Population heterogeneity in microbial bioprocesses: origin, analysis, mechanisms, and future perspectives

Tools for the determination of population heterogeneity caused by inhomogeneous cultivation conditions

(2017) Anja Lemoine et al.   JOURNAL OF BIOTECHNOLOGY

Homogenizing bacterial cell factories: Analysis and engineering of phenotypic heterogeneity

(2017) Dennis Binder et al.   METABOLIC ENGINEERING

Lactic acid production from submerged fermentation of broken rice using undefined mixed culture

(2017) Luiza Varela Nunes et al.   WORLD JOURNAL OF MICROBIOLOGY & BIOTECHNOLOGY

Taking control over microbial populations: Current approaches for exploiting biological noise in bioprocesses

(2017) Frank Delvigne et al.   Biotechnology Journal

Mass Cytometry for Detection of Silver at the Bacterial Single Cell Level

(2017) Yuting Guo et al.   Frontiers in Microbiology

Heterogeneity in Pure Microbial Systems: Experimental Measurements and Modeling

(2017) Rebeca González-Cabaleiro et al.   Frontiers in Microbiology

History of adaptation determines short-term shifts in performance and community structure of hydrogen-producing microbial communities degrading wheat straw

(2017) Idania Valdez-Vazquez et al.   Microbial Biotechnology

Transcriptional response of Escherichia coli to ammonia and glucose fluctuations

(2017) Joana Danica Simen et al.   Microbial Biotechnology

Self-organization of bacterial communities against environmental pH variation: Controlled chemotactic motility arranges cell population structures in biofilms

(2017) Sohei Tasaki et al.   PLoS One

Flow Cytometric Single-Cell Identification of Populations in Synthetic Bacterial Communities

(2017) Peter Rubbens et al.   PLoS One

Intracellular pH Response to Weak Acid Stress in Individual Vegetative Bacillus subtilis Cells

(2016) Rachna Pandey et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Light-Controlled Cell Factories: Employing Photocaged Isopropyl-β-d-Thiogalactopyranoside for Light-Mediated Optimization oflacPromoter-Based Gene Expression and (+)-Valencene Biosynthesis in Corynebacterium glutamicum

(2016) Dennis Binder et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Mixed consortia in bioprocesses: role of microbial interactions

(2016) Shiladitya Ghosh et al.   APPLIED MICROBIOLOGY AND BIOTECHNOLOGY

Screening of an Escherichia coli promoter library for a phenylalanine biosensor

(2016) Regina Mahr et al.   APPLIED MICROBIOLOGY AND BIOTECHNOLOGY

Reevaluating multicolor flow cytometry to assess microbial viability

(2016) Benjamin Buysschaert et al.   APPLIED MICROBIOLOGY AND BIOTECHNOLOGY

Defining heterogeneity within bacterial populations via single cell approaches

(2016) Kimberly M. Davis et al.   BIOESSAYS

Establishment of a fully automated microtiter plate-based system for suspension cell culture and its application for enhanced process optimization

(2016) Sven Markert et al.   BIOTECHNOLOGY AND BIOENGINEERING

Metabolic profile of 1,5-diaminopentane producing Corynebacterium glutamicum under scale-down conditions: Blueprint for robustness to bioreactor inhomogeneities

(2016) Michael H. Limberg et al.   BIOTECHNOLOGY AND BIOENGINEERING

Cell-to-cell heterogeneity emerges as consequence of metabolic cooperation in a synthetic yeast community

(2016) Kate Campbell et al.   Biotechnology Journal

Application of flow cytometry for monitoring the production of poly(3-hydroxybutyrate) by Halomonas boliviensis

(2016) María García-Torreiro et al.   BIOTECHNOLOGY PROGRESS

CFD of mixing of multi-phase flow in a bioreactor using population balance model

(2016) Jayati Sarkar et al.   BIOTECHNOLOGY PROGRESS

Mass Cytometry: Single Cells, Many Features

(2016) Matthew H. Spitzer et al.   CELL

A flexible well-mixed milliliter-scale reactor with high oxygen transfer rate for microbial cultivations

(2016) Andrijana Bolic et al.   CHEMICAL ENGINEERING JOURNAL

Characterizing bubble column bioreactor performance using computational fluid dynamics

(2016) Dale D. McClure et al.   CHEMICAL ENGINEERING SCIENCE

Cellular Heterogeneity: Benefits Besides Bet-Hedging

(2016) Sasha F. Levy   CURRENT BIOLOGY

Noise and Epigenetic Inheritance of Single-Cell Division Times Influence Population Fitness

(2016) Bram Cerulus et al.   CURRENT BIOLOGY

Euler-Lagrange computational fluid dynamics for (bio)reactor scale down: An analysis of organism lifelines

(2016) Cees Haringa et al.   ENGINEERING IN LIFE SCIENCES

Modulation of heterologous expression from P BAD promoter in Escherichia coli production strains

(2016) Diana Széliová et al.   JOURNAL OF BIOTECHNOLOGY

Engineering E. coli for large-scale production – Strategies considering ATP expenses and transcriptional responses

(2016) Michael Löffler et al.   METABOLIC ENGINEERING

Experimental and computational optimization of an Escherichia coli co-culture for the efficient production of flavonoids

(2016) J. Andrew Jones et al.   METABOLIC ENGINEERING

Frequency‐dependent selection: a diversifying force in microbial populations

(2016) Daniel A Charlebois et al.   Molecular Systems Biology

Negative frequency‐dependent interactions can underlie phenotypic heterogeneity in a clonal microbial population

(2016) David Healey et al.   Molecular Systems Biology

Noise-driven growth rate gain in clonal cellular populations

(2016) Mikihiro Hashimoto et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Genetically encoded sensors enable real-time observation of metabolite production

(2016) Jameson K. Rogers et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Metastable coexistence of multiple genotypes in a constant environment with a single resource through fixed settings of a multiplication-survival trade-off

(2016) Ram Maharjan et al.   RESEARCH IN MICROBIOLOGY

A Toolbox of Genetically Encoded FRET-Based Biosensors for Rapid l-Lysine Analysis

(2016) Victoria Steffen et al.   SENSORS

Use of noise in gene expression as an experimental parameter to test phenotypic effects

(2016) Jian Liu et al.   YEAST

Noise Expands the Response Range of the Bacillus subtilis Competence Circuit

(2016) Andrew Mugler et al.   PLoS Computational Biology

Cell-to-cell heterogeneity emerges as consequence of metabolic cooperation in a synthetic yeast community

(2016) Kate Campbell et al.   Biotechnology Journal

Phenotypic Variability in Synthetic Biology Applications: Dealing with Noise in Microbial Gene Expression

(2016) Lucia Bandiera et al.   Frontiers in Microbiology

Identifying Metabolic Subpopulations from Population Level Mass Spectrometry

(2016) Christine M. DeGennaro et al.   PLoS One

Comparative Single-Cell Analysis of Different E. coli Expression Systems during Microfluidic Cultivation

(2016) Dennis Binder et al.   PLoS One

Growth resumption from stationary phase reveals memory in Escherichia coli cultures

(2016) Arvi Jõers et al.   Scientific Reports

Online flow cytometry reveals microbial dynamics influenced by concurrent natural and operational events in groundwater used for drinking water treatment

(2016) Michael D. Besmer et al.   Scientific Reports

Transcription factor-based biosensors in biotechnology: current state and future prospects

(2015) Regina Mahr et al.   APPLIED MICROBIOLOGY AND BIOTECHNOLOGY

Rate control in yeast protein synthesis at the population and single-cell levels

(2015) E. Dacheux et al.   BIOCHEMICAL SOCIETY TRANSACTIONS

Response ofCorynebacterium glutamicumexposed to oscillating cultivation conditions in a two- and a novel three-compartment scale-down bioreactor

(2015) Anja Lemoine et al.   BIOTECHNOLOGY AND BIOENGINEERING

Phenotypic variability in bioprocessing conditions can be tracked on the basis of on-line flow cytometry and fits to a scaling law

(2015) Jonathan Baert et al.   Biotechnology Journal

FRET-based genetically-encoded sensors for quantitative monitoring of metabolites

(2015) Mohd. Mohsin et al.   BIOTECHNOLOGY LETTERS

Critical aspects of using bacterial cell viability assays with the fluorophores SYTO9 and propidium iodide

(2015) Philipp Stiefel et al.   BMC MICROBIOLOGY

Persister Heterogeneity Arising from a Single Metabolic Stress

(2015) Stephanie M. Amato et al.   CURRENT BIOLOGY

Genetically-encoded biosensors for monitoring cellular stress in bioprocessing

(2015) Karen M Polizzi et al.   CURRENT OPINION IN BIOTECHNOLOGY

Better together: engineering and application of microbial symbioses

(2015) Stephanie G Hays et al.   CURRENT OPINION IN BIOTECHNOLOGY

Novel screening methods—biosensors

(2015) Lothar Eggeling et al.   CURRENT OPINION IN BIOTECHNOLOGY

Non-random distribution of macromolecules as driving forces for phenotypic variation

(2015) Michael Jahn et al.   CURRENT OPINION IN MICROBIOLOGY

Microbial individuality: how single-cell heterogeneity enables population level strategies

(2015) Bruno MC Martins et al.   CURRENT OPINION IN MICROBIOLOGY

Connecting growth with gene expression: of noise and numbers

(2015) Vahid Shahrezaei et al.   CURRENT OPINION IN MICROBIOLOGY

Microbial bet-hedging: the power of being different

(2015) Ard Jan Grimbergen et al.   CURRENT OPINION IN MICROBIOLOGY

Spatiotemporal microbial single-cell analysis using a high-throughput microfluidics cultivation platform

(2015) Alexander Grünberger et al.   CYTOMETRY PART A

Surviving the heat: heterogeneity of response inSaccharomyces cerevisiaeprovides insight into thermal damage to the membrane

(2015) Stéphane Guyot et al.   ENVIRONMENTAL MICROBIOLOGY

Noise in gene expression is coupled to growth rate

(2015) Leeat Keren et al.   GENOME RESEARCH

Classification of phenotypic subpopulations in isogenic bacterial cultures by triple promoter probing at single cell level

(2015) Jan-Philip Schlüter et al.   JOURNAL OF BIOTECHNOLOGY

The dynamic balance of import and export of zinc in Escherichia coli suggests a heterogeneous population response to stress

(2015) H. Takahashi et al.   Journal of the Royal Society Interface

Technical bias of microcultivation environments on single-cell physiology

(2015) Christian Dusny et al.   LAB ON A CHIP

A functional perspective on phenotypic heterogeneity in microorganisms

(2015) Martin Ackermann   NATURE REVIEWS MICROBIOLOGY

Phenotypic variability in bioprocessing conditions can be tracked on the basis of on-line flow cytometry and fits to a scaling law

(2015) Jonathan Baert et al.   Biotechnology Journal

Variability in subpopulation formation propagates into biocatalytic variability of engineered Pseudomonas putida strains

(2015) Martin Lindmeyer et al.   Frontiers in Microbiology

Non-Invasive Microbial Metabolic Activity Sensing at Single Cell Level by Perfusion of Calcein Acetoxymethyl Ester

(2015) Christina E. M. Krämer et al.   PLoS One

Adaptation to sustained nitrogen starvation by Escherichia coli requires the eukaryote-like serine/threonine kinase YeaG

(2015) Rita Figueira et al.   Scientific Reports

Molecular phenotypic profiling of a Saccharomyces cerevisiae strain at the single-cell level

(2014) A. Mareike Schmidt et al.   ANALYST

Modeling Bacterial Population Growth from Stochastic Single-Cell Dynamics

(2014) Antonio A. Alonso et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

CO2/HCO3 − perturbations of simulated large scale gradients in a scale-down device cause fast transcriptional responses in Corynebacterium glutamicum

(2014) Jens Buchholz et al.   APPLIED MICROBIOLOGY AND BIOTECHNOLOGY

Mutational heterogeneity: A key ingredient of bet-hedging and evolutionary divergence?

(2014) Thomas Ferenci et al.   BIOESSAYS

Scale-down effect on the extracellular proteome of Escherichia coli: correlation with membrane permeability and modulation according to substrate heterogeneities

(2014) Alison Brognaux et al.   BIOPROCESS AND BIOSYSTEMS ENGINEERING

Rapid assessment of oxygen transfer impact for Corynebacterium glutamicum

(2014) Friedrich Käß et al.   BIOPROCESS AND BIOSYSTEMS ENGINEERING

Construction of malate-sensing Escherichia coli by introduction of a novel chimeric two-component system

(2014) Irisappan Ganesh et al.   BIOPROCESS AND BIOSYSTEMS ENGINEERING

Flow cytometric analysis of E. coli on agar plates: implications for recombinant protein production

(2014) Chris Wyre et al.   BIOTECHNOLOGY LETTERS

Assessment of morphological changes of Clostridium acetobutylicum by flow cytometry during acetone/butanol/ethanol extractive fermentation

(2014) Helena González-Peñas et al.   BIOTECHNOLOGY LETTERS

Species-specific viability analysis of Pseudomonas aeruginosa, Burkholderia cepacia and Staphylococcus aureus in mixed culture by flow cytometry

(2014) Marc Rüger et al.   BMC MICROBIOLOGY

Age-correlated stress resistance improves fitness of yeast: support from agent-based simulations

(2014) Ferdi L Hellweger et al.   BMC Systems Biology

Measuring gene expression in single bacterial cells: recent advances in methods and micro-devices

(2014) Xu Shi et al.   CRITICAL REVIEWS IN BIOTECHNOLOGY

Single-cell microfluidics: opportunity for bioprocess development

(2014) Alexander Grünberger et al.   CURRENT OPINION IN BIOTECHNOLOGY

Looking for the pick of the bunch: high-throughput screening of producing microorganisms with biosensors

(2014) Marcus Schallmey et al.   CURRENT OPINION IN BIOTECHNOLOGY

Integration of microbial kinetics and fluid dynamics toward model-driven scale-up of industrial bioprocesses

(2014) Guan Wang et al.   ENGINEERING IN LIFE SCIENCES

Microfluidic single-cell analysis links boundary environments and individual microbial phenotypes

(2014) Christian Dusny et al.   ENVIRONMENTAL MICROBIOLOGY

Stochastic galactokinase expression underliesGALgene induction in aGAL3mutant ofSaccharomyces cerevisiae

(2014) Rajesh Kumar Kar et al.   FEBS Journal

The fraction of cells that resume growth after acetic acid addition is a strain-dependent parameter of acetic acid tolerance inSaccharomyces cerevisiae

(2014) Steve Swinnen et al.   FEMS YEAST RESEARCH

Real-time optogenetic control of intracellular protein concentration in microbial cell cultures

(2014) Justin Melendez et al.   Integrative Biology

Population heterogeneity and dynamics in starter culture and lag phase adaptation of the spoilage yeast Zygosaccharomyces bailii to weak acid preservatives

(2014) Malcolm Stratford et al.   INTERNATIONAL JOURNAL OF FOOD MICROBIOLOGY

Massive Diversification in Aging Colonies of Escherichia coli

(2014) C. Saint-Ruf et al.   JOURNAL OF BACTERIOLOGY

Reprint of Design of synthetic microbial communities for biotechnological production processes

(2014) Nina Jagmann et al.   JOURNAL OF BIOTECHNOLOGY

Experimental andin silicoinvestigation of population heterogeneity in continuousSachharomyces cerevisiaescale-down fermentation in a two-compartment setup

(2014) Anna-Lena Heins et al.   JOURNAL OF CHEMICAL TECHNOLOGY AND BIOTECHNOLOGY

Co-culture systems and technologies: taking synthetic biology to the next level

(2014) L. Goers et al.   Journal of the Royal Society Interface

Process inhomogeneity leads to rapid side product turnover in cultivation of Corynebacterium glutamicum

(2014) Friedrich Käß et al.   Microbial Cell Factories

Stochasticity of metabolism and growth at the single-cell level

(2014) Daniel J. Kiviet et al.   NATURE

Application of a Genetically Encoded Biosensor for Live Cell Imaging of L-Valine Production in Pyruvate Dehydrogenase Complex-Deficient Corynebacterium glutamicum Strains

(2014) Nurije Mustafi et al.   PLoS One

Single Cell Kinetics of Phenotypic Switching in the Arabinose Utilization System of E. coli

(2014) Georg Fritz et al.   PLoS One

Bet-hedging during bacterial diauxic shift

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

Lost in Transition: Start-Up of Glycolysis Yields Subpopulations of Nongrowing Cells

(2014) J. H. van Heerden et al.   SCIENCE

Metabolic variability in bioprocessing: implications of microbial phenotypic heterogeneity

(2014) Frank Delvigne et al.   TRENDS IN BIOTECHNOLOGY

Heteroresistance at the Single-Cell Level: Adapting to Antibiotic Stress through a Population-Based Strategy and Growth-Controlled Interphenotypic Coordination

(2014) X. Wang et al.   mBio

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

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

Applications of Flow Cytometry to Characterize Bacterial Physiological Responses

(2014) Verónica Ambriz-Aviña et al.   Biomed Research International

The role of metabolism in bacterial persistence

(2014) Stephanie M. Amato et al.   Frontiers in Microbiology

NADH-dependent biosensor in Saccharomyces cerevisiae: principle and validation at the single cell level

(2014) Jan Dines Knudsen et al.   AMB Express

Subpopulation-proteomics reveal growth rate, but not cell cycling, as a major impact on protein composition in Pseudomonas putida KT2440

(2014) Sarah Lieder et al.   AMB Express

Noninvasive High-Throughput Single-Cell Analysis of the Intracellular pH of Saccharomyces cerevisiae by Ratiometric Flow Cytometry

(2013) Mari Valkonen et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

High Salinity Alters the Germination Behavior of Bacillus subtilis Spores with Nutrient and Nonnutrient Germinants

(2013) Katja Nagler et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Use of Multi-parameter Flow Cytometry as Tool to Monitor the Impact of Formic Acid on Saccharomyces carlsbergensis Batch Ethanol Fermentations

(2013) Cláudia Freitas et al.   APPLIED BIOCHEMISTRY AND BIOTECHNOLOGY

Efficient production of 1,3-propanediol from fermentation of crude glycerol with mixed cultures in a simple medium

(2013) Donna Dietz et al.   BIOPROCESS AND BIOSYSTEMS ENGINEERING

Assessment of robustness against dissolved oxygen/substrate oscillations for C. glutamicum DM1933 in two-compartment bioreactor

(2013) Friedrich Käß et al.   BIOPROCESS AND BIOSYSTEMS ENGINEERING

Flux response of glycolysis and storage metabolism during rapid feast/famine conditions inPenicillium chrysogenumusing dynamic13C labeling

(2013) Lodewijk de Jonge et al.   Biotechnology Journal

Microbial heterogeneity affects bioprocess robustness: Dynamic single-cell analysis contributes to understanding of microbial populations

(2013) Frank Delvigne et al.   Biotechnology Journal

Design of growth-dependent biosensors based on destabilized GFP for the detection of physiological behavior ofEscherichia coliin heterogeneous bioreactors

(2013) Shanshan Han et al.   BIOTECHNOLOGY PROGRESS

Bridging the gap between gene expression and metabolic phenotype via kinetic models

(2013) Francisco G Vital-Lopez et al.   BMC Systems Biology

CHIC-an automated approach for the detection of dynamic variations in complex microbial communities

(2013) Christin Koch et al.   CYTOMETRY PART A

The private life of environmental bacteria: pollutant biodegradation at the single cell level

(2013) Pablo Iván Nikel et al.   ENVIRONMENTAL MICROBIOLOGY

Investigation of the physiological response to oxygen limited process conditions of Pichia pastoris Mut+ strain using a two-compartment scale-down system

(2013) Bettina Lorantfy et al.   JOURNAL OF BIOSCIENCE AND BIOENGINEERING

Routine bacterial analysis with automated flow cytometry

(2013) Sam Van Nevel et al.   JOURNAL OF MICROBIOLOGICAL METHODS

Bet-hedging in stochastically switching environments

(2013) J. Müller et al.   JOURNAL OF THEORETICAL BIOLOGY

Microfluidic chemostat for measuring single cell dynamics in bacteria

(2013) Zhicheng Long et al.   LAB ON A CHIP

Recent advancements in optofluidics-based single-cell analysis: optical on-chip cellular manipulation, treatment, and property detection

(2013) Nien-Tsu Huang et al.   LAB ON A CHIP

A low-cost, multiplexable, automated flow cytometry procedure for the characterization of microbial stress dynamics in bioreactors

(2013) Alison Brognaux et al.   Microbial Cell Factories

Increasing population growth by asymmetric segregation of a limiting resource during cell division

(2013) N. Avraham et al.   Molecular Systems Biology

Evolutionary rescue from extinction is contingent on a lower rate of environmental change

(2013) Haley A. Lindsey et al.   NATURE

Immediate and Heterogeneous Response of the LiaFSR Two-Component System of Bacillus subtilis to the Peptide Antibiotic Bacitracin

(2013) Sara Kesel et al.   PLoS One

A Novel Staining Protocol for Multiparameter Assessment of Cell Heterogeneity in Phormidium Populations (Cyanobacteria) Employing Fluorescent Dyes

(2013) Daria Tashyreva et al.   PLoS One

Distinct Redox Regulation in Sub-Cellular Compartments in Response to Various Stress Conditions in Saccharomyces cerevisiae

(2013) Anita Ayer et al.   PLoS One

MODELING AND OPTIMIZATION OF GLUTAMIC ACID PRODUCTION USING MIXED CULTURE OF Corynebacterium glutamicum NCIM2168 AND Pseudomonas reptilivora NCIM2598

(2013) Rajaram Shyam Kumar et al.   PREPARATIVE BIOCHEMISTRY & BIOTECHNOLOGY

A chemostat array enables the spatio-temporal analysis of the yeast proteome

(2013) N. Denervaud et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Heterogeneity in protein expression induces metabolic variability in a modeledEscherichia colipopulation

(2013) Piyush Labhsetwar et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Direct observation of single stationary-phase bacteria reveals a surprisingly long period of constant protein production activity

(2013) O. Gefen et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Design and characterization of synthetic fungal-bacterial consortia for direct production of isobutanol from cellulosic biomass

(2013) Jeremy J. Minty et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Rate of environmental change determines stress response specificity

(2013) J. W. Young et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Compartment-specific pH monitoring in Bacillus subtilis using fluorescent sensor proteins: a tool to analyze the antibacterial effect of weak organic acids

(2013) Johan W. A. van Beilen et al.   Frontiers in Microbiology

Hidden hysteresis – population dynamics can obscure gene network dynamics

(2013) Phillip Poisson et al.   Journal of Biological Engineering

Microfluidic Picoliter Bioreactor for Microbial Single-cell Analysis: Fabrication, System Setup, and Operation

(2013) Alexander Gruenberger et al.   Jove-Journal of Visualized Experiments

Isolated Microbial Single Cells and Resulting Micropopulations Grow Faster in Controlled Environments

(2012) Christian Dusny et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Physiological heterogeneity of Pseudomonas taetrolens during lactobionic acid production

(2012) Saúl Alonso et al.   APPLIED MICROBIOLOGY AND BIOTECHNOLOGY

Comparison of the transient responses of Escherichia coli to a glucose pulse of various intensities

(2012) Sirichai Sunya et al.   APPLIED MICROBIOLOGY AND BIOTECHNOLOGY

Two-component signal transduction in Corynebacterium glutamicum and other corynebacteria: on the way towards stimuli and targets

(2012) Michael Bott et al.   APPLIED MICROBIOLOGY AND BIOTECHNOLOGY

Fluorescence resonance energy transfer (FRET)-based biosensors: visualizing cellular dynamics and bioenergetics

(2012) Sohila Zadran et al.   APPLIED MICROBIOLOGY AND BIOTECHNOLOGY

Soft sensor control of metabolic fluxes in a recombinant Escherichia coli fed-batch cultivation producing green fluorescence protein

(2012) Robert Gustavsson et al.   BIOPROCESS AND BIOSYSTEMS ENGINEERING

Dynamic model of temperature impact on cell viability and major product formation during fed-batch and continuous ethanolic fermentation in Saccharomyces cerevisiae

(2012) Emilie Amillastre et al.   BIORESOURCE TECHNOLOGY

Fed-batch microbioreactor platform for scale down and analysis of a plasmid DNA production process

(2012) Diana M. Bower et al.   BIOTECHNOLOGY AND BIOENGINEERING

Cell mass and cell cycle dynamics of an asynchronous budding yeast population: Experimental observations, flow cytometry data analysis, and multi-scale modeling

(2012) Rita Lencastre Fernandes et al.   BIOTECHNOLOGY AND BIOENGINEERING

Direct and indirect use of GFP whole cell biosensors for the assessment of bioprocess performances: Design of milliliter scale-down bioreactors

(2012) Alison Brognaux et al.   BIOTECHNOLOGY PROGRESS

Subpopulation-proteomics in prokaryotic populations

(2012) Michael Jahn et al.   CURRENT OPINION IN BIOTECHNOLOGY

Progress toward single cell metabolomics

(2012) Stanislav S Rubakhin et al.   CURRENT OPINION IN BIOTECHNOLOGY

A flow cytometric method for viability assessment ofStaphylococcus aureusandBurkholderia cepaciain mixed culture

(2012) Marc Rüger et al.   CYTOMETRY PART A

Development and laboratory-scale testing of a fully automated online flow cytometer for drinking water analysis

(2012) Frederik Hammes et al.   CYTOMETRY PART A

Single cell analysis of gene expression patterns during carbon starvation inBacillus subtilisreveals large phenotypic variation

(2012) Imke G. de Jong et al.   ENVIRONMENTAL MICROBIOLOGY

Monitoring Functions in Managed Microbial Systems by Cytometric Bar Coding

(2012) Christin Koch et al.   ENVIRONMENTAL SCIENCE & TECHNOLOGY

A disposable picolitre bioreactor for cultivation and investigation of industrially relevant bacteria on the single cell level

(2012) Alexander Grünberger et al.   LAB ON A CHIP

Picoliter nDEP traps enable time-resolved contactless single bacterial cell analysis in controlled microenvironments

(2012) Frederik S. O. Fritzsch et al.   LAB ON A CHIP

Physiological heterogeneities in microbial populations and implications for physical stress tolerance

(2012) Magnus Carlquist et al.   Microbial Cell Factories

Selective Heterogeneity in Exoprotease Production by Bacillus subtilis

(2012) Fordyce A. Davidson et al.   PLoS One

Mutation rate dynamics in a bacterial population reflect tension between adaptation and genetic load

(2012) S. Wielgoss et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Single-Cell Analysis in Biotechnology, Systems Biology, and Biocatalysis

(2012) Frederik S.O. Fritzsch et al.   Annual Review of Chemical and Biomolecular Engineering

Understanding multimodal biological decisions from single cell and population dynamics

(2012) Kumar Selvarajoo   Wiley Interdisciplinary Reviews-Systems Biology and Medicine

Bet Hedging in Yeast by Heterogeneous, Age-Correlated Expression of a Stress Protectant

(2012) Sasha F. Levy et al.   PLOS BIOLOGY

A Genome-Wide Analysis of Promoter-Mediated Phenotypic Noise in Escherichia coli

(2012) Olin K. Silander et al.   PLoS Genetics

A high-throughput approach to identify genomic variants of bacterial metabolite producers at the single-cell level

(2012) Stephan Binder et al.   GENOME BIOLOGY

Monitoring of population dynamics ofCorynebacterium glutamicumby multiparameter flow cytometry

(2012) Andrea Neumeyer et al.   Microbial Biotechnology

Dynamic flux balance modeling of S. cerevisiae and E. coli co-cultures for efficient consumption of glucose/xylose mixtures

(2011) Timothy J. Hanly et al.   APPLIED MICROBIOLOGY AND BIOTECHNOLOGY

Extreme calorie restriction and energy source starvation in Saccharomyces cerevisiae represent distinct physiological states

(2011) Léonie G.M. Boender et al.   BIOCHIMICA ET BIOPHYSICA ACTA-MOLECULAR CELL RESEARCH

Bet hedging or not? A guide to proper classification of microbial survival strategies

(2011) Imke G. de Jong et al.   BIOESSAYS

Real-time fluid dynamics investigation and physiological response for erythromycin fermentation scale-up from 50 L to 132 m3 fermenter

(2011) Xiang Zou et al.   BIOPROCESS AND BIOSYSTEMS ENGINEERING

Experimental methods and modeling techniques for description of cell population heterogeneity

(2011) R. Lencastre Fernandes et al.   BIOTECHNOLOGY ADVANCES

A novel concept combining experimental and mathematical analysis for the identification of unknown interspecies effects in a mixed culture

(2011) Julia K. Schmidt et al.   BIOTECHNOLOGY AND BIOENGINEERING

Green fluorescent protein (GFP) leakage from microbial biosensors provides useful information for the evaluation of the scale-down effect

(2011) Frank Delvigne et al.   Biotechnology Journal

A two-compartment bioreactor system made of commercial parts for bioprocess scale-down studies: Impact of oscillations on Bacillus subtilis fed-batch cultivations

(2011) Stefan Junne et al.   Biotechnology Journal

An industrial perspective on bioreactor scale-down: What we can learn from combined large-scale bioprocess and model fluid studies

(2011) Henk Noorman   Biotechnology Journal

Scale-down of penicillin production in Penicillium chrysogenum

(2011) Lodewijk P. de Jonge et al.   Biotechnology Journal

Single-cell protein analysis

(2011) Meiye Wu et al.   CURRENT OPINION IN BIOTECHNOLOGY

Microfluidics for single cell analysis

(2011) Huabing Yin et al.   CURRENT OPINION IN BIOTECHNOLOGY

Heterogeneous bacterial persisters and engineering approaches to eliminate them

(2011) Kyle R Allison et al.   CURRENT OPINION IN MICROBIOLOGY

Single-cell behavior and population heterogeneity: Solving an inverse problem to compute the intrinsic physiological state functions

(2011) Konstantinos Spetsieris et al.   JOURNAL OF BIOTECHNOLOGY

Synthetic Escherichia coli consortia engineered for syntrophy demonstrate enhanced biomass productivity

(2011) Hans C. Bernstein et al.   JOURNAL OF BIOTECHNOLOGY

Betaine removal during thermo- and mesophilic aerobic batch biodegradation of beet molasses vinasse: Influence of temperature and pH on the progress and efficiency of the process

(2011) Edmund Cibis et al.   JOURNAL OF ENVIRONMENTAL MANAGEMENT

Escherichia coli responds with a rapid and large change in growth rate upon a shift from glucose-limited to glucose-excess conditions

(2011) Hilal Taymaz-Nikerel et al.   METABOLIC ENGINEERING

A mathematical model for adaptive prediction of environmental changes by microorganisms

(2011) A. Mitchell et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Modes of response to environmental change and the elusive empirical evidence for bet hedging

(2011) A. M. Simons   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Single-Cell Mass Cytometry of Differential Immune and Drug Responses Across a Human Hematopoietic Continuum

(2011) S. C. Bendall et al.   SCIENCE

Advanced tool for characterization of microbial cultures by combining cytomics and proteomics

(2010) Nico Jehmlich et al.   APPLIED MICROBIOLOGY AND BIOTECHNOLOGY

Integrated microbioreactor for culture and analysis of bacteria, algae and yeast

(2010) Sam H. Au et al.   BIOMEDICAL MICRODEVICES

Genes regulated by the Escherichia coli SOS repressor LexA exhibit heterogenous expression

(2010) Simona Kamenšek et al.   BMC MICROBIOLOGY

Viability states of bacteria-Specific mechanisms of selected probes

(2010) Heike Sträuber et al.   CYTOMETRY PART A

Escherichia coli population heterogeneity: Subpopulation dynamics at super-optimal temperatures

(2010) E. Van Derlinden et al.   FOOD MICROBIOLOGY

Heterochronic Phosphorelay Gene Expression as a Source of Heterogeneity in Bacillus subtilis Spore Formation

(2010) I. G. de Jong et al.   JOURNAL OF BACTERIOLOGY

Single-cell analysis of S. cerevisiae growth recovery after a sublethal heat-stress applied during an alcoholic fermentation

(2010) Pierre Tibayrenc et al.   JOURNAL OF INDUSTRIAL MICROBIOLOGY & BIOTECHNOLOGY

Heterogeneity of Escherichia coli population by respiratory activity and membrane potential of cells during growth and long-term starvation

(2010) Saeid Rezaeinejad et al.   MICROBIOLOGICAL RESEARCH

The role of physiological heterogeneity in microbial population behavior

(2010) Mary E Lidstrom et al.   Nature Chemical Biology

Evolutionary Game Theory in Growing Populations

(2010) Anna Melbinger et al.   PHYSICAL REVIEW LETTERS

Quantifying E. coli Proteome and Transcriptome with Single-Molecule Sensitivity in Single Cells

(2010) Y. Taniguchi et al.   SCIENCE

New applications of pHluorin-measuring intracellular pH of prototrophic yeasts and determining changes in the buffering capacity of strains with affected potassium homeostasis

(2010) Lydie Marešová et al.   YEAST

Application of microbioreactors in fermentation process development: a review

(2009) Daniel Schäpper et al.   ANALYTICAL AND BIOANALYTICAL CHEMISTRY

Prospects for the automation of analysis and interpretation of flow cytometric data

(2009) Hazel M. Davey   CYTOMETRY PART A

Isolation of  two cell populations from yeast during high-level alcoholic fermentation that resemble quiescent and nonquiescent cells from the stationary phase on glucose

(2009) Laurent Benbadis et al.   FEMS YEAST RESEARCH

A CFD model for predicting the flow patterns of viscous fluids in a bioreactor under various operating conditions

(2009) Byung-Hwan Um et al.   KOREAN JOURNAL OF CHEMICAL ENGINEERING

Microbial nar-GFP cell sensors reveal oxygen limitations in highly agitated and aerated laboratory-scale fermentors

(2009) Jose R Garcia et al.   Microbial Cell Factories

Scale-up from microtiter plate to laboratory fermenter: evaluation by online monitoring techniques of growth and protein expression in Escherichia coli and Hansenula polymorpha fermentations

(2009) Frank Kensy et al.   Microbial Cell Factories

Bioreactor mixing efficiency modulates the activity of a prpoS::GFP reporter gene in E. coli

(2009) Frank Delvigne et al.   Microbial Cell Factories

In vivo measurement of cytosolic and mitochondrial pH using a pH-sensitive GFP derivative in Saccharomyces cerevisiae reveals a relation between intracellular pH and growth

(2009) R. Orij et al.   MICROBIOLOGY-SGM

Using computational fluid dynamics to characterize and improve bioreactor performance

(2008) William J. Kelly   BIOTECHNOLOGY AND APPLIED BIOCHEMISTRY

Cell division in Escherichia coli cultures monitored at single cell resolution

(2008) Johanna Roostalu et al.   BMC MICROBIOLOGY

Standardization in microbial cytometry

(2008) Gerhard Nebe-von-Caron   CYTOMETRY PART A

Studies related to antibody fragment (Fab) production inEscherichia coliW3110 fed-batch fermentation processes using multiparameter flow cytometry

(2008) Andrew Want et al.   CYTOMETRY PART A

Single cell analysis reveals unexpected growth phenotype ofS. cerevisiae

(2008) Hendrik Kortmann et al.   CYTOMETRY PART A

Analysis and modeling of growing budding yeast populations at the single cell level

(2008) Danilo Porro et al.   CYTOMETRY PART A

The response of the yeastSaccharomyces cerevisiaeto sudden vs. gradual changes in environmental stress monitored by expression of the stress response protein Hsp12p

(2008) Ildar Nisamedtinov et al.   FEMS YEAST RESEARCH

Community-based degradation of 4-chorosalicylate tracked on the single cell level

(2008) Sonja Pawelczyk et al.   JOURNAL OF MICROBIOLOGICAL METHODS

The Envirostat – a new bioreactor concept

(2008) Hendrik Kortmann et al.   LAB ON A CHIP

Transient heterogeneity in extracellular protease production by Bacillus subtilis

(2008) Jan-Willem Veening et al.   Molecular Systems Biology

Stochastic switching as a survival strategy in fluctuating environments

(2008) Murat Acar et al.   NATURE GENETICS