A whole-genome mouse BAC microarray with 1-Mb resolution for analysis of DNA copy number changes by array comparative genomic hybridization.
AuthorsChung YJ, Jonkers J, Kitson H, Fiegler H, Humphray S, Scott C, Hunt S, Yu Y, Nishijima I, Velds A, Holstege H, Carter N, Bradley A,
JournalGenome Res
PubMed ID14707179
'Microarray-based comparative genomic hybridization (CGH) has become a powerful method for the genome-wide detection of chromosomal imbalances. Although BAC microarrays have been used for mouse CGH studies, the resolving power of these analyses was limited because high-density whole-genome mouse BAC microarrays were not available. We therefore developed a mouse BAC ... More
DNA replication origins fire stochastically in fission yeast.
AuthorsPatel PK, Arcangioli B, Baker SP, Bensimon A, Rhind N,
JournalMol Biol Cell
PubMed ID16251353
'DNA replication initiates at discrete origins along eukaryotic chromosomes. However, in most organisms, origin firing is not efficient; a specific origin will fire in some but not all cell cycles. This observation raises the question of how individual origins are selected to fire and whether origin firing is globally coordinated ... More
A virulence and antimicrobial resistance DNA microarray detects a high frequency of virulence genes in Escherichia coli isolates from Great Lakes recreational waters.
AuthorsHamelin K, Bruant G, El-Shaarawi A, Hill S, Edge TA, Bekal S, Fairbrother JM, Harel J, Maynard C, Masson L, Brousseau R,
JournalAppl Environ Microbiol
PubMed ID16751532
'Escherichia coli is generally described as a commensal species with occasional pathogenic strains. Due to technological limitations, there is currently little information concerning the prevalence of pathogenic E. coli strains in the environment. For the first time, using a DNA microarray capable of detecting all currently described virulence genes and ... More
Microarray deacetylation maps determine genome-wide functions for yeast histone deacetylases.
'Yeast contains a family of five related histone deacetylases (HDACs) whose functions are known at few genes. Therefore, we used chromatin immunoprecipitation and intergenic microarrays to generate genome-wide HDAC enzyme activity maps. Rpd3 and Hda1 deacetylate mainly distinct promoters and gene classes where they are recruited largely by novel mechanisms. ... More
Characterization of the genome composition of Bartonella koehlerae by microarray comparative genomic hybridization profiling.
AuthorsLindroos HL, Mira A, Repsilber D, Vinnere O, Näslund K, Dehio M, Dehio C, Andersson SG,
JournalJ Bacteriol
PubMed ID16109957
Bartonella henselae is present in a wide range of wild and domestic feline hosts and causes cat-scratch disease and bacillary angiomatosis in humans. We have estimated here the gene content of Bartonella koehlerae, a novel species isolated from cats that was recently identified as an agent of human endocarditis. The ... More
Rapid quantitative profiling of complex microbial populations.
AuthorsPalmer C, Bik EM, Eisen MB, Eckburg PB, Sana TR, Wolber PK, Relman DA, Brown PO,
JournalNucleic Acids Res
PubMed ID16407321
Diverse and complex microbial ecosystems are found in virtually every environment on earth, yet we know very little about their composition and ecology. Comprehensive identification and quantification of the constituents of these microbial communities--a 'census'--is an essential foundation for understanding their biology. To address this problem, we developed, tested and ... More
Occurrence of virulence and antimicrobial resistance genes in Escherichia coli isolates from different aquatic ecosystems within the St. Clair River and Detroit River areas.
AuthorsHamelin K, Bruant G, El-Shaarawi A, Hill S, Edge TA, Fairbrother J, Harel J, Maynard C, Masson L, Brousseau R,
JournalAppl Environ Microbiol
PubMed ID17085696
Although the number of Escherichia coli bacteria in surface waters can differ greatly between locations, relatively little is known about the distribution of E. coli pathotypes in surface waters used as sources for drinking or recreation. DNA microarray technology is a suitable tool for this type of study due to ... More
AIB1, a steroid receptor coactivator amplified in breast and ovarian cancer.
Authors Anzick S L; Kononen J; Walker R L; Azorsa D O; Tanner M M; Guan X Y; Sauter G; Kallioniemi O P; Trent J M; Meltzer P S;
JournalScience
PubMed ID9252329
Members of the recently recognized SRC-1 family of transcriptional coactivators interact with steroid hormone receptors to enhance ligand-dependent transcription. AIB1, a member of the SRC-1 family, was cloned during a search on the long arm of chromosome 20 for genes whose expression and copy number were elevated in human breast ... More
Transcytosis of albumin in astrocytes activates the sterol regulatory element-binding protein-1, which promotes the synthesis of the neurotrophic factor oleic acid.
We have recently reported that albumin, a serum protein present in the developing brain, stimulates the synthesis of oleic acid by astrocytes, which promotes neuronal differentiation. In this work, we gain insight into the mechanism by which albumin induces the synthesis of this neurotrophic factor. Our results show that astrocytes ... More
DNA/DNA hybridization to microarrays reveals gene-specific differences between closely related microbial genomes.
Authors Murray A E; Lies D; Li G; Nealson K; Zhou J; Tiedje J M;
JournalProc Natl Acad Sci U S A
PubMed ID11493693
DNA microarrays constructed with full length ORFs from Shewanella oneidensis, MR-1, were hybridized with genomic DNA from nine other Shewanella species and Escherichia coli K-12. This approach enabled visualization of relationships between organisms by comparing individual ORF hybridizations to 164 genes and is further amenable to high-density high-throughput analyses of ... More