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This approach confirmed the data from the microarray hybridisations, indicating that the CysR regulon consists of at least seven transcription units, by name cysIXHDNYZ, fpr2, ssuR, cg1514-cg4005, cg2810, cg3138-39, and 3372-75.
We found high correlation coefficients between repeated microarray hybridisations indicating that there is no major bias due to the amplification reaction that affects the results obtained from separate amplification reactions.
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However, the results from microarray hybridisation indicated that only low numbers of a couple of genera of Bacillus were present in a few of the waste samples (as well as species of the genera Listeria and Thermoactinomyces, which were present at lower levels).
The correlation coefficients calculated from microarray hybridisations ranged from 0.95 to 0.99 indicating that the assays were highly comparable.
While even a simple 2×2 CombiScan required 12 microarray hybridisations, the effort generated output that was highly interpretable.
For microarray hybridisations, DNA was subjected to PCR amplification of the 16S rRNA gene and Cy5-labeled.
HK carried out microarray hybridisations.
LW performed all microarray hybridisations.
Microarray hybridisations were performed in SureHyb hybridisation chambers in a DNA Microarray Hybridisation Oven (Agilent Technologies).
JBGH and BK carried out microarray hybridisations.
Altogether, 18 microarray hybridisations were performed.
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