Browse
Submit Data
Databases
API
Help

Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

13 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Biofilm development in B. bronchiseptica

ABSTRACT: To identify global stage-specific gene sets unique to biofilm formation for B. bronchiseptica, whole-genome transcriptome analysis was used to measure mRNA abundance under biofilm and planktonic growth conditions after 6, 12, 24, 36, and 48 hours of growth.

ORGANISM(S): Bordetella bronchiseptica

SUBMITTER: Tracy Nicholson

PROVIDER: E-MEXP-3295 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

ACCESS DATA

Json Xml

Publications

Transcriptome profiling reveals stage-specific production and requirement of flagella during biofilm development in Bordetella bronchiseptica.

Nicholson Tracy L TL Conover Matt S MS Deora Rajendar R

PloS one 20121112 11

We have used microarray analysis to study the transcriptome of the bacterial pathogen Bordetella bronchiseptica over the course of five time points representing distinct stages of biofilm development. The results suggest that B. bronchiseptica undergoes a coordinately regulated gene expression program similar to a bacterial developmental process. Expression and subsequent production of the genes encoding flagella, a classical Bvg(-) phase phenotype, occurs and is under tight regulatory control d ...[more]

PMID: 23152870

Similar Datasets

T44625

Project description:Whole genome transcriptome analysis was performed to determine which genes were differentially expressed between strains T44625 and RB50

2013-12-01 | E-MEXP-3967 | biostudies-arrayexpress

Overlap of RisA and RisX regulons

Project description:To investigate the role of RisX in regulating the RisA regulon, we designed and assembled a long-oligonucleotide microarray representing the full B. pertussis genome. For these experiments RNA was extracted from wild-type B. pertussis strain Bp536, ?risA, and ?risX isogenic mutants, converted to cDNA, labeled fluorescently labeled and directly compared by hybridizion to a B. pertussis long-oligonucleotide microarray.

2012-11-01 | E-MEXP-3728 | biostudies-arrayexpress

Comparative genomic hybridization of Bordetella bronchiseptica strains RB50 and 1289

Project description:B. bronchiseptica strains RB50 and 1289 strains were grown in SS broth at 37°C with shaking overnight and genomic DNA was isolated from bacterial cultures using a DNA extraction kit (Qiagen, Valencia, CA) and digested with DpnII. For each labeling reaction, 2 ug of digested genomic DNA was randomly primed using Cy-5 and Cy-3 dye-labeled nucleotides, with BioPrime DNA labeling kits (Invitrogen, Carlsbad, CA) and the two differentially labeled reactions to be compared were combined and hybridized to a B. bronchiseptica RB50 specific long-oligonucleotide microarray.

2008-12-31 | E-MEXP-1737 | biostudies-arrayexpress

T44625-cgh

Project description:comparative genomic hybridization (CGH) analysis was perfromed in order to identify coding regions present in strain T44625 that are either absent or contain a high degree of sequence divergence compared to the RB50 reference strain.

2013-12-01 | E-MEXP-3968 | biostudies-arrayexpress

Transcription profiling of three Bordetella bronchiseptica strains at three distinct phases of growth: mid-log phase, late-log phase, and late-stationary phase

Project description:Microarray analysis was performed to determine if the growth-dependent gene expression changes occurred on a global scale for B. bronchiseptica strains RB50, RB53, and RB54. For this analysis cDNA representing three distinct phases of growth: mid-log phase (15H), late-log phase (24H), and late-stationary phase (48H) were directly compared.

2009-07-01 | E-MEXP-2015 | biostudies-arrayexpress

Transcription profiling of Bordetella bronchiseptica virulent swine isolate KM22, wild type and fhaB and prn deletion mutants

Project description:B. bronchiseptica strain KM22, a virulent swine isolate, and strains TN27 and TN28, fhaB and prn deletion mutants of KM22, respectively, were cultured in Stainer-Scholte broth and grown at 37C with shaking at 275 rpm until an OD600 of 0.8 was reached. RNA extracted from KM22 was then compared to RNA extracted from TN27 and TN28.

2008-09-20 | E-MEXP-1558 | biostudies-arrayexpress

Transcription profiling by array of Bordetella bronchiseptica strains RB50 and 761 grown in normal or high carbon dioxide conditions

Project description:Comparison of B. bronchiseptica strains RB50 and 761 grown in either atmospheric concentrations of oxygen and carbon dioxide (normal conditions) or in atmospheric levels of oxygen with the addition of 5% carbon dioxide into a sealed incubator (5% CO2 conditions).

2010-10-01 | E-MEXP-2875 | biostudies-arrayexpress

Transcription profiling of Bordetella bronchiseptica strains RM50 and 1289

Project description:B. bronchiseptica strains RB50 and 1289 were grown in SS broth, subcultured at a starting OD600 of 0.02 into 50mL of SS broth, grown at 37C for 24 hours while shaking and harvested in log phase (OD600 1.0). Total RNA was extracted with Trizol (Invitrogen, Carlsbad, CA), treated with RNase-free DNase I (Invitrogen, Carlsbad, CA) and purified using RNeasy columns (Qiagen, Valencia, CA) according to the manufacturers instructions. RNA was isolated from two independent biological replicates of strains RB50 and 1289. A 2-color hybridization format was used and dye-swap experiments were performed. For each reaction, 5ug of cDNA was fluorescently labeled. The two differentially labeled reactions to be compared were combined and hybridized to a B. bronchiseptica strain RB50 specific long-oligonucleotide microarray.

2009-01-01 | E-MEXP-1736 | biostudies-arrayexpress

Transcription profiling of yeast with Met4 cofactors deleted at different times after Met4 hyperactivation

Project description:Each category of Met4 cofactor(s) was systematically deleted and the strains were analyzed for genome-wide transcription at different times following induction of hyperactive Met4.

2009-11-30 | E-MEXP-2427 | biostudies-arrayexpress

Transcription profiling by array of Candida albicans biofilm (at 24, 32 and 40h growth) and planktonic culture to study the role of Tye7p

Project description:Role of transcription factor Tye7p in condition of biofilm (at 24, 32 and 40h growth) and planktonic culture for the yeast Candida albicans

2010-05-01 | E-MEXP-2604 | biostudies-arrayexpress

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data