scholarly journals Time course of global gene expression alterations in Candida albicans during infection of HeLa cells

2017 ◽  
Author(s):  
Yi-Bing Lan ◽  
Yi-Zhou Huang ◽  
Fan Qu ◽  
Juan-Qing Li ◽  
Lin-Juan Ma ◽  
...  
Keyword(s):  
Gene Expression ◽  
Candida Albicans ◽  
Hela Cells ◽  
Time Course ◽  
Global Gene Expression ◽  
Gene Expression Alterations

scholarly journals Time Course Global Gene Expression Analysis of an In VivoCandidaBiofilm

2009 ◽  
Vol 200 (2) ◽  
pp. 307-313 ◽  
Author(s):  
Jeniel E. Nett ◽  
Alexander J. Lepak ◽  
Karen Marchillo ◽  
David R. Andes
Keyword(s):  
Gene Expression ◽  
Expression Analysis ◽  
Time Course ◽  
Gene Expression Analysis ◽  
Global Gene Expression ◽  
Global Gene Expression Analysis

scholarly journals Transcriptional Profiling Reveals Ribosome Biogenesis, Microtubule Dynamics and Expression of Specific lncRNAs to be Part of a Common Response to Cell-Penetrating Peptides

Biomolecules ◽  
2020 ◽  
Vol 10 (11) ◽  
pp. 1567
Author(s):  
Tomas Venit ◽  
Moataz Dowaidar ◽  
Maxime Gestin ◽  
Syed Raza Mahmood ◽  
Ülo Langel ◽  
...  
Keyword(s):  
Gene Expression ◽  
Lipid Bilayers ◽  
Hela Cells ◽  
Ribosome Biogenesis ◽  
Time Course ◽  
Transcriptional Profiling ◽  
Cell Penetrating Peptides ◽  
Microtubule Dynamics ◽  
Cell Penetrating ◽  
Common Response

Cell-penetrating peptides (CPPs) are short peptides that are able to efficiently penetrate cellular lipid bilayers. Although CPPs have been used as carriers in conjugation with certain cargos to target specific genes and pathways, how rationally designed CPPs per se affect global gene expression has not been investigated. Therefore, following time course treatments with 4 CPPs-penetratin, PepFect14, mtCPP1 and TP10, HeLa cells were transcriptionally profiled by RNA sequencing. Results from these analyses showed a time-dependent response to different CPPs, with specific sets of genes related to ribosome biogenesis, microtubule dynamics and long-noncoding RNAs being differentially expressed compared to untreated controls. By using an image-based high content phenotypic profiling platform we confirmed that differential gene expression in CPP-treated HeLa cells strongly correlates with changes in cellular phenotypes such as increased nucleolar size and dispersed microtubules, compatible with altered ribosome biogenesis and cell growth. Altogether these results suggest that cells respond to different cell penetrating peptides by alteration of specific sets of genes, which are possibly part of the common response to such stimulus.

scholarly journals Time Course of Microbiologic Outcome and Gene Expression in Candida albicans during and following In Vitro and In Vivo Exposure to Fluconazole

2006 ◽  
Vol 50 (4) ◽  
pp. 1311-1319 ◽  
Author(s):  
A. Lepak ◽  
J. Nett ◽  
L. Lincoln ◽  
K. Marchillo ◽  
D. Andes
Keyword(s):  
Gene Expression ◽  
Candida Albicans ◽  
Time Course ◽  
Dependent Manner ◽  
Time Points ◽  
In Vivo Expression ◽  
The Impact ◽  
The Relationship

ABSTRACT Pharmacodynamics (PD) considers the relationship between drug exposure and effect. The two factors that have been used to distinguish the PD behaviors of antimicrobials are the impact of concentration on the extent of organism killing and the duration of persistent microbiologic suppression (postantibiotic effect). The goals of these studies were (i) to examine the relationship between antimicrobial PD and gene expression and (ii) to gain insight into the mechanism of fluconazole effects persisting following exposure. Microarrays were used to estimate the transcriptional response of Candida albicans to a supra-MIC F exposure over time in vitro. Fluconazole at four times the MIC was added to a log-phase C. albicans culture, and cells were collected to determine viable growth and for microarray analyses. We identified differential expression of 18% of all genes for at least one of the time points. More genes were upregulated (n = 1,053 [16%]) than downregulated (174 [3%]). Of genes with known function that were upregulated during exposure, most were related to plasma membrane/cell wall synthesis (18%), stress responses (7%), and metabolism (6%). The categories of downregulated genes during exposure included protein synthesis (15%), DNA synthesis/repair (7%), and transport (7%) genes. The majority of genes identified at the postexposure time points were from the protein (17%) and DNA (7%) synthesis categories. In subsequent studies, three genes (CDR1, CDR2, and ERG11) were examined in greater detail (more concentration and time points) following fluconazole exposure in vitro and in vivo. Expression levels from the in vitro and in vivo studies were congruent. CDR1 and CDR2 transcripts were reduced during in vitro fluconazole exposure and during supra-MIC exposure in vivo. However, in the postexposure period, the mRNA abundance of both pumps increased. ERG11 expression increased during exposure and fell in the postexposure period. The expression of the three genes responded in a dose-dependent manner. In sum, the microarray data obtained during and following fluconazole exposure identified genes both known and unknown to be affected by this drug class. The expanded in vitro and in vivo expression data set underscores the importance of considering the time course of exposure in pharmacogenomic investigations.

scholarly journals Signaling Pathway of Histamine H1 Receptor-Mediated Histamine H1 Receptor Gene Upregulation Induced by Histamine in U-373 MG Cells

2021 ◽  
Vol 43 (3) ◽  
pp. 1243-1254
Author(s):  
Hiroyuki Mizuguchi ◽  
Yuko Miyamoto ◽  
Takuma Terao ◽  
Haruka Yoshida ◽  
Wakana Kuroda ◽  
...  
Keyword(s):  
Gene Expression ◽  
Signaling Pathway ◽  
Hela Cells ◽  
Time Course ◽  
Receptor Gene ◽  
Selective Inhibitor ◽  
H1 Receptor ◽  
Promoter Assay ◽  
Peripheral Tissues ◽  
Histamine H1 Receptor

Histamine H1 receptor (H1R) is one of the targets of histamine in the nervous system and the peripheral tissues. Protein kinase Cδ (PKCδ) signaling is involved in histamine-induced upregulation of H1R gene expression in HeLa cells. Histamine also upregulates H1R gene expression in U-373 MG cells. However, the molecular signaling of this upregulation is still unclear. Here, we investigated the molecular mechanism of histamine-induced H1R gene upregulation in U-373 MG cells. Histamine-induced H1R gene upregulation was inhibited by H1R antagonist d-chlorpheniramine, but not by ranitidine, ciproxifan, or JNJ77777120, and H2R, H3R, or H4R antagonists, respectively. Ro-31-8220 and Go6976 also suppressed this upregulation, however, the PKCδ selective inhibitor rottlerin and the PKCβ selective inhibitor Ly333531 did not. Time-course studies showed distinct kinetics of H1R gene upregulation in U-373 MG cells from that in HeLa cells. A promoter assay revealed that the promoter region responsible for H1R gene upregulation in U-373 MG cells was different from that of HeLa cells. These data suggest that the H1R-activated H1R gene expression signaling pathway in U-373 MG cells is different from that in HeLa cells, possibly by using different promoters. The involvement of PKCα also suggests that compounds that target PKCδ could work as peripheral type H1R-selective inhibitors without a sedative effect.

Global gene expression patterns spanning 3T3-L1 preadipocyte differentiation

2004 ◽  
Vol 84 (3) ◽  
pp. 367-376 ◽  
Author(s):  
C. Hansen ◽  
A. Fu ◽  
C. Li ◽  
W. T. Dixon ◽  
R. Christopherson ◽  
...  
Keyword(s):  
Gene Expression ◽  
Time Course ◽  
Adipocyte Differentiation ◽  
Expression Patterns ◽  
Subcutaneous Fat ◽  
Global Gene Expression ◽  
Differentiation Process ◽  
Comprehensive Overview ◽  
Self Organizing Maps ◽  
Som Clustering

Adipogenesis is of significant relevance from an agricultural perspective. Traits such as subcutaneous fat thickness, marbling and waste fat are of substantial economic importance in animal production. In order to discover more about the genetic basis of this process, a study was undertaken to examine the changes that occur daily in global gene expression as 3T3-L1 cells differentiate from preadipocyte to adipocyte. Duplicate RNA samples were collected daily during the differentiation process and probed with the Affymetrix U74Av2 GeneChip® microarray to allow the time-course analysis of the gene expression profile in these differentiating cells. Self-organizing maps (SOM) clustering was performed to extract patterns of expression over the course of the experiment (day 0 to day 6). The clustering generated nine distinct expression patterns containing between 74 and 420 genes/ESTs. Functional clusters and important chronological changes in the expression of key genes and gene groups were identified. The pattern of expression observed for many genes not only confirmed what has been shown previously for the early stages of differentiation, but also expanded this pattern to cover the whole differentiation process thus giving a very comprehensive overview of patterns and changes in gene expression over the time course of adipocyte differentiation. Key words: Adipocyte differentiation, gene expression, SOM clustering

scholarly journals Identification of Differentially Expressed Genes in Scrapie-Infected Mouse Brains by Using Global Gene Expression Technology

2004 ◽  
Vol 78 (20) ◽  
pp. 11051-11060 ◽  
Author(s):  
Wei Xiang ◽  
Otto Windl ◽  
Gerda Wünsch ◽  
Martin Dugas ◽  
Alexander Kohlmann ◽  
...  
Keyword(s):  
Gene Expression ◽  
Infected Mouse ◽  
Calcium Binding ◽  
Time Course ◽  
Prion Diseases ◽  
Expression Profiles ◽  
Neuronal Cell Death ◽  
Neuronal Cell ◽  
Global Gene Expression ◽  
Protease Inhibition

ABSTRACT The pathogenesis of prion diseases, a class of transmissible fatal neurodegenerative diseases in humans and animals, is still unclear. The aim of this study was to identify the differentially regulated genes that correlate with the development of prion diseases for a better understanding of their pathological mechanisms. We employed Affymetrix Mouse Expression Arrays 430A containing >22,000 transcripts and compared the global gene expression profiles from brains of mice who were intracerebrally inoculated with scrapie strains ME7 and RML with those from brains of uninfected and mock-infected mice. The microarray data were analyzed by Significance Analysis of Microarrays, revealing 121 genes whose expression increased at least twofold in both ME7- and RML-infected mouse brains, with an estimated false discovery rate of ≤5%. These genes encode proteins involved in proteolysis, protease inhibition, cell growth and maintenance, the immune response, signal transduction, cell adhesion, and molecular metabolism. The time course of expression generally showed up-regulation of these genes from 120 days postinoculation (dpi) for ME7-inoculated mouse brains and from 90 dpi for RML-inoculated mouse brains. The onset of elevated expression correlated temporally with the onset of PrPSc accumulation and the activation of glia, which may have contributed to neuronal cell death. Among the differentially regulated genes reported in the present study, the emergence of genes for several cathepsins and S100 calcium binding proteins was conspicuous. These and other genes reported here may represent novel potential diagnostic and therapeutic targets for prion disease.

scholarly journals Global gene expression analysis of the Myxococcus xanthus developmental time course

Genomics ◽  
2021 ◽  
Vol 113 (1) ◽  
pp. 120-134
Author(s):  
Gaurav Sharma ◽  
Andrew I. Yao ◽  
Gregory T. Smaldone ◽  
Jennifer Liang ◽  
Matt Long ◽  
...  
Keyword(s):  
Gene Expression ◽  
Expression Analysis ◽  
Time Course ◽  
Gene Expression Analysis ◽  
Myxococcus Xanthus ◽  
Global Gene Expression ◽  
Developmental Time ◽  
Global Gene Expression Analysis

Microarray analysis of global changes in gene expression during cardiac myocyte differentiation

2002 ◽  
Vol 9 (3) ◽  
pp. 145-155 ◽  
Author(s):  
Chang-Fu Peng ◽  
Yi Wei ◽  
Jeffrey M. Levsky ◽  
Thomas V. McDonald ◽  
Geoffrey Childs ◽  
...  
Keyword(s):  
Gene Expression ◽  
Cardiac Myocytes ◽  
Large Scale ◽  
Time Course ◽  
Cardiac Myocyte ◽  
Expression Patterns ◽  
Global Gene Expression ◽  
Global Changes ◽  
Novel Genes ◽  
Myocyte Differentiation

Significant progress has been made in defining pathways that mediate the formation of the mammalian heart. Little is known, however, about the genetic program that directs the differentiation of cardiac myocytes from their precursor cells. A major hindrance to this kind of investigation has been the absence of an appropriate cell culture model of cardiac myocyte differentiation. Recently, a subline of P19 cells (P19CL6) was derived that, following dimethyl sulfoxide (DMSO) treatment, differentiate efficiently over 10 days into spontaneously beating cardiac myocytes. We demonstrate that these cells are indeed cardiac myocytes as they express cell type-specific markers and exhibit electrophysiological properties indicative of cardiac myocytes. The requirement for DMSO stimulation in this paradigm was shown to be limited to the first 4 days, suggesting that critical events in the differentiation process occur over this interval. To uncover relationships among known genes and identify novel genes that mediate cardiac myocyte differentiation, a detailed time course of changes in global gene expression was carried out using cDNA microarrays. In addition to the activation of genes encoding cardiac transcription factors and structural proteins, increases were noted in the expression of multiple known genes and expressed sequence tags (ESTs). Analysis of the former suggested the involvement of a variety of signaling pathways in cardiac myocyte differentiation. The 16 ESTs whose expression was increased during the early, stimulus-dependent phase of cardiac myocyte differentiation may be novel regulators of this process. Thus this first report of large-scale changes in gene expression during cardiac myocyte differentiation has delineated relationships among the expression patterns of known genes and identified a number of novel genes that merit further study.

Identification of temporal patterns of gene expression in the uteri of immature, ovariectomized mice following exposure to ethynylestradiol

2003 ◽  
Vol 15 (2) ◽  
pp. 127-141 ◽  
Author(s):  
K. C. Fertuck ◽  
J. E. Eckel ◽  
C. Gennings ◽  
T. R. Zacharewski
Keyword(s):  
Gene Expression ◽  
Time Course ◽  
Gene Annotation ◽  
Cell Cycle Control ◽  
Global Gene Expression ◽  
Ovariectomized Mice ◽  
Novel Approach ◽  
Annotation Information ◽  
Wet Weight ◽  
Physiological Outcomes

Estrogen induction of uterine wet weight provides an excellent model to investigate relationships between changes in global gene expression and well-characterized physiological responses. In this study, time course microarray GeneChip data were analyzed using a novel approach to identify temporal changes in uterine gene expression following treatment of immature ovariectomized C57BL/6 mice with 0.1 mg/kg 17α-ethynylestradiol. Functional gene annotation information from public databases facilitated the association of changes in gene expression with physiological outcomes, which allowed detailed mechanistic inferences to be drawn regarding cell cycle control and proliferation, transcription and translation, structural tissue remodeling, and immunologic responses. These systematic approaches confirm previously established responses, identify novel estrogen-regulated transcriptional effects, and disclose the coordinated activation of multiple modes of action that support the uterotrophic response elicited by estrogen. In particular, it was possible to elucidate the physiological significance of the dramatic induction of arginase, a classic estrogenic response, by elucidating its mechanistic relevance and delineating the role of arginine and ornithine utilization in the estrogen-stimulated induction of uterine wet weight.

Sign in / Sign up

Export Citation Format

Share Document