugar homeostasis from energy depletion to full recovery

(2014) Thomas Nägele et al.   Frontiers in Plant Science

Systemic Cold Stress Adaptation ofChlamydomonas reinhardtii

(2013) Luis Valledor et al.   MOLECULAR & CELLULAR PROTEOMICS

GoMapMan: integration, consolidation and visualization of plant gene annotations within the MapMan ontology

(2013) Živa Ramšak et al.   NUCLEIC ACIDS RESEARCH

Flux balance analysis of primary metabolism in Chlamydomonas reinhardtii

(2012) Nanette R Boyle et al.   BMC Systems Biology

Sensing nutrient and energy status by SnRK1 and TOR kinases

(2012) Christophe Robaglia et al.   CURRENT OPINION IN PLANT BIOLOGY

Three Acyltransferases and Nitrogen-responsive Regulator Are Implicated in Nitrogen Starvation-induced Triacylglycerol Accumulation inChlamydomonas

(2012) Nanette R. Boyle et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

The different proteomes of Chlamydomonas reinhardtii

(2012) Luis Valledor et al.   Journal of Proteomics

COVAIN: a toolbox for uni- and multivariate statistics, time-series and correlation network analysis and inverse estimation of the differential Jacobian from metabolomics covariance data

(2012) Xiaoliang Sun et al.   Metabolomics

Granger causality in integrated GC–MS and LC–MS metabolomics data reveals the interface of primary and secondary metabolism

(2012) Hannes Doerfler et al.   Metabolomics

System Response of Metabolic Networks inChlamydomonas reinhardtiito Total Available Ammonium

(2012) Do Yup Lee et al.   MOLECULAR & CELLULAR PROTEOMICS

Fiji: an open-source platform for biological-image analysis

(2012) Johannes Schindelin et al.   NATURE METHODS

Metabolomics: the apogee of the omics trilogy

(2012) Gary J. Patti et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Metabolic and gene expression changes triggered by nitrogen deprivation in the photoautotrophically grown microalgae Chlamydomonas reinhardtii and Coccomyxa sp. C-169

(2012) Joseph Msanne et al.   PHYTOCHEMISTRY

Unpredictability of metabolism—the key role of metabolomics science in combination with next-generation genome sequencing

(2011) Wolfram Weckwerth   ANALYTICAL AND BIOANALYTICAL CHEMISTRY

Algal Functional Annotation Tool: a web-based analysis suite to functionally interpret large gene lists using integrated annotation and expression data

(2011) David Lopez et al.   BMC BIOINFORMATICS

Oil accumulation in the model green alga Chlamydomonas reinhardtii: characterization, variability between common laboratory strains and relationship with starch reserves

(2011) Magali Siaut et al.   BMC BIOTECHNOLOGY

Construction and evaluation of a whole genome microarray of Chlamydomonas reinhardtii

(2011) Jörg Toepel et al.   BMC GENOMICS

TAG, You’re it! Chlamydomonas as a reference organism for understanding algal triacylglycerol accumulation

(2011) Sabeeha S Merchant et al.   CURRENT OPINION IN BIOTECHNOLOGY

Green systems biology — From single genomes, proteomes and metabolomes to ecosystems research and biotechnology

(2011) Wolfram Weckwerth   Journal of Proteomics

A revised mineral nutrient supplement increases biomass and growth rate in Chlamydomonas reinhardtii

(2011) Janette Kropat et al.   PLANT JOURNAL

Arabidopsis decuple mutant reveals the importance of SnRK2 kinases in osmotic stress responses in vivo

(2011) H. Fujii et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Proteomic profiling of oil bodies isolated from the unicellular green microalga Chlamydomonas reinhardtii: With focus on proteins involved in lipid metabolism

(2011) Hoa M. Nguyen et al.   PROTEOMICS

Metabolite changes with induction ofCuscutahaustorium and translocation from host plants

(2011) Takeshi Furuhashi et al.   Journal of Plant Interactions

Fatty acid profiling of Chlamydomonas reinhardtii under nitrogen deprivation

(2010) Gabriel O. James et al.   BIORESOURCE TECHNOLOGY

Back to the basics: Maximizing the information obtained by quantitative two dimensional gel electrophoresis analyses by an appropriate experimental design and statistical analyses

(2010) Luis Valledor et al.   Journal of Proteomics

Targeted proteomics for Chlamydomonas reinhardtii combined with rapid subcellular protein fractionation, metabolomics and metabolic flux analyses

(2010) Stefanie Wienkoop et al.   Molecular BioSystems

Metabolic Pathway Relationships Revealed by an Integrative Analysis of the Transcriptional and Metabolic Temperature Stress-Response Dynamics in Yeast

(2010) Dirk Walther et al.   OMICS-A JOURNAL OF INTEGRATIVE BIOLOGY

RNA-Seq Analysis of Sulfur-DeprivedChlamydomonasCells Reveals Aspects of Acclimation Critical for Cell Survival

(2010) David González-Ballester et al.   PLANT CELL

A brassinosteroid transcriptional network revealed by genome-wide identification of BESI target genes in Arabidopsis thaliana

(2010) Xiaofei Yu et al.   PLANT JOURNAL

Changes in Transcript Abundance in Chlamydomonas reinhardtii following Nitrogen Deprivation Predict Diversion of Metabolism

(2010) R. Miller et al.   PLANT PHYSIOLOGY

Chlamydomonas reinhardtii: duration of its cell cycle and phases at growth rates affected by light intensity

(2010) Milada Vítová et al.   PLANTA

Spectral counting robust on high mass accuracy mass spectrometers

(2010) Wolfgang Hoehenwarter et al.   RAPID COMMUNICATIONS IN MASS SPECTROMETRY

Theoretical Maximum Algal Oil Production

(2009) Kristina M. Weyer et al.   BioEnergy Research

ChlamyCyc: an integrative systems biology database and web-portal for Chlamydomonas reinhardtii

(2009) Patrick May et al.   BMC GENOMICS

Chlamydomonas proteomics

(2009) Norbert Rolland et al.   CURRENT OPINION IN MICROBIOLOGY

Sugar perception and signaling—an update

(2009) Johannes Hanson et al.   CURRENT OPINION IN PLANT BIOLOGY

Algal Lipid Bodies: Stress Induction, Purification, and Biochemical Characterization in Wild-Type and StarchlessChlamydomonas reinhardtii

(2009) Zi Teng Wang et al.   EUKARYOTIC CELL

RNA Interference Silencing of a Major Lipid Droplet Protein Affects Lipid Droplet Size inChlamydomonas reinhardtii

(2009) Eric R. Moellering et al.   EUKARYOTIC CELL

An automated GCxGC-TOF-MS protocol for batch-wise extraction and alignment of mass isotopomer matrixes from differential13C-labelling experiments: a case study for photoautotrophic-mixotrophic grownChlamydomonas reinhardtiicells

(2009) Stefan Kempa et al.   JOURNAL OF BASIC MICROBIOLOGY

Metabolomics-driven quantitative analysis of ammonia assimilation in E. coli

(2009) Jie Yuan et al.   Molecular Systems Biology

PlnTFDB: updated content and new features of the plant transcription factor database

(2009) Paulino Pérez-Rodríguez et al.   NUCLEIC ACIDS RESEARCH

Inhibition of SNF1-Related Protein Kinase1 Activity and Regulation of Metabolic Pathways by Trehalose-6-Phosphate

(2009) Y. Zhang et al.   PLANT PHYSIOLOGY

Microalgae for biodiesel production and other applications: A review

(2009) Teresa M. Mata et al.   RENEWABLE & SUSTAINABLE ENERGY REVIEWS

Second Generation Biofuels: High-Efficiency Microalgae for Biodiesel Production

(2008) Peer M. Schenk et al.   BioEnergy Research

Green Transcription Factors: A Chlamydomonas Overview

(2008) D. M. Riano-Pachon et al.   GENETICS

Metabolomics- and Proteomics-Assisted Genome Annotation and Analysis of the Draft Metabolic Network of Chlamydomonas reinhardtii

(2008) P. May et al.   GENETICS

Microalgae as a raw material for biofuels production

(2008) Luisa Gouveia et al.   JOURNAL OF INDUSTRIAL MICROBIOLOGY & BIOTECHNOLOGY

Identification and characterization of two closely related β-carbonic anhydrases from Chlamydomonas reinhardtii

(2008) Ruby A. Ynalvez et al.   PHYSIOLOGIA PLANTARUM

Microalgal triacylglycerols as feedstocks for biofuel production: perspectives and advances

(2008) Qiang Hu et al.   PLANT JOURNAL

Convergent energy and stress signaling

(2008) Elena Baena-González et al.   TRENDS IN PLANT SCIENCE