GEO DataSets

(Submitter supplied) 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.

Organism:

Lactobacillus acidophilus NCFM

Type:

Expression profiling by array

Platform:

GPL7374

12 Samples

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(Submitter supplied) A L. acidophilus NCFM mutant (NCK1909) carrying an in-frame deletion within the upp gene (LBA0770) was constructed as a background host for a newly developed upp-based counterselectable gene replacement system for L. acidophilus. Since the NCK1909 mutant serves both as the host for genetic exchange and the reference strain for subsequent phenotypic studies of deletion mutants that will be generated from the counterselective gene replacement system, comparative gene expression study was performed to ensure the genotype of NCK1909 is representative of the NCFM parent strain. more...

Organism:

Lactobacillus acidophilus NCFM

Type:

Expression profiling by array

Platform:

GPL7426

4 Samples

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(Submitter supplied) Lactic acid bacteria have been used as starter strains in the production of fermented dairy products for centuries. Lactobacillus acidophilus is a widely recognized probiotic bacteria commonly added to yogurt and used in dietary supplements. In this study, a whole genome microarray was employed to monitor gene expression of L. acidophilus cells propagated in 11% skim milk (SM) during early, mid and late logarithmic phase, and stationary phase. more...

Organism:

Lactobacillus acidophilus NCFM; Lactobacillus acidophilus

Type:

Expression profiling by array

Platform:

GPL1401

6 Samples

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(Submitter supplied) Lactobacillus acidophilus NCFM is an industrially important strain used extensively as a probiotic culture. Tolerance of the presence of bile is an attribute important to microbial survival in the intestinal tract. A whole-genome microarray was employed to examine the effects of bile on the global transcriptional profile of this strain, with the intention of elucidating genes contributing to bile tolerance. more...

Organism:

Lactobacillus acidophilus; Lactobacillus acidophilus NCFM

Type:

Expression profiling by array

Platform:

GPL1401

2 Samples

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(Submitter supplied) A total of 1,823 oligos (97.8% of the total number of genes in the chromosome) were spotted on glass slides. Each oligo (representing each gene) was spotted 4 times in a random pattern. To assess the reliability of the platform, we conducted a microarray hybridization experiment labeling cDNA from the same RNA sample with Cy3 and Cy5. Hybridization data revealed a linear correlation (R value) in the relative expression level of 0.98 of 11,520 spots Protocol: OligoArray 2.1 (Rouillard et al., 2003) was selected based on literature, availability (free software for academic use), and user-friendly accessibility for oligonucleotide design. more...

Organism:

Lactobacillus acidophilus NCFM

1 Series

12 Samples

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(Submitter supplied) A total of 1,823 oligos (97.8% of the total number of genes in the chromosome) were spotted on glass slides. Each oligo (representing each gene) was spotted 6 times in a random pattern. Protocol: OligoArray 2.1 (Rouillard et al., 2003) was selected based on literature, availability (free software for academic use), and user-friendly accessibility for oligonucleotide design. The oligonucleotide length range was set to 60-70 nt, the melting temperature (Tm) range to 80-96°C and the GC content range to 25-50% according to the GC content of the NCFM genome (34.71%). more...

Organism:

Lactobacillus acidophilus NCFM

1 Series

4 Samples

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