Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

Transcriptional analysis of prebiotic uptake and catabolism by Lactobacillus acidophilus NCFM

ABSTRACT: The global transcriptome of the wild type Lactobacillus acidophilus NCFM strain (NCK56) was measured during exponential growth on 11 prebiotic carbohydrates and glucose to identify the specific gene cluster differentially upregulated in response to each carbohydrate. Oligoarray hybridization experiments were performed to compare the differential transcriptional profiles of the NCK56 at the early-log (OD600nm 0.3-0.5) phase when cultured in semi-synthetic medium (SSM, Barrangou et al., 2003 PNAS. 100:8957-8962, supplemented with a range of 1% (w/v) carbohydrates, at 37 M-BM-0C and harvested by centrifugation and flash freezing. A total of 12 NCK56 cultures were prepared by growing in SSM supplemented with each one of the 12 tested carbohydrates. Each culture was grown in fresh carbohydrate supplemented SSM with a 1% inoculum from an overnight culture for a total of five subcultured passages. Aliquots of cells were collected at OD600nm of 0.3-0.5 (early log-phase) for total RNA extraction and cDNA synthesis. Labeled cDNA samples from NCK56 were coupled with mono-reactive Cy3 and Cy5 dyes (GE Healthcare Bio-Sciences Corp., Piscataway, NJ), for two technical replicates on each carbohydrate (e.g. cy3-GOS and cy5-GOS). Comparative hybridizations were performed on samples representing two different carbohydrate cultures at same growth phases labeled with either cy3 or cy5 using a loop design for 12 hybridizations.

ORGANISM(S): Lactobacillus acidophilus NCFM

SUBMITTER: Todd Klaenhammer

PROVIDER: E-GEOD-35968 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Transcriptional analysis of prebiotic uptake and catabolism by Lactobacillus acidophilus NCFM.

Andersen Joakim Mark JM Barrangou Rodolphe R Hachem Maher Abou MA Lahtinen Sampo J SJ Goh Yong-Jun YJ Svensson Birte B Klaenhammer Todd R TR

PloS one 20120919 9

The human gastrointestinal tract can be positively modulated by dietary supplementation of probiotic bacteria in combination with prebiotic carbohydrates. Here differential transcriptomics and functional genomics were used to identify genes in Lactobacillus acidophilus NCFM involved in the uptake and catabolism of 11 potential prebiotic compounds consisting of α- and β-linked galactosides and glucosides. These oligosaccharides induced genes encoding phosphoenolpyruvate-dependent sugar phosphotra ...[more]

PMID: 23028535

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Dataset Information

Transcriptional analysis of prebiotic uptake and catabolism by Lactobacillus acidophilus NCFM

Publications

Transcriptional analysis of prebiotic uptake and catabolism by Lactobacillus acidophilus NCFM.

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