Pyruvate kinase variant of fission yeast tunes carbon metabolism, cell regulation, growth and stress resistance

Determination of the Global Pattern of Gene Expression in Yeast Cells by Intracellular Levels of Guanine Nucleotides

(2019) Andy Hesketh et al.   mBio

Mitochondrial Genetic Disorders: Cell Signaling and Pharmacological Therapies

(2019) Fatima Djouadi et al.   Cells

Minor Isozymes Tailor Yeast Metabolism to Carbon Availability

(2019) Patrick H. Bradley et al.   mSystems

The number of active metabolic pathways is bounded by the number of cellular constraints at maximal metabolic rates

(2019) Daan H. de Groot et al.   PLoS Computational Biology

An Overview of Structure, Function and Regulation of Pyruvate Kinases

(2019) Norbert Schormann et al.   PROTEIN SCIENCE

Extraction and Quantitation of Nicotinamide Adenine Dinucleotide Redox Cofactors

(2018) Wenyun Lu et al.   ANTIOXIDANTS & REDOX SIGNALING

Glucose Metabolism in Cancer: The Saga of Pyruvate Kinase Continues

(2018) Annamarie E. Allen et al.   CANCER CELL

PKM1 Confers Metabolic Advantages and Promotes Cell-Autonomous Tumor Cell Growth

(2018) Mami Morita et al.   CANCER CELL

A Map of Protein-Metabolite Interactions Reveals Principles of Chemical Communication

(2018) Ilaria Piazza et al.   CELL

Revisiting the Crabtree/Warburg effect in a dynamic perspective: a fitness advantage against sugar-induced cell death

(2018) Elisabetta de Alteriis et al.   CELL CYCLE

Metabolic-flux dependent regulation of microbial physiology

(2018) Athanasios Litsios et al.   CURRENT OPINION IN MICROBIOLOGY

Yeast lifespan variation correlates with cell growth and SIR2 expression

(2018) Jessica T. Smith et al.   PLoS One

Reprogramming Yeast Metabolism from Alcoholic Fermentation to Lipogenesis

(2018) Tao Yu et al.   CELL

Genome evolution across 1,011 Saccharomyces cerevisiae isolates

(2018) Jackson Peter et al.   NATURE

The PRIDE database and related tools and resources in 2019: improving support for quantification data

(2018) Yasset Perez-Riverol et al.   NUCLEIC ACIDS RESEARCH

A single Gal4-like transcription factor activates the Crabtree effect in Komagataella phaffii

(2018) Özge Ata et al.   Nature Communications

An engineered photoswitchable mammalian pyruvate kinase

(2017) Stefanie Gehrig et al.   FEBS Journal

Reevaluation of SNP heritability in complex human traits

(2017) Doug Speed et al.   NATURE GENETICS

A large gene family in fission yeast encodes spore killers that subvert Mendel’s law

(2017) Wen Hu et al.   eLife

Why Do Fast-Growing Bacteria Enter Overflow Metabolism? Testing the Membrane Real Estate Hypothesis

(2017) Mariola Szenk et al.   Cell Systems

Yeast Creates a Niche for Symbiotic Lactic Acid Bacteria through Nitrogen Overflow

(2017) Olga Ponomarova et al.   Cell Systems

A Flux Balance of Glucose Metabolism Clarifies the Requirements of the Warburg Effect

(2016) Ziwei Dai et al.   BIOPHYSICAL JOURNAL

Investigating mitochondrial redox state using NADH and NADPH autofluorescence

(2016) Thomas S. Blacker et al.   FREE RADICAL BIOLOGY AND MEDICINE

Trade-off Mechanisms Shaping the Diversity of Bacteria

(2016) Thomas Ferenci   TRENDS IN MICROBIOLOGY

Macromolecular crowding explains overflow metabolism in cells

(2016) Alexei Vazquez et al.   Scientific Reports

Scan-o-matic: High-Resolution Microbial Phenomics at a Massive Scale

(2016) Martin Zackrisson et al.   G3-Genes Genomes Genetics

The Natural Variation in Lifespans of Single Yeast Cells Is Related to Variation in Cell Size, Ribosomal Protein, and Division Time

(2016) Georges E. Janssens et al.   PLoS One

The critical glucose concentration for respiration-independent proliferation of fission yeast, Schizosaccharomyces pombe

(2015) Kojiro Takeda et al.   MITOCHONDRION

Pyruvate Kinase Isoform Expression Alters Nucleotide Synthesis to Impact Cell Proliferation

(2015) Sophia Y. Lunt et al.   MOLECULAR CELL

Overflow metabolism in Escherichia coli results from efficient proteome allocation

(2015) Markus Basan et al.   NATURE

The genomic and phenotypic diversity of Schizosaccharomyces pombe

(2015) Daniel C Jeffares et al.   NATURE GENETICS

Pyruvate kinase: Function, regulation and role in cancer

(2015) William J. Israelsen et al.   SEMINARS IN CELL & DEVELOPMENTAL BIOLOGY

AnGeLi: A Tool for the Analysis of Gene Lists from Fission Yeast

(2015) Danny A. Bitton et al.   Frontiers in Genetics

No evidence for a shift in pyruvate kinase PKM1 to PKM2 expression during tumorigenesis

(2015) Katharina Bluemlein et al.   Oncotarget

The Antituberculosis Antibiotic Capreomycin Inhibits Protein Synthesis by Disrupting Interaction between Ribosomal Proteins L12 and L10

(2014) Yuan Lin et al.   ANTIMICROBIAL AGENTS AND CHEMOTHERAPY

The fission yeastSchizosaccharomyces pombeas a model to understand how peroxiredoxins influence cell responses to hydrogen peroxide

(2014) Elizabeth A. Veal et al.   BIOCHEMICAL SOCIETY TRANSACTIONS

MSstats: an R package for statistical analysis of quantitative mass spectrometry-based proteomic experiments

(2014) Meena Choi et al.   BIOINFORMATICS

Trimmomatic: a flexible trimmer for Illumina sequence data

(2014) Anthony M. Bolger et al.   BIOINFORMATICS

Natural genetic variation impacts expression levels of coding, non-coding, and antisense transcripts in fission yeast

(2014) M. Clement-Ziza et al.   Molecular Systems Biology

Coordination of Gene Expression and Growth-Rate in Natural Populations of Budding Yeast

(2014) Zvi Tamari et al.   PLoS One

On the Dynamics of the Adenylate Energy System: Homeorhesis vs Homeostasis

(2014) Ildefonso M. De la Fuente et al.   PLoS One

gitter: A Robust and Accurate Method for Quantification of Colony Sizes From Plate Images

(2014) Omar Wagih et al.   G3-Genes Genomes Genetics

Inhibition of triosephosphate isomerase by phosphoenolpyruvate in the feedback-regulation of glycolysis

(2014) N.-M. Gruning et al.   Open Biology

Different Levels of Catabolite Repression Optimize Growth in Stable and Variable Environments

(2014) Aaron M. New et al.   PLOS BIOLOGY

Systematic screen for mutants resistant to TORC1 inhibition in fission yeast reveals genes involved in cellular ageing and growth

(2014) C. Rallis et al.   Biology Open

TORC1 signaling inhibition by rapamycin and caffeine affect lifespan, global gene expression, and cell proliferation of fission yeast

(2013) Charalampos Rallis et al.   AGING CELL

Improved Heritability Estimation from Genome-wide SNPs

(2012) Doug Speed et al.   AMERICAN JOURNAL OF HUMAN GENETICS

The genetic control of growth rate: a systems biology study in yeast

(2012) Pınar Pir et al.   BMC Systems Biology

A program for annotating and predicting the effects of single nucleotide polymorphisms, SnpEff

(2012) Pablo Cingolani et al.   FLY

Decoupling nutrient signaling from growth rate causes aerobic glycolysis and deregulation of cell size and gene expression

(2012) Nikolai Slavov et al.   MOLECULAR BIOLOGY OF THE CELL

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

Biochemical Issues in Estimation of Cytosolic Free NAD/NADH Ratio

(2012) Feifei Sun et al.   PLoS One

Aerobic Glycolysis: Meeting the Metabolic Requirements of Cell Proliferation

(2011) Sophia Y. Lunt et al.   Annual Review of Cell and Developmental Biology

The variant call format and VCFtools

(2011) P. Danecek et al.   BIOINFORMATICS

Cell size and growth rate are major determinants of replicative lifespan

(2011) Jingye Yang et al.   CELL CYCLE

Regulation of Yeast Chronological Life Span by TORC1 via Adaptive Mitochondrial ROS Signaling

(2011) Yong Pan et al.   Cell Metabolism

Pyruvate Kinase Triggers a Metabolic Feedback Loop that Controls Redox Metabolism in Respiring Cells

(2011) Nana-Maria Grüning et al.   Cell Metabolism

A flux-sensing mechanism could regulate the switch between respiration and fermentation

(2011) Daphne H. E. W. Huberts et al.   FEMS YEAST RESEARCH

The Response to Heat Shock and Oxidative Stress in Saccharomyces cerevisiae

(2011) K. A. Morano et al.   GENETICS

Genome-wide analysis of yeast stress survival and tolerance acquisition to analyze the central trade-off between growth rate and cellular robustness

(2011) Anna Zakrzewska et al.   MOLECULAR BIOLOGY OF THE CELL

Economics of membrane occupancy and respiro-fermentation

(2011) K. Zhuang et al.   Molecular Systems Biology

PomBase: a comprehensive online resource for fission yeast

(2011) V. Wood et al.   NUCLEIC ACIDS RESEARCH

Comparative Functional Genomics of the Fission Yeasts

(2011) N. Rhind et al.   SCIENCE

Inhibition of Pyruvate Kinase M2 by Reactive Oxygen Species Contributes to Cellular Antioxidant Responses

(2011) D. Anastasiou et al.   SCIENCE

Effects of calorie restriction on life span of microorganisms

(2010) Craig Skinner et al.   APPLIED MICROBIOLOGY AND BIOTECHNOLOGY

BEDTools: a flexible suite of utilities for comparing genomic features

(2010) Aaron R. Quinlan et al.   BIOINFORMATICS

Lifespan extension by calorie restriction relies on the Sty1 MAP kinase stress pathway

(2010) Alice Zuin et al.   EMBO JOURNAL

Intracellular characterization of aerobic glucose metabolism in seven yeast species by 13C flux analysis and metabolomics

(2010) Stefan Christen et al.   FEMS YEAST RESEARCH

A new bioinformatics analysis tools framework at EMBL-EBI

(2010) M. Goujon et al.   NUCLEIC ACIDS RESEARCH

Tumor cell energy metabolism and its common features with yeast metabolism

(2009) R. Diaz-Ruiz et al.   BIOCHIMICA ET BIOPHYSICA ACTA-REVIEWS ON CANCER

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

Jalview Version 2--a multiple sequence alignment editor and analysis workbench

(2009) A. M. Waterhouse et al.   BIOINFORMATICS

BLAST+: architecture and applications

(2009) Christiam Camacho et al.   BMC BIOINFORMATICS

Energetics, epigenetics, mitochondrial genetics

(2009) Douglas C. Wallace et al.   MITOCHONDRION

SeaView Version 4: A Multiplatform Graphical User Interface for Sequence Alignment and Phylogenetic Tree Building

(2009) M. Gouy et al.   MOLECULAR BIOLOGY AND EVOLUTION

Shifts in growth strategies reflect tradeoffs in cellular economics

(2009) Douwe Molenaar et al.   Molecular Systems Biology

Pro-Aging Effects of Glucose Signaling through a G Protein-Coupled Glucose Receptor in Fission Yeast

(2009) Antoine E. Roux et al.   PLoS Genetics

Anoxia-Induced Suspended Animation in Budding Yeast as an Experimental Paradigm for Studying Oxygen-Regulated Gene Expression

(2008) Kin Chan et al.   EUKARYOTIC CELL

The M2 splice isoform of pyruvate kinase is important for cancer metabolism and tumour growth

(2008) Heather R. Christofk et al.   NATURE

Tuning gene expression to changing environments: from rapid responses to evolutionary adaptation

(2008) Luis López-Maury et al.   NATURE REVIEWS GENETICS