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TranscriptomicsTranscription profiling of E. coli NMB0419 mutants to investigate the role of this tetratricopeptide-repeats-encoding gene in bacterial adherence to human epithelial cells
The gene NMB0419 of Neisseria meningitidis strain MC58 encodes a putative tetratricopeptide repeats (TPR) containing protein, which was implicated in respiratory epithelial invasion. We have accordingly sought a role for NMB0419 in meningococcal adherence and invasion of human epithelial cells using...
ORGANISM(S): Escherichia coli 
2010-11-27 | E-MEXP-2485 | biostudies-arrayexpress
TranscriptomicsTranscription profiling of Actinobacillus pleuropneumoniae wild type, hns mutants and rseA mutants
Clinical isolates of the porcine pathogen Actinobacillus pleuropneumoniae often form adherent colonies on agar plates due to expression of an operon, pgaABCD, encoding a poly-N-acetylglucosamine (PGA) extracellular matrix. The adherent colony phenotype, which correlates with the ability to form a bi...
ORGANISM(S): Actinobacillus pleuropneumoniae 
2010-04-22 | E-MEXP-2461 | biostudies-arrayexpress
GenomicsSequence Requirements for Cascade Function in a Type I-E CRISPR System: ChIP Library-seq
We generated a collection of 13 plasmids, with each plasmid containing a variant of a CRISPR protospacer targeted by spacer 8 of the E. coli CRISPR-I array. We transformed the plasmids as a pool into delta cas3 E. coli cells expressing all other cas genes constitutively, with FLAG-tagged casA. We th...
ORGANISM(S): Escherichia coli str. K-12 substr. MG1655 
2017-08-24 | E-MTAB-5972 | biostudies-arrayexpress
TranscriptomicsSource-tracking fecal contamination by genomic analysis of Escherichia coli from human and animal hosts
The model prokaryote Escherichia coli can exist as a either a commensal or a pathogen in the gut of diverse mammalian hosts. These associations, coupled with its ease of cultivation and genetic variability, have made E. coli a popular indicator organism for tracking the origin of fecal water contam...
ORGANISM(S): Escherichia coli str. K-12 substr. MG1655 
2013-03-01 | E-GEOD-21115 | biostudies-arrayexpress
MetabolomicsEnvironmental Chemical Diethylhexyl Phthalate Alters Intestinal Microbiota Community Structure and Metabolite Profile in Mice
Exposure to environmental chemicals during windows of development is a potentially contributing factor in gut microbiota dysbiosis, and linked to chronic diseases and developmental disorders. We used a community-level model of microbiota metabolism to investigate the effects of diethylhexyl phthalat...
2022-01-17 | MTBLS861 | MetaboLights
TranscriptomicsSmall RNA profiling of KSHV-miRNA-expressing and KSHV-infected B cell lines
Micro (mi)RNAs are small non-coding RNAs with key regulatory functions. Recent advances in the field allowed researchers to identify their targets. However, much less is known regarding the regulation of miRNA themselves. The accumulation of these tiny regulators can be modulated at various levels d...
ORGANISM(S): Homo sapiens 
2014-06-02 | E-GEOD-53296 | biostudies-arrayexpress
TranscriptomicsDefining the mobilome in clinically important lineages of Enterococcus faecium and Enterococcus faecalis
The success of Enterococcus faecium and E. faecalis evolving as multi-resistant nosocomial pathogens is associated with their ability to acquire and share adaptive traits, including mobile genetic elements (MGE) encoding antimicrobial resistance. Here, we define the mobilome in representative succes...
ORGANISM(S): Enterococcus faecalis 
2014-07-08 | E-GEOD-59190 | biostudies-arrayexpress
UnknownMapping structurally defined guanine oxidation products along DNA duplexes: influence of local sequence context and endogenous cytosine methylation.
Not available
S-EPMC3985951 | biostudies-literature
TranscriptomicsComparative transcriptome analysis of the CO2 sensing pathway via differential expressions of carbonic anhydrase in Cryptococcus neoformans
Carbon dioxide (CO2) sensing, transport, and metabolism play a pivotal role in survival and proliferation of pathogenic microbes infecting human host from natural environments due to the drastic difference of CO2 levels. Carbonic anhydrases (CAs) are not only key CO2-metabolic enzymes catalyzing rev...
ORGANISM(S): Cryptococcus neoformans var. grubii H99 
2010-05-31 | E-GEOD-21192 | biostudies-arrayexpress
TranscriptomicsEffects of maternal Cd on the female reproductive functions, gametes development and genes expression of zebrafish
The impacts of maternal Cd on zebrafish from female to embryo which included fecundity, gametes development, growth, other reproductive functions, and gene expression of 5hpf embryo were up and down regulated after female pretreated with Cd. The mating rate decreased by 30 %. It can be observed in g...
ORGANISM(S): Danio rerio 
2013-07-01 | E-GEOD-20926 | biostudies-arrayexpress
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