Transcriptomic and Physiological Meta-Analysis of Multiple Stress-Resistant Saccharomyces cerevisiae Strains DOI Creative Commons
Abdülkadir Özel, Alican Topaloğlu, Ömer Esen

и другие.

Stresses, Год журнала: 2024, Номер 4(4), С. 714 - 733

Опубликована: Ноя. 1, 2024

Meta-analysis is a beneficial approach to reevaluating the outcomes of independent previous studies in same scope. Saccharomyces cerevisiae, or baker’s yeast, commonly used unicellular and eukaryotic model organism. In this study, 12 evolved S. cerevisiae strains that became resistant diverse stress conditions (boron, caffeine, caloric restriction, cobalt, coniferyl aldehyde, ethanol, iron, nickel, oxidative stress, 2-phenylethanol, silver stress) by adaptive laboratory evolution were reassessed reveal correlated stress/stressor clusters based on their transcriptomic stress–cross-resistance data. Principal Component Analysis (PCA) with k-means clustering was performed. Five for data six cross-resistance stressors identified. Through statistical evaluations, critical genes pertinent each cluster elucidated. The pathways associated these investigated using KEGG database. findings demonstrated caffeine aldehyde exhibit clear distinctions from other terms both physiological stress-cross-resistance responses profiles. Pathway analysis showed ribosome biogenesis downregulated, starch sucrose metabolism upregulated across all clusters. Gene pathway analyses have shown lead distinct changes yeast gene expression, alterations been systematically documented cluster. Several highlighted are pivotal further exploration could potentially clarify new aspects response mechanisms multiple resistance yeast.

Язык: Английский

Genome dilution by cell growth drives starvation-like proteome remodeling in mammalian and yeast cells DOI
Michael C. Lanz, Shuyuan Zhang, Matthew P. Swaffer

и другие.

Nature Structural & Molecular Biology, Год журнала: 2024, Номер unknown

Опубликована: Июль 24, 2024

Язык: Английский

Процитировано

9
The environmental stress response regulates ribosome content in cell cycle-arrested S. cerevisiae DOI Creative Commons

Allegra Terhorst,

Arzu Sandikci,

Charles A. Whittaker

и другие.

Frontiers in Cell and Developmental Biology, Год журнала: 2023, Номер 11

Опубликована: Апрель 12, 2023

Prolonged cell cycle arrests occur naturally in differentiated cells and response to various stresses such as nutrient deprivation or treatment with chemotherapeutic agents. Whether how survive prolonged is not clear. Here, we used

Язык: Английский

Процитировано

10
Dynamic structure of the cytoplasm DOI Creative Commons
Hyo-Jun Kim, Morgan Delarue

Current Opinion in Cell Biology, Год журнала: 2025, Номер 94, С. 102507 - 102507

Опубликована: Апрель 6, 2025

The cytoplasm is a dense and complex milieu in which plethora of biochemical reactions occur. Its structure not understood so far, albeit being central to cellular functioning. In this review, we highlight novel perspective the physical properties are regulated space time actively contribute function. Furthermore, underscore recent findings that dynamic formation local assemblies within cytoplasm, such as condensates polysomes, serves key regulator mesoscale cytoplasmic dynamics.

Язык: Английский

Процитировано

0
Genome dilution by cell growth drives starvation-like proteome remodeling in mammalian and yeast cells DOI Open Access
Michael C. Lanz, Shuyuan Zhang, Matthew P. Swaffer

и другие.

bioRxiv (Cold Spring Harbor Laboratory), Год журнала: 2023, Номер unknown

Опубликована: Окт. 19, 2023

SUMMARY Cell size is tightly controlled in healthy tissues and single-celled organisms, but it remains unclear how influences cell physiology. Increasing was recently shown to remodel the proteomes of cultured human cells, demonstrating that large small cells same type can be biochemically different. Here, we corroborate these results mouse hepatocytes extend our analysis using yeast. We find size-dependent proteome changes are highly conserved mostly independent metabolic state. As eukaryotic grow larger, dilution genome elicits a starvation-like phenotype, suggesting growth limited by manner analogous limiting nutrient. also this phenomenon explains many proteomic ascribed yeast aging. Overall, data suggest concentration universal determinant content growing cells.

Язык: Английский

Процитировано

7
Engineering Ribosomes to Alleviate Abiotic Stress in Plants: A Perspective DOI Creative Commons

Leticia Dias-Fields,

Katarzyna P. Adamala

Plants, Год журнала: 2022, Номер 11(16), С. 2097 - 2097

Опубликована: Авг. 12, 2022

As the centerpiece of biomass production process, ribosome activity is highly coordinated with environmental cues. Findings revealing subgroups responsive to adverse conditions suggest this tight coordination may be grounded in induction variant compositions and differential translation outcomes they might produce. In perspective, we go through literature linking heterogeneity plants’ abiotic stress response. Once unraveled, crosstalk serve as foundation novel strategies custom cultivars tolerant challenging environments without yield penalty.

Язык: Английский

Процитировано

11
Too big not to fail: emerging evidence for size‐induced senescence DOI Creative Commons
Sandhya Manohar, Gabriel E. Neurohr

FEBS Journal, Год журнала: 2023, Номер 291(11), С. 2291 - 2305

Опубликована: Ноя. 20, 2023

Cellular senescence refers to a permanent and stable state of cell cycle exit. This process plays an important role in many cellular functions, including tumor suppression. It was first noted that is associated with increased size the early 1960s; however, how this contributes exit poorly understood until recently. In review, we discuss new findings identify as not only consequence but also cause We highlight recent insights into alters normal physiology creates homeostatic imbalances contribute induction. Finally, focus on potential clinical implications these context arrest‐causing cancer therapeutics speculate changes may impact outcomes patients treated drugs.

Язык: Английский

Процитировано

6
Polystyrene nanoplastics as an ecotoxicological hazard: cellular and transcriptomic evidences on marine and freshwater in vitro teleost models DOI Creative Commons
P.R. Saraceni, Andrea Miccoli,

Adeola Abosede Bada

и другие.

The Science of The Total Environment, Год журнала: 2024, Номер 934, С. 173159 - 173159

Опубликована: Май 16, 2024

The contamination of marine and freshwater environments by nanoplastics is considered a global threat for aquatic biota. Taking into account the most recent concentration range estimates reported globally recognizing knowledge gap in polystyrene (PS-NPs) ecotoxicology, present work investigated harmful effects 20 nm 80 PS-NPs, at increasing biological complexity, on rainbow trout Oncorhynchus mykiss RTG-2 gilthead seabream Sparus aurata SAF-1 cell lines. Twenty PS-NPs exerted greater cytotoxicity than ones were approximately 4-fold more vulnerable to RTG-2. engagement with plasma membranes was accompanied discernible uptake patterns morphological alterations along nuclear translocation already within 30-min exposure. Cells structurally damaged only time-dependent manner as indicated distinctive features execution phase apoptotic death mechanism such shrinkage, membrane blebbing, phosphatidylserine outer leaflet DNA fragmentation. At last, functional analyses unveiled marked transcriptional impairment both sublethal lethal doses latter impacting "Steroid biosynthesis", "TGF-beta signaling pathway", "ECM-receptor interaction", "Focal adhesion", "Regulation actin cytoskeleton" "Protein processing endoplasmic reticulum" pathways. Overall, distinct ecotoxicological hazard environmentally relevant concentrations thoroughly characterized two piscine demonstrated depend size, exposure time model, emphasizing need comparative evaluation endpoints between ecosystems.

Язык: Английский

Процитировано

2
Dynamic cytoplasmic fluidity during morphogenesis in a human fungal pathogen DOI Creative Commons
Antonio Serrano, Charles Puerner, Emily V. Plumb

и другие.

bioRxiv (Cold Spring Harbor Laboratory), Год журнала: 2024, Номер unknown

Опубликована: Ноя. 17, 2024

Abstract The molecular crowding of the cytoplasm impacts a range cellular processes. Using fluorescent microrheological probe (GEMs), we observed striking decrease in during yeast to filamentous growth transition human fungal pathogen Candida albicans . This is due ribosome concentration that results part from an inhibition biogenesis, combined with increase cytoplasmic volume; leading dilution major crowder. Moreover, our suggest biogenesis trigger for C. morphogenesis.

Язык: Английский

Процитировано

1
The diel disconnect between cell growth and division in Aureococcus is interrupted by giant virus infection DOI Creative Commons
Alexander R. Truchon, Emily E. Chase,

Ashton R. Stark

и другие.

Frontiers in Microbiology, Год журнала: 2024, Номер 15

Опубликована: Авг. 21, 2024

Viruses of eukaryotic algae have become an important research focus due to their role(s) in nutrient cycling and top-down control algal blooms. Omics-based studies identified a boon genomic transcriptional potential among the Nucleocytoviricota , phylum large dsDNA viruses which been shown infect non-algal eukaryotes. However, little is still understood regarding infection cycle these viruses, particularly how they take over metabolically active host convert it into virocell state. Of particular interest are roles light diel development. Yet despite such proportion infecting phototrophs, work has done tie dynamics presence, absence, light. Here, we examine role on physiological state pelagophyte Aureococcus anophagefferens while undergoing by Kratosvirus quantuckense strain AaV. Our observations demonstrate virus interrupts growth division this cell strain, that further complicates system enhancing export biomass.

Язык: Английский

Процитировано

0
Transcriptomic and Physiological Meta-Analysis of Multiple Stress-Resistant Saccharomyces cerevisiae Strains DOI Creative Commons
Abdülkadir Özel, Alican Topaloğlu, Ömer Esen

и другие.

Stresses, Год журнала: 2024, Номер 4(4), С. 714 - 733

Опубликована: Ноя. 1, 2024

Meta-analysis is a beneficial approach to reevaluating the outcomes of independent previous studies in same scope. Saccharomyces cerevisiae, or baker’s yeast, commonly used unicellular and eukaryotic model organism. In this study, 12 evolved S. cerevisiae strains that became resistant diverse stress conditions (boron, caffeine, caloric restriction, cobalt, coniferyl aldehyde, ethanol, iron, nickel, oxidative stress, 2-phenylethanol, silver stress) by adaptive laboratory evolution were reassessed reveal correlated stress/stressor clusters based on their transcriptomic stress–cross-resistance data. Principal Component Analysis (PCA) with k-means clustering was performed. Five for data six cross-resistance stressors identified. Through statistical evaluations, critical genes pertinent each cluster elucidated. The pathways associated these investigated using KEGG database. findings demonstrated caffeine aldehyde exhibit clear distinctions from other terms both physiological stress-cross-resistance responses profiles. Pathway analysis showed ribosome biogenesis downregulated, starch sucrose metabolism upregulated across all clusters. Gene pathway analyses have shown lead distinct changes yeast gene expression, alterations been systematically documented cluster. Several highlighted are pivotal further exploration could potentially clarify new aspects response mechanisms multiple resistance yeast.

Язык: Английский

Процитировано

0