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TranscriptomicsComparative analysis of bacterial transcriptome using DNA microarray and next generation sequencing technologies
Validation of Lactobacillus plantarum WCFS1 transcriptome profile using RNA sequencing (direct cDNA sequencing and 3'-UTR sequencing) in comparison with DNA microarray as a reference platform. Transcriptome analysis was performed on total RNA and enriched mRNA of L. plantarum WCFS1 grown in CDM or M...
ORGANISM(S): Lactobacillus plantarum 
2012-07-09 | E-GEOD-35754 | biostudies-arrayexpress
TranscriptomicsGenome-wide prediction and validation of M-OM-^C70 promoters in Lactobacillus plantarum WCFS1
Background: In prokaryotes, sigma factors are essential for the targeting of the transcription machinery to promoters. Various sigma factors have been described that recognize and bind to specific DNA sequence motifs in promoter sequences. The canonical sigma factor M-OM-^C70 is commonly involved in...
ORGANISM(S): Lactobacillus plantarum WCFS1 
2012-03-28 | E-GEOD-36898 | biostudies-arrayexpress
TranscriptomicsWT vs KO of lp_2991 comparison
A mutant of L. plantarumWCFS1 (deletion of lp_2991) was compared with the wildtype grown in standard MRS broth. Cells were sampled at OD1 for mRNA extraction. Knockout vs wildtype. Technical replicates (same mRNA isolation) used for a dye swap.
ORGANISM(S): Lactobacillus plantarum WCFS1 
2010-04-01 | E-GEOD-20515 | biostudies-arrayexpress
TranscriptomicstagF1-F2 and dlt mutant study
Several strains of Lactobacillus plantarum are marketed as health-promoting probiotics. The role and interplay of specific cell-wall compounds like wall- and lipo-teichoic acids (WTA and LTA) in probiotic-host interactions remains obscure. Through genome mining and mutagenesis we constructed derivat...
ORGANISM(S): Lactobacillus plantarum 
2011-05-01 | E-GEOD-27683 | biostudies-arrayexpress
TranscriptomicsAerobic cultivation vs Respiratory conditions
The effect of respiration (aerobic cultivation in the presence of heme and vitamin K2) was compared with unsupplemented aerobic cultivation with Lactobacillus plantarum. Two-condition experiment, aerobic vs respiring cells. Biological replicates: 3 aerobic cultures, 3 respiring cultures, independent...
ORGANISM(S): Lactobacillus plantarum 
2010-05-16 | E-GEOD-18432 | biostudies-arrayexpress
Transcriptomicscitrate vs nitrate Reducing cultures
The effect of nitrate reduction (anaerobic cultivation in the presence of heme, vitamin K2 and nitrate) was compared with anaerobic cultivation supplemented with citrate (Lactobacillus plantarum). The medium was chemically defined medium with mannitol as main carbon source Two-condition experiment, ...
ORGANISM(S): Lactobacillus plantarum 
2010-05-16 | E-GEOD-18339 | biostudies-arrayexpress
TranscriptomicsMolecular and physiological adaptations of Lactococcus lactis at near-zero growth rates
This paper describes the molecular and physiological adaptations of Lactococcus lactis during the transition from a growing to a near-zero growth state using carbon-limited retentostat cultivation. Metabolic and transcriptomic analyses revealed that metabolic patterns shifted between homolactic and ...
ORGANISM(S): Lactococcus lactis 
2014-01-01 | E-GEOD-51494 | biostudies-arrayexpress
TranscriptomicsLactate Stress in L. plantarum WCFS1
Cultures were grown untill an optical density of 1.0. Cells were subsequently stressed with 2000 mM Na-lactate and samples were taken in time (15, 30, and 60 minutes). Samples were hybridized against a reference sample taken at t=0, just before addition of lactate. Biological duplicate was performed...
ORGANISM(S): Lactobacillus plantarum 
2010-05-16 | E-GEOD-18354 | biostudies-arrayexpress
TranscriptomicsThe impact of Lactobacillus plantarum sortase on target-protein sorting, gastrointestinal persistence and host immunomodulation
Sortases are transpeptidase enzymes that couple surface proteins to the peptidoglycan of Gram-positive bacteria. Several sortase-dependent proteins (SDPs) have been identified that are crucial for bacterial pathogenesis and, although less frequently, for the physiology of non-pathogenic bacteria. We...
ORGANISM(S): Lactobacillus plantarum 
2012-01-12 | E-GEOD-34999 | biostudies-arrayexpress
TranscriptomicsIdentification of genes regulated by L-lactate and by DL-lactate in Lactobacillus plantarum
L. plantarum is known to possess an L-lactate inducible lactate racemase activity (Goffin et al. 2005. J. Bacteriol. 187:6750). In the present study, microarrays were used in order to identify all genes that are up-regulated by L-lactate, but not by a racemic mixture of D- and L-lactate. A mutant of...
ORGANISM(S): Lactobacillus plantarum 
2013-07-01 | E-GEOD-43518 | biostudies-arrayexpress
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