Cell Growth Rate Research Articles

The Toxin of VapBC-1 Toxin-Antitoxin Module from Leptospira interrogans Is a Ribonuclease That Does Not Arrest Bacterial Growth but Affects Cell Viability.

Bacterial ubiquitous Toxin-Antitoxin (TA) systems are considered to be important survival mechanisms during stress conditions. In regular environmental conditions, the antitoxin blocks the toxin, whereas during imbalanced conditions, the antitoxin concentration decreases, exposing the bacteria cell to a range of toxic events. The most evident consequence of this disequilibrium is cell growth arrest, which is the reason why TAs are generally described as active in the function of bacterial growth kinetics. Virulence-associated proteins B and C (VapBC) are a family of type II TA system, in which VapC is predicted to display the toxic ribonuclease activity while VapB counteracts this activity. Previously, using in silico data, we designated four VapBC TA modules in Leptospira interrogans serovar Copenhageni, the main etiological agent of human leptospirosis in Brazil. The present study aimed to obtain the proteins and functionally characterize the VapBC-1 module. The expression of the toxin gene vapC in E. coli did not decrease the cell growth rate in broth culture, as was expected to happen within active TA modules. However, interestingly, when the expression of the toxin was compared to that of the complexed toxin and antitoxin, cell viability was strongly affected, with a decrease of three orders of magnitude in colony forming unity (CFU). The assumption of the affinity between the toxin and the antitoxin was confirmed in vivo through the observation of their co-purification from cultivation of E. coli co-expressing vapB-vapC genes. RNAse activity assays showed that VapC-1 cleaves MS2 RNA and ribosomal RNA from L. interrogans. Our results indicate that the VapBC-1 module is a potentially functional TA system acting on targets that involve specific functions. It is very important to emphasize that the common attribution of the functionality of TA modules cannot be defined based merely on their ability to inhibit bacterial growth in a liquid medium.

Genetic Strategies and Mechanisms for Improving Ribonucleic Acid Levels of Saccharomyces pastorianus.

Developing microorganisms with a high ribonucleic acid (RNA) content is crucial for the RNA industry. Numerous studies have been conducted to enhance RNA production in yeast cells through genetic engineering, yet precise mechanisms remain elusive. Previously, upregulation of TAL1 or PGM2 and deleting PRS5 or DBP8 individually could increase the RNA content in Saccharomyces pastorianus. In this study, within these genetically modified strains, the intracellular nucleotide levels notably increased following cell fragmentation. Deletion of PRS5 and DBP8 within the strain prompted the upregulation of genes sharing similar functions, consequently augmenting the flow of the gene pathway. Furthermore, the upregulation of genes encoding cell-cycle-dependent protein kinases (CDK) was observed in the G03-△PRS5 strain. The influence of TAL1 and PGM2 on RNA content was attributed to the pentose phosphate pathway (PPP). The RNA content of polygenic recombinant strains, G03-△PRS5+△DBP8 and G03-△PRS5+△DBP8+PGM2, displayed the most significant improvement, increasing by 71.8 and 80.1% when compared to the parental strain. Additionally, the maximum specific growth rate of cells increased in these strains. This study contributes valuable insights into the genetic mechanisms underlying high nucleic acid synthesis in S. pastorianus.

CHO cell engineering via targeted integration of circular miR-21 decoy using CRISPR/RMCE hybrid system.

Chinese hamster ovary (CHO) cells, widely acknowledged as the preferred host system for industrial recombinant protein manufacturing, play a crucial role in developing pharmaceuticals, including anticancer therapeutics. Nevertheless, mammalian cell-based biopharmaceutical production methods are still beset by cellular constraints such as limited growth and poor productivity. MicroRNA-21 (miR-21) has a major impact on a variety of malignancies, including glioblastoma multiforme (GBM). However, reduced productivity and growth rate have been linked to miR-21 overexpression in CHO cells. The current study aimed to engineer a recombinant CHO (rCHO) cell using the CRISPR-mediated precise integration into target chromosome (CRIS-PITCh) system coupled with the Bxb1 recombinase-mediated cassette exchange (RMCE) to express a circular miR-21 decoy (CM21D) with five bulged binding sites for miR-21 sponging. Implementing the ribonucleoprotein (RNP) delivery method, a landing pad was inserted into the genome utilizing the CRIS-PITCh technique. Subsequently, the CM21D cassette flanked by Bxb1 attB was then retargeted into the integrated landing pad using the RMCE/Bxb1 system. This strategy raised the targeting efficiency by 1.7-fold, and off-target effects were decreased. The miR-21 target genes (Pdcd4 and Atp11b) noticed a significant increase in expression upon the miR-21 sponging through CM21D. Following the expression of CM21D, rCHO cells showed a substantial decrease in doubling time and a 1.3-fold increase in growth rate. Further analysis showed an increased yield of hrsACE2, a secretory recombinant protein, by 2.06-fold. Hence, we can conclude that sponging-induced inhibitionof miR-21 may lead to a growth rate increase that could be linked to increased CHO cell productivity. For industrial cell lines, including CHO cells, an increase in productivity is crucial. The results of our research indicate that CM21D is an auspicious CHO engineering approach. KEY POINTS: • CHO is an ideal host cell line for producing industrial therapeutics manufacturing, and miR-21 is downregulated in CHO cells, which produce recombinant proteins. • The miR-21 target genes noticed a significant increase in expression upon the miR-21 sponging through CM21D. Additionally, sponging of miR-21 by CM21D enhanced the growth rate of CHO cells. • Productivity and growth rate were increased in CHO cells expressing recombinant hrs-ACE2 protein after CM21D knocking in.

Impact of Glucagon-like Peptide-1 Receptor Agonists on Intestinal Epithelial Cell Barrier

Abstract While many types of diabetes medications are currently available, orally administered formulations of glucagon-like peptide-1 (GLP-1) receptor agonists have recently been launched. Therefore, gastrointestinal epithelial cells will be increasingly exposed to GLP-1 receptor agonists; however, their effects on these cells remain unclear. The present study attempted to clarify the effects of GLP-1 receptor agonists on intestinal epithelial barrier functions. Semaglutide (5, 50, and 500 ng/mL) and dulaglutide (15, 150, and 1500 ng/mL) were selected as GLP-1 receptor agonists and applied to the Caco-2 cell line. Changes in mRNA and protein expression levels of epithelial cell barrier regulators due to exposure to GLP-1 receptor agonists were examined by real-time RT-PCR and Western blotting. Neither semaglutide nor dulaglutide changed the growth rate or ratio of Caco-2 cells. Furthermore, they did not significantly affect the mRNA expression levels of membrane proteins involved in epithelial cell barrier functions. However, dulaglutide increased the protein expression levels of these membrane proteins in a concentration-dependent manner, whereas semaglutide did not. Only dulaglutide enhanced epithelial cell barrier functions. Since various gastrointestinal symptoms develop in patients with diabetes and epithelial cell barrier functions may be compromised, medicines that promote barrier function, such as dulaglutide, may effectively attenuate these changes. However, their mechanisms of action remain unknown; therefore, further studies are warranted.

Multiplex genome editing eliminates the Warburg Effect without impacting growth rate in mammalian cells.

The Warburg effect is ubiquitous in proliferative mammalian cells, including cancer cells, but poses challenges for biopharmaceutical production, as lactate accumulation inhibits cell growth and protein production. Previous efforts to eliminate lactate production via knockout have failed in mammalian bioprocessing since lactate dehydrogenase has proven essential. However, here we eliminated the Warburg effect in Chinese hamster ovary (CHO) and HEK293 cells by simultaneously knocking out lactate dehydrogenase and regulators involved in a negative feedback loop that typically inhibits pyruvate conversion to acetyl-CoA. In contrast to long-standing assumptions about the role of aerobic glycolysis, Warburg-null cells maintain wildtype growth rate while producing negligible lactate. Further characterization of Warburg-null CHO cells showed a compensatory increase in oxygen consumption, a near total reliance on oxidative metabolism, and higher cell densities in fed-batch cell culture. These cells remained amenable for production of diverse biotherapeutic proteins, reaching industrially relevant titers and maintaining product glycosylation. Thus, the ability to eliminate the Warburg effect is an important development for biotherapeutic production and provides a tool for investigating a near-universal metabolic phenomenon.

Assessment of biodegradability and biocompatibility: An experimental and comparative analysis of magnesium and magnesium-(zinc-tin)/hydroxyapatite composites

This study presents the fabrication and comparative assessment of biodegradation and biocompatibility behaviors of pure Mg, Mg/HA (Hydroxyapatite), Mg-Zn/HA, and Mg-Sn/HA composites with fixed 5 wt% HA and 1 wt% each of Zn and Sn, using novel ultrasonic-assisted rheo casting technology. Characterization techniques, including X-ray diffractometry and scanning electron microscopy integrated with energy dispersive spectroscopy, were employed to analyze phase formation, surface morphology, and elemental composition. Microhardness tests were conducted to assess indentation resistance, while in vitro corrosion performance was evaluated in simulated bodily fluid to compare degradation behavior. Results indicate a uniform distribution of reinforced particles within the matrix with minimal casting defects. Intermetallic phases MgZn and Mg2Sn precipitated along grain boundaries in Mg-Zn/HA and Mg-Sn/HA composites. The Mg-Sn/HA composite exhibited peak microhardness (94.8 HV) due to precipitation strengthening. In contrast, Mg-Zn/HA samples showed a low degradation rate (0.19 mm/yr) and H2 gas evolution rate (0.035 ml/mm2), attributed to uniform distribution of secondary phases and fine grains that mitigate galvanic cell formation and control degradation. Cell viability assay results demonstrated that Mg-Zn/HA composite outperformed all other samples, showing a 94% relative cell growth rate of osteosarcoma MG-63 cells after 2 h of incubation, attributed to strong apatite formation (rich in Ca and P) on the surface post-immersion, promoting cell proliferation.

Cellular proliferation biases clonal lineage tracing and trajectory inference.

Lineage tracing and trajectory inference from single-cell RNA-sequencing data hold tremendous potential for uncovering the genetic programs driving development and disease. Single cell datasets are thought to provide an unbiased view on the diverse cellular architecture of tissues. Sampling bias, however, can skew single cell datasets away from the cellular composition they are meant to represent. We demonstrate a novel form of sampling bias, caused by a statistical phenomenon related to repeated sampling from a growing, heterogeneous population. Relative growth rates of cells influence the probability that they will be sampled in clones observed across multiple time points. We support our probabilistic derivations with a simulation study and an analysis of a real time-course of T-cell development. We find that this bias can impact fate probability predictions, and we explore how to develop trajectory inference methods which are robust to this bias. Source code for the simulated datasets and to create the figures in this manuscript is freely available in python at https://github.com/rbonhamcarter/simulate-clones. A python implementation of the extension of the LineageOT method is freely available at https://github.com/rbonhamcarter/LineageOT/tree/multi-time-clones.

Analysis of Ginkgo biloba Root Exudates and Inhibition of Soil Fungi by Flavonoids and Terpene Lactones.

Ginkgo biloba is abundant in secondary metabolites, including flavonoids and terpenoids. While the majority of research has focused on the role of these compounds in disease resistance, their specific contribution to pathogen defense has been rarely explored. In this study, we collected root exudates from hydroponically cultivated ginkgo seedlings and conducted a metabolomic analysis. We identified several primary metabolites mainly comprising amino acids and nucleotides, while secondary metabolites consisted of various compounds, including bioactive compounds such as flavonoids and terpenoids. Focusing on the secondary metabolites with relatively higher abundance in the exudates, we selected a mixture of flavonoids and terpenoids for in vitro inhibition experiments against two soil-borne fungal pathogens, Fusarium oxysporum f. sp. cucumerinum that causes cucumber wilt and Rhizoctonia solani AG-8 that causes wheat root rot. The results indicated that the growth rate of both fungus cells was significantly reduced with the increasing concentration of the flavonoid and terpenoid mixture extracted from ginkgo and was completely inhibited at a concentration of 5 mg/mL. Further experiments revealed that this mixture of flavonoids and terpenoids had a destructive effect on the cellular structure of both fungi, thereby reducing cell viability and achieving an antifungal effect. These findings provide a foundation for further research into the use of ginkgo extracts in biological control.

Development of alginate/chitosan hydrogel loaded with obestatin and evaluation of collagen type I, III, VEGF and TGF-β1 gene expression for skin repair in a rat model (in vitro and in vitro study).

Skin injuries have long been recognized as a prevalent type of physical injury. As a result, numerous research studies have been performed to discover an effective mechanism for wound healing. Therefore, tissue engineering of skin has developed as a potential solution for traditional methods of treating skin injuries. Alginate/Chitosan hydrogel was mixed with 1, 10, 100, and 150µM Obestatin, and evaluated the morphology, cumulative release, hemocompatibility and cytocompatibility, water absorption, cell viability, weight loss, and antibacterial characteristics of three-dimensional (3D) alginate (Alg) and chitosan (Cs) hydrogels during the process of wound curing. Various concentrations of Obestatin (Obes) were utilized for this purpose. Finally, the hydrogels that were made were tested on a full-thickness dermal wound in a Wistar rat model. The curative effects were determined by analyzing RNA expression and examining tissue stained with Masson's trichrome (MT) and hematoxylin-eosin (H&E). The biodegradability of this hydrogel was verified using weight loss testing, which demonstrated a reduction of around 90% after a period of 3 days. Furthermore, the MTT assay demonstrated that hydrogels have a beneficial effect on cell proliferation without inducing any harmful effects. Furthermore, the hydrogels produced demonstrated higher wound closure in vivo compared to the wounds treated with gauze (negative control group). Among the hydrogel groups, the chitosan/alginate/obestatin 100µM group exhibited the apical percentage of wound closure, gene expression, and secondary epithelialization, but in 150µM concentrations, we saw a lower rate of cell growth and proliferation and increase in hemolysis. In addition, RT-PCR analysis demonstrated that a concentration of 100µM obestatin resulted in an upregulation in the expression of mRNA for vascular endothelial growth factor (VEGF), collagen type I & type III, and transforming growth factor-beta (TGF-β). The present study suggests that 3D Alg/Cs hydrogels with a concentration of 100µM obestatin have the potential for clinical application in the treatment of skin injuries.

Glioma-associated oncogene (GLI)-specific decoy oligodeoxynucleotide induces apoptosis and attenuates proliferation, colony formation, and migration in liver cancer cells

Aim: Hepatocellular carcinoma (HCC) is one of the leading causes of cancer-associated death. The Sonic Hedgehog (SHH) signaling pathway participates in the initiation, progression, migration, and recurrence of HCC cancer stem cells. Furthermore, SHH regulates various cellular behaviors such as proliferation, differentiation, survival, self-renewal, epithelial-mesenchymal transition (EMT), and SHH autoregulation. Glioma-associated oncogene (GLI) family zinc finger are key transcription factors in the development of many organs and are deregulated in cancer. In this study, Huh-7 cells were treated with GLI-specific decoy oligodeoxynucleotide (ODN) to evaluate its anticancer impact. Methods: The transfection efficiency of GLI-specific decoy ODN was measured using fluorescent microscopy. Then, the effects of GLI-specific decoy ODN on apoptosis, viability, proliferation rate, colony formation, and migration capacities of Huh-7 cells were assessed. Furthermore, the expression of genes associated with the alteration of SHH was assessed. Results: Treatment of Huh-7 cells with GLI-specific decoy ODN decreased cell viability (56.36% ± 3%). Expression of certain genes such as c-MYC , SNAI2 , ZEB1 , and PROM1 decreased dramatically, while the expression of CDH1 increased significantly. Furthermore, the treated cells’ proliferation, colony formation, and migration capacity decreased considerably. This treatment induced apoptosis in the Huh-7 cells. Conclusion: Inhibition of the SHH signaling pathway using GLI-specific decoy ODN led to a decline in the growth rate of HCC cells, decreased migration, and attenuated EMT progression.

PRODUCTION OF BIODIESEL FROM MICROALGAE CULTIVATED WITH VINASSE

Purpose: The objective of this work was to carry out the cultivation of the microalgae Chlorella sorokiniana with diluted vinasse, verifying its potential for remediation of nutrients and increase of its lipid fraction, to produce biodiesel according to the current regulation. Theoretical Framework: The quest to reduce fossil fuels, which are responsible for negative environmental impacts, has boosted the demand for biofuels in recent years. Biodiesel has been gaining prominence as a promising alternative to replace petroleum derivatives since it can be produced from various raw materials, such as microalgae. Design/Methodology/Approach: Different vinasse dilutions were studied for the cultivation of Chlorella sorokiniana CTT 7727, being 5, 10 and 15% (v v-1) and N:P:K (20:5:20) 1% (v v-1) medium as a comparative standard. Biodiesel was produced by direct transesterification and analyzed by gas chromatography coupled to a flame ionization detector, enabling the identification and quantification of the fatty acid profile. Findings: The results obtained indicated that vinasse 10% (v v-1) proved to be promising for application as a culture medium for this microalgae species, as it guaranteed a good cell growth rate, high biomass productivity and lipid yield. Considering the biodiesel produced, it fits the regulatory standards analyzed by the National Agency of Petroleum, Natural Gas and Biofuels (ANP). Research, Practical & Social Implications: The research demonstrates the feasibility of cultivating the microalga Chlorella sorokiniana with diluted vinasse, highlighting the 10% concentration as promising for optimizing cell growth and lipid yield. The results ensure compliance with ANP regulations for biodiesel production, indicating immediate and sustainable applicability on an industrial scale. Socially, it contributes to the pursuit of biofuels, reducing dependence on fossil sources and promoting more sustainable practices in the bioenergy industry. Originality/Value: The study's originality lies in the unique combination of Chlorella sorokiniana CTT 7727, diluted vinasse, and biodiesel production in accordance with ANP regulations. It stands out for identifying the optimal vinasse concentration (10%) for cultivation, presenting an economical and effective approach. The strategic value is in the use of an alternative raw material cultivated with an industrial residue, promoting the diversification of the energy matrix and mitigating environmental impacts associated with conventional fuels.

Robust bioprocess design and evaluation of commercial media for the serial expansion of human induced pluripotent stem cell aggregate cultures in vertical-wheel bioreactors

BackgroundWhile pluripotent stem cell (PSC) therapies move toward clinical and commercial applications at a rapid rate, manufacturing reproducibility and robustness are notable bottlenecks in regulatory approval. Therapeutic applications of PSCs require large cell quantities to be generated under highly robust, well-defined, and economically viable conditions. Small-scale and short-term process optimization, however, is often performed in a linear fashion that does not account for time needed to verify the bioprocess protocols and analysis methods used. Design of a reproducible and robust bioprocess should be dynamic and include a continuous effort to understand how the process will respond over time and to different stresses before transitioning into large-scale production where stresses will be amplified.MethodsThis study utilizes a baseline protocol, developed for the short-term culture of PSC aggregates in Vertical-Wheel® bioreactors, to evaluate key process attributes through long-term (serial passage) suspension culture. This was done to access overall process robustness when performed with various commercially available media and cell lines. Process output variables including growth kinetics, aggregate morphology, harvest efficiency, genomic stability, and functional pluripotency were assessed through short and long-term culture.ResultsThe robust nature of the expansion protocol was demonstrated over a six-day culture period where spherical aggregate formation and expansion were observed with high-fold expansions for all five commercial media tested. Profound differences in cell growth and quality were revealed only through long-term serial expansion and in-vessel dissociation operations. Some commercial media formulations tested demonstrated maintenance of cell growth rates, aggregate morphology, and high harvest recovery efficiencies through three bioreactor serial passages using multiple PSC lines. Exceptional bioprocess robustness was even demonstrated with sustained growth and quality maintenance over 10 serial bioreactor passages. However, some commercial media tested proved less equipped for serial passage cultures in bioreactors as cultures led to cell lysis during dissociation, reduction in growth rates, and a loss of aggregate morphology.ConclusionsThis study demonstrates the importance of systematic selection and testing of bioprocess input variables, with multiple bioprocess output variables through serial passages to create a truly reproducible and robust protocol for clinical and commercial PSC production using scalable bioreactor systems.

A size-dependent division strategy accounts for leukemia cell size heterogeneity

Heterogeneity in the size distribution of cancer cell populations is linked to drug resistance and invasiveness. However, understanding how such heterogeneity arises is still damped by the difficulties of monitoring the proliferation at the typical timescales of mammalian cells. Here, we show how to infer the growth regime and division strategy of leukemia cell populations using live cell fluorescence labeling and flow cytometry in combination with an analytical model where cell growth and division rates depend on powers of the size. We found that the dynamics of the size distribution of Jurkat T-cells is reproduced by (i) a sizer-like division strategy, with (ii) division times following an Erlang distribution and (iii) fluctuations up to ten percent of the inherited fraction of size at division. Overall, our apparatus can be extended to other cell types and environmental conditions allowing for a comprehensive characterization of the growth and division model different cells adopt.

The Effect of Various Photoperiodic Conditions and Zn2+ Concentrations on Growth Rate and Metabolite Content in Euglena sp.

The application of Euglena as a carbon capture organism has generated considerable interest among scientists. Through the photosynthesis process, many kinds of metabolites are produced by Euglena, such as lipids, proteins, and pigments. Due to the metabolites produced by Euglena, it is vital to optimize the carbon capture ability and cell growth rate by adding Zn2+ content and giving photoperiodic into Euglena culture. The purpose of this study is to identify the optimal photoperiod and Zn2+ concentration to increase the growth rate, biomass, and metabolite content of Euglena sp. This study is a laboratory experiment involving the cultivation of Euglena sp. in various photoperiod cycles (light: dark), namely 24:0, 12:12, 14:10, and 16:8. In addition, Euglena sp. was also cultivated using different concentrations of Zn2+ (0 ppm, 5 ppm, 10 ppm, and 15 ppm). The growth of Euglena sp. was monitored for 18 days before being harvested every three days to measure the research parameters, including primary and secondary metabolites. The results showed that the photoperiod treatment and various concentrations of Zn2+ had a significant impact (P<0.05) on the growth rate, biomass, lipid, carbohydrate, protein, chlorophyll, and carotenoid levels of Euglena sp.

Dependence of post-segregational killing mediated by Type II restriction-modification systems on the lifetime of restriction endonuclease effective activity.

Plasmid-borne Type II restriction-modification (RM) systems mediate post-segregational killing (PSK). PSK is thought to be caused by the dilution of restriction and modification enzymes during cell division, resulting in accumulation of unmethylated DNA recognition sites and their cleavage by restriction endonucleases. PSK is the likely reason for stabilization of plasmids carrying RM systems in the absence of selection for plasmid maintenance. In this study, we developed a CRISPR interference-based method to eliminate RM-carrying plasmids and study PSK-related phenomena with minimal perturbation to the Escherichia coli host. Plasmids carrying the EcoRV, Eco29kI, and EcoRI RM systems were highly stable, and their loss resulted in SOS response and PSK. In contrast, plasmids carrying the Esp1396I system were poorly stabilized; their loss led to a temporary cessation of growth, followed by full recovery. We demonstrate that this unusual behavior is due to a limited lifetime of the Esp1396I restriction endonuclease activity, which, upon Esp1396I plasmid loss, disappears approximately after two cycles of cell division, i.e., before unmethylated sites appear in significant numbers. Our results indicate that whenever PSK induced by a loss of RM systems, and, possibly, other toxin-antitoxin systems, is considered, the lifetimes of individual system components and the growth rate of host cells shall be taken in account. Mathematical modeling shows, that unlike the situation with classical toxin-antitoxin systems, RM system-mediated PSK is possible when the lifetimes of restriction endonuclease and methyltransferase activities are similar, as long as the toxic restriction endonuclease activity persists for more than two chromosome replication cycles.IMPORTANCEIt is widely accepted that many Type II restriction-modification (RM) systems mediate post-segregational killing (PSK) if plasmids that encode them are lost. In this study, we harnessed an inducible CRISPR-Cas system to remove RM plasmids from Escherichia coli cells to study PSK while minimally perturbing cell physiology. We demonstrate that PSK depends on restriction endonuclease activity lifetime and is not observed when it is less than two replication cycles. We present a mathematical model that explains experimental data and shows that unlike the case of toxin-antitoxin-mediated PSK, the loss of an RM system induced PSK even when the RM enzymes have identical lifetimes.

Phenotypic memory in quorum sensing.

Quorum sensing (QS) is a regulatory mechanism used by bacteria to coordinate group behavior in response to high cell densities. During QS, cells monitor the concentration of external signals, known as autoinducers, as a proxy for cell density. QS often involves positive feedback loops, leading to the upregulation of genes associated with QS signal production and detection. This results in distinct steady-state concentrations of QS-related molecules in QS-ON and QS-OFF states. Due to the slow decay rates of biomolecules such as proteins, even after removal of the initial stimuli, cells can retain elevated levels of QS-associated biomolecules for extended periods of time. This persistence of biomolecules after the removal of the initial stimuli has the potential to impact the response to future stimuli, indicating a memory of past exposure. This phenomenon, which is a consequence of the carry-over of biomolecules rather than genetic inheritance, is known as "phenotypic" memory. This theoretical study aims to investigate the presence of phenotypic memory in QS and the conditions that influence this memory. Numerical simulations based on ordinary differential equations and analytical modeling were used to study gene expression in response to sudden changes in cell density and extracellular signal concentrations. The model examined the effect of various cellular parameters on the strength of QS memory and the impact on gene regulatory dynamics. The findings revealed that QS memory has a transient effect on the expression of QS-responsive genes. These consequences of QS memory depend strongly on how cell density was perturbed, as well as various cellular parameters, including the Fold Change in the expression of QS-regulated genes, the autoinducer synthesis rate, the autoinducer threshold required for activation, and the cell growth rate.

Proliferation of SH-SY5Y neuroblastoma cells on confined spaces

Background:Microfluidics offers precise drug delivery and continuous monitoring of cell functions, which is crucial for studying the effects of toxins and drugs. Ensuring proper cell growth in these space-constrained systems is essential for obtaining consistent results comparable to standard Petri dishes. New method:We investigated the proliferation of SH-SY5Y cells on circular polycarbonate chambers with varying surface areas. SH-SY5Y cells were chosen for their relevance in neurodegenerative disease research. Results:Our study demonstrates a correlation between the chamber surface area and SH-SY5Y cell growth rates. Cells cultured in chambers larger than 10 mm in diameter exhibited growth comparable to standard 60-mm dishes. In contrast, smaller chambers significantly impeded growth, even at identical seeding densities. Similar patterns were observed for HeLaGFP cells, while 16HBE14σ cells proliferated efficiently regardless of chamber size. Additionally, SH-SY5Y cells were studied in a 12-mm diameter sealed chamber to assess growth under restricted gas exchange conditions. Comparison with existing methods:Our findings underscore the limitations of small chamber sizes in microfluidic systems for SH-SY5Y cells, an issue not typically addressed by conventional methods. Conclusions:SH-SY5Y cell growth is highly sensitive to spatial constraints, with markedly reduced proliferation in chambers smaller than 10 mm. This highlights the need to carefully consider chamber size in microfluidic experiments to achieve cell growth rates comparable to standard culture dishes. The study also shows that while SH-SY5Y and HeLaGFP cells are affected by chamber size, 16HBE14σ cells are not. These insights are vital for designing effective microfluidic systems for bioengineering research.

Medical Scope of Biofilm and Quorum Sensing during Biofilm Formation: Systematic Review

Biofilms are accumulations of microorganisms in an extracellular polymeric substance matrix which are composed of polysaccharides, proteins, lipids, and nucleic acids. Many bacteria can switch between a planktonic form and a biofilm form. The planktonic bacteria have relatively high cell growth and reproduction rates and have a reduced likelihood of survival but can adapt to occupy new habitats. The biofilm state appears to be a natural and predominant state of bacteria. The need for the formation of bacterial biofilm is that it enhances the tolerance of bacteria to harsh environmental conditions, thereby allowing bacteria to avoid being washed away by water flow or the bloodstream by simply attaching to a surface or tissue, and the EPS matrix protects bacteria cells, in deeper layers, against antimicrobial agents, probably by limiting the diffusion of these agents. Biofilm formation steps are initial contact/attachment to the surface, followed by micro-colony formation, maturation and formation of the architecture of the biofilm, and finally detachment/dispersion of the biofilm. Once formed, biofilm restricts bacterial mobility and increases cell density. Secretions of autoinducers into the environment are critical for cross-signaling between bacteria. This cross-talk is called quorum sensing (QS). Quorum sensing is a cell–cell communication mechanism between bacteria that allows specific processes to be controlled, such as biofilm formation and virulence factor expression. Bacterial quorum sensing signaling mainly consists of acyl-homoserine lactones (produced by Gram-negatives), autoinducing peptides (produced by Gram-positives), and autoinducer-2 (produced by both Gram-negatives and Gram-positives). Therefore, this review is aimed at how bacterial biofilms work and are formed.

Metabolite Compounds of Euglena sp. on Mass Cultivation System under MgCl2 and CaCl2 Salt Stress

Euglena sp. is rich in primary and secondary metabolite compounds. This cosmopolitan organism can survive extreme conditions such as salt stress because it can increase cell growth rate and metabolism. This mass cultivation research uses an open pond system that is very vulnerable to contamination, so variations in salinity of MgCl2 and CaCl2 are used as treatments because they minimize contamination. The research examines the correlation of salt types to cell growth rate, biomass, monosaccharide profile, paramylon, pigment, and lipid of Euglena sp. Research methods include preparation, medium making, mass cultivation, and measurement of test parameters. Data were analyzed through One-Way ANOVA followed by DMRT, with a 5% confidence level. Based on the research result, the highest value of biomass and paramylon content and productivity at CaCl2 treatment with consecutive values 0.013 ± 0.001, 0.002 ± 0.000, 9.556 ± 0.070, and 0.149 ± 0.019. Monosaccharides analysis produced in the form of sucrose, glucose, fructose, and arabinose amounted to < 10 ppm. CaCl2 treatment produced the highest sucrose of 6251 ppm. The highest chlorophyll-a and carotenoid pigments are located at CaCl2 treatment, respectively (1.698 ± 0.051)b and (0.500 ± 0.032)b. At the same time, the salt treatment has a significant effect on lipid content. To summarize, almost all metabolite compounds were highest in CaCl2 treatment. This research is expected to contribute to developing the Euglena sp. mass cultivation system as a source of bioenergy and biomaterials.

Advancing precision fermentation: Minimizing power demand of industrial scale bioreactors through mechanistic modelling

Minimizing power consumption in large-scale aerobic fermentation is essential for cost-effective operations. A mechanistic model of aerobic precision fermentation was developed integrating microbial growth parameters, thermodynamic data, and bioreactor properties. Results showed that agitation power dominated energy consumption at low oxygen transfer rates (OTR), shifting to aeration power (70 % of total) at high cell growth rates. In high OTRs, mixing time reduced to 60 s from an initial value of 211 s. Scale-up from 5 m³ to 100 m³ decreased total specific power by 88 %. Operating at elevated headspace pressure lowered agitation speed, reducing total power consumption at high OTR. Impeller to bioreactor diameter ratio impacted the required agitation speed without significantly altering total power demand. Experimental data in a 100 L case study indicated a 0.43 kW.m⁻³ average power requirement across a 96-hour fermentation period. Our model demonstrates effective strategies for minimization of power consumption in industrial-scale aerobic fermentations.