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The clone sequence data showed that different bacterial groups were selected for different phosphorus treatments.
The 12 most frequent bacterial species or bacterial groups were selected for analysis of changes in species distribution over time.
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A member of both of these bacterial groups was selected to test the relative competitive abilities of B. longum DJO10A and its in vitro adapted derivative, strain DJO10A-JH1.
Four groups were selected.
Three groups are selected to generate traffic.
First, the bacterial species tree is subdivided into small taxonomic groups, and a subset of 5 15 representative genomes from each group is selected.
Sows were fed a diet without (n = 11) or with (n = 10) 3% inulin, and selected bacterial groups were determined in their faeces ante and post partum.
The qPCR cycling, the oligonucleotide sequences of primers and probe, and respective annealing temperatures for selected bacterial groups were described previously.
qPCR assays for selected bacterial groups were performed to confirm pyrosequencing results and/or to quantitate bacterial groups that are typically present at very low abundance or underrepresented in 16 S rRNA gene sequencing data based on the authors' experience from previous studies (i.e., Bifidobacterium spp., Faecalibacterium spp).
Several bacterial groups were also validated from artificially contaminated samples.
All bacterial groups were represented.
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