scholarly journals cDNA Array Analysis of Gene Expression Profiles in Brain of Mice Exposed to Manganese

2004 ◽  
Vol 42 (3) ◽  
pp. 315-320 ◽  
Author(s):  
Sun-Yong BAEK ◽  
Jin-Hun CHO ◽  
Eul-Sun KIM ◽  
Hyun-Ju KIM ◽  
Sik YOON ◽  
...  
Keyword(s):  
Gene Expression ◽  
Expression Profiles ◽  
Cdna Array ◽  
Gene Expression Profiles ◽  
Array Analysis

scholarly journals Analysis of Expressed Sequence Tag Data and Gene Expression Profiles Involved in Conidial Germination of Fusarium oxysporum

2006 ◽  
Vol 72 (2) ◽  
pp. 1667-1671 ◽  
Author(s):  
Ye Deng ◽  
Haitao Dong ◽  
Qingchao Jin ◽  
Cheng'en Dai ◽  
Yongqi Fang ◽  
...  
Keyword(s):  
Gene Expression ◽  
Protein Synthesis ◽  
Fusarium Oxysporum ◽  
Cdna Library ◽  
Expressed Sequence Tag ◽  
Expression Profiles ◽  
Cdna Array ◽  
Gene Expression Profiles ◽  
Conidial Germination ◽  
Expressed Sequence

ABSTRACT We obtained 3,372 tentative unique transcripts (TUTs) from a cDNA library of Fusarium oxysporum. A cDNA array with 3,158 TUTs was produced to analyze gene expression profiles in conidial germination. It seems that ras and other signaling genes, e.g., ccg, cooperatively initiate conidial germination in Fusarium by increasing protein synthesis.

scholarly journals Gammaherpesvirus Lytic Gene Expression as Characterized by DNA Array

2002 ◽  
Vol 76 (12) ◽  
pp. 6244-6256 ◽  
Author(s):  
Joo Wook Ahn ◽  
Kenneth L. Powell ◽  
Paul Kellam ◽  
Dagmar G. Alber
Keyword(s):  
Gene Expression ◽  
De Novo ◽  
Expression Profiles ◽  
Cdna Array ◽  
Gene Expression Profiles ◽  
Hierarchical Cluster ◽  
Murine Gammaherpesvirus ◽  
Transcription Profiles ◽  
A Genome

ABSTRACT Gammaherpesviruses are associated with a number of diseases including lymphomas and other malignancies. Murine gammaherpesvirus 68 (MHV-68) constitutes the most amenable animal model for this family of pathogens. However experimental characterization of gammaherpesvirus gene expression, at either the protein or RNA level, lags behind that of other, better-studied alpha- and beta-herpesviruses. We have developed a cDNA array to globally characterize MHV-68 gene expression profiles, thus providing an experimental supplement to a genome that is chiefly annotated by homology. Viral genes started to be transcribed as early as 3 h postinfection (p.i.), and this was followed by a rapid escalation of gene expression that could be seen at 5 h p.i. Individual genes showed their own transcription profiles, and most genes were still being expressed at 18 h p.i. Open reading frames (ORFs) M3 (chemokine-binding protein), 52, and M9 (capsid protein) were particularly noticeable due to their very high levels of expression. Hierarchical cluster analysis of transcription profiles revealed four main groups of genes and allowed functional predictions to be made by comparing expression profiles of uncharacterized genes to those of genes of known function. Each gene was also categorized according to kinetic class by blocking de novo protein synthesis and viral DNA replication in vitro. One gene, ORF 73, was found to be expressed with α-kinetics, 30 genes were found to be expressed with β-kinetics, and 42 genes were found to be expressed with γ-kinetics. This fundamental characterization furthers the development of this model and provides an experimental basis for continued investigation of gammaherpesvirus pathology.

PCR array analysis of gene expression profiles in chronic active Epstein–Barr virus infection

2014 ◽  
Vol 16 (7) ◽  
pp. 581-586 ◽  
Author(s):  
Masanao Murakami ◽  
Yumiko Hashida ◽  
Masayuki Imajoh ◽  
Akihiko Maeda ◽  
Mikio Kamioka ◽  
...  
Keyword(s):  
Gene Expression ◽  
Epstein Barr Virus ◽  
Expression Profiles ◽  
Gene Expression Profiles ◽  
Epstein Barr Virus Infection ◽  
Pcr Array ◽  
Array Analysis ◽  
Barr Virus ◽  
Epstein Barr ◽  
Barr Virus Infection

scholarly journals Single-Cell Transcript Profiling of Barley Attacked by the Powdery Mildew Fungus

2007 ◽  
Vol 20 (3) ◽  
pp. 235-246 ◽  
Author(s):  
Torben Gjetting ◽  
Peter H. Hagedorn ◽  
Patrick Schweizer ◽  
Hans Thordal-Christensen ◽  
Timothy L. W. Carver ◽  
...  
Keyword(s):  
Gene Expression ◽  
Powdery Mildew ◽  
Expression Profiles ◽  
Cdna Array ◽  
Gene Expression Profiles ◽  
Powdery Mildew Fungus ◽  
Nonspecific Resistance ◽  
Susceptible Host ◽  
Leaf Epidermal Cell ◽  
Induced Changes

In many plant-pathogen interactions, there are several possible outcomes for simultaneous attacks on the same leaf. For instance, an attack by the powdery mildew fungus on one barley leaf epidermal cell may succeed in infection and formation of a functional haustorium, whereas a neighboring cell attacked at the same time may resist fungal penetration. To date, the mixed cellular responses seen even in susceptible host leaves have made it difficult to relate induced changes in gene expression to resistance or susceptibility in bulk leaf samples. By microextraction of cell-specific mRNA and subsequent cDNA array analysis, we have successfully obtained separate gene expression profiles for specific mildew-resistant and -infected barley cells. Thus, for the first time, it is possible to identify genes that are specifically regulated in infected cells and, presumably, involved in fungal establishment. Further, although much is understood about the genetic basis of effective papilla resistance associated with mutant mlo barley, we provide here the first evidence for gene regulation associated with effective papilla-based nonspecific resistance expressed in nominally “susceptible” wild-type barley.

scholarly journals Loss of Gene Information: Discrepancies between RNA Sequencing, cDNA Microarray, and qRT-PCR

2021 ◽  
Vol 22 (17) ◽  
pp. 9349
Author(s):  
Nicole Rachinger ◽  
Stefan Fischer ◽  
Ines Böhme ◽  
Lisa Linck-Paulus ◽  
Silke Kuphal ◽  
...  
Keyword(s):  
Gene Expression ◽  
Rna Sequencing ◽  
Expression Profiles ◽  
Cdna Array ◽  
Gene Expression Profiles ◽  
Strong Impact ◽  
Rna Seq ◽  
Rt Pcr ◽  
Gene Information ◽  
Insight Into

Molecular analyses of normal and diseased cells give insight into changes in gene expression and help in understanding the background of pathophysiological processes. Years after cDNA microarrays were established in research, RNA sequencing (RNA-seq) became a key method of quantitatively measuring the transcriptome. In this study, we compared the detection of genes by each of the transcriptome analysis methods: cDNA array, quantitative RT-PCR, and RNA-seq. As expected, we found differences in the gene expression profiles of the aforementioned techniques. Here, we present selected genes that exemplarily demonstrate the observed differences and calculations to reveal that a strong RNA secondary structure, as well as sample preparation, can affect RNA-seq. In summary, this study addresses an important issue with a strong impact on gene expression analysis in general. Therefore, we suggest that these findings need to be considered when dealing with data from transcriptome analyses.

scholarly journals Molecular analysis of bovine spongiform encephalopathy infection by cDNA arrays

2007 ◽  
Vol 88 (4) ◽  
pp. 1356-1362 ◽  
Author(s):  
G. Peter Sawiris ◽  
Kevin G. Becker ◽  
Ellen J. Elliott ◽  
Robert Moulden ◽  
Robert G. Rohwer
Keyword(s):  
Gene Expression ◽  
Bovine Spongiform Encephalopathy ◽  
Differential Expression ◽  
Brain Tissue ◽  
Expression Profiles ◽  
Cdna Array ◽  
Spongiform Encephalopathy ◽  
Ion Binding ◽  
Regulation Of Transcription ◽  
Array Analysis

Here, the first cDNA array analysis of differential gene expression in bovine spongiform encephalopathy (BSE) is reported, using a spotted cDNA array platform representing nearly 17 000 mouse genes. Array analysis identified 296 gene candidates for differential expression in brain tissue from VM mice in late-stage infection with the 301V strain of BSE, compared with brain tissue from normal, age-matched VM mice. Real-time PCR confirmed differential expression of 25 of 31 genes analysed. Some of the genes identified by array analysis as being expressed differentially are associated with ubiquitin/proteasome function, lysosomal function, molecular chaperoning of protein folding or apoptosis. Other genes are involved in calcium ion binding/homeostasis, zinc ion binding/homeostasis or regulation of transcription. Principal-component analysis shows that the global gene-expression profiles of the BSE-infected samples have gene-expression signatures that are markedly different from, and completely non-overlapping with, those obtained from the normal controls.

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