Takashi Nozoe
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View article: Gene regulation, phenotypic memory, and selection in fluctuating environments
Gene regulation, phenotypic memory, and selection in fluctuating environments Open
Gene regulatory networks enable bacteria to sense and respond in fluctuating environments and to control gene expression levels in constant conditions. Despite substantial advances in understanding their molecular biology, the evolutionary…
View article: Observation of persister cell histories reveals diverse modes of survival in antibiotic persistence
Observation of persister cell histories reveals diverse modes of survival in antibiotic persistence Open
Bacterial persistence is a phenomenon in which a small fraction of isogenic bacterial cells survives a lethal dose of antibiotics. Although the refractoriness of persistent cell populations has classically been attributed to growth-inactiv…
View article: Author response: Observation of persister cell histories reveals diverse modes of survival in antibiotic persistence
Author response: Observation of persister cell histories reveals diverse modes of survival in antibiotic persistence Open
View article: Revealing global stoichiometry conservation architecture in cells from Raman spectral patterns
Revealing global stoichiometry conservation architecture in cells from Raman spectral patterns Open
Cells can adapt to various environments by changing their biomolecular profiles while maintaining physiological homeostasis. What organizational principles in cells enable the simultaneous realization of adaptability and homeostasis? To ad…
View article: Revealing global stoichiometry conservation architecture in cells from Raman spectral patterns
Revealing global stoichiometry conservation architecture in cells from Raman spectral patterns Open
Cells can adapt to various environments by changing their biomolecular profiles while maintaining physiological homeostasis. What organizational principles in cells enable the simultaneous realization of adaptability and homeostasis? To ad…
View article: Proteolytic stability and aggregation in a key metabolic enzyme of bacteria
Proteolytic stability and aggregation in a key metabolic enzyme of bacteria Open
Proteins that are kinetically stable are thought to be less prone to both aggregation and proteolysis. We demonstrate that the classical lac system of Escherichia coli can be leveraged as a model system to study this relation. β-galactosid…
View article: Cell Lineage Statistics with Incomplete Population Trees
Cell Lineage Statistics with Incomplete Population Trees Open
Cell lineage statistics is a powerful tool for inferring cellular parameters, such as division rate, death rate, or population growth rate. Yet, in practice such an analysis suffers from a basic problem: how should we treat incomplete line…
View article: Revealing global stoichiometry conservation architecture in cells from Raman spectral patterns
Revealing global stoichiometry conservation architecture in cells from Raman spectral patterns Open
Cells can adapt to various environments by changing their biomolecular profiles while maintaining physiological homeostasis. What organizational principles in cells enable the simultaneous realization of adaptability and homeostasis? To ad…
View article: Cell lineage statistics with incomplete population trees
Cell lineage statistics with incomplete population trees Open
Cell lineage statistics is a powerful tool for inferring cellular parameters, such as division rate, death rate or the population growth rate. Yet, in practice such an analysis suffers from a basic problem: how should we treat incomplete l…
View article: A unified framework for measuring selection on cellular lineages and traits
A unified framework for measuring selection on cellular lineages and traits Open
Intracellular states probed by gene expression profiles and metabolic activities are intrinsically noisy, causing phenotypic variations among cellular lineages. Understanding the adaptive and evolutionary roles of such variations requires …
View article: Author response: A unified framework for measuring selection on cellular lineages and traits
Author response: A unified framework for measuring selection on cellular lineages and traits Open
Article Figures and data Abstract Editor's evaluation Introduction Results Discussion Materials and methods Appendix 1 Appendix 2 Appendix 3 Data availability References Decision letter Author response Article and author information Metric…
View article: Observation of persister cell histories reveals diverse modes of survival in antibiotic persistence
Observation of persister cell histories reveals diverse modes of survival in antibiotic persistence Open
Bacterial persistence is a phenomenon in which a small fraction of isogenic bacterial cells survives a lethal dose of antibiotics. Although the refractoriness of persistent cell populations has classically been attributed to growth-inactiv…
View article: A unified framework for measuring selection on cellular lineages and traits
A unified framework for measuring selection on cellular lineages and traits Open
Intracellular states probed by gene expression profiles and metabolic activities are intrinsically noisy, causing phenotypic variations among cellular lineages. Understanding the adaptive and evolutionary roles of such variations requires …
View article: Cell Cycle Heritability and Localization Phase Transition in Growing Populations
Cell Cycle Heritability and Localization Phase Transition in Growing Populations Open
The cell cycle duration is a variable cellular phenotype that underlies long-term population growth and age structures. By analyzing the stationary solutions of a branching process with heritable cell division times, we demonstrate the exi…
View article: Inferring fitness landscapes and selection on phenotypic states from single-cell genealogical data
Inferring fitness landscapes and selection on phenotypic states from single-cell genealogical data Open
Recent advances in single-cell time-lapse microscopy have revealed non-genetic heterogeneity and temporal fluctuations of cellular phenotypes. While different phenotypic traits such as abundance of growth-related proteins in single cells m…
View article: Inferring Fitness Landscapes and Selection on Phenotypic States from Single-Cell Genealogical Data
Inferring Fitness Landscapes and Selection on Phenotypic States from Single-Cell Genealogical Data Open
Recent advances in single-cell time-lapse microscopy have revealed non-genetic heterogeneity and temporal fluctuations of cellular phenotypes. While different phenotypic traits such as abundance of growth-related proteins in single cells m…
View article: Noise-driven growth rate gain in clonal cellular populations
Noise-driven growth rate gain in clonal cellular populations Open
Significance Differences between individuals exist even in the absence of genetic differences, e.g., in identical twins. Over the last decade, experiments have shown that even genetically identical microbes exhibit large cell-to-cell diffe…