Table 1

Composition of stool substitute (RePOOPulate)
Closest species match, inferred by alignment of 16S rRNA sequence to GreenGenes databasea % identity to closest match Relative abundance (by biomass) in RePOOPulate formulation
Acidaminococcus intestinalis 100 +++
Bacteroides ovatus 99.52 +
Bifidobacterium adolescentis (two different strains) 99.79 ++
99.79 ++
Bifidobacterium longum (two different strains) 99.86 +++
99.16 +++
Blautia producta 96.43 +
Clostridium cocleatum 91.92 +
Collinsella aerofaciens 98.73 +
Dorea longicatena (two different strains) 99.62 +
99.60 +
Escherichia coli 99.80 +
Eubacterium desmolans 94.90 +
Eubacterium eligens 98.15 +++++
Eubacterium limosum 97.05 +
Eubacterium rectale (four different strains) 99.59 +++++
99.60 +++++
99.19 +++++
99.53 +++++
Eubacterium ventriosum 100 ++
Faecalibacterium prausnitzii 99.17 +++++
Lachnospira pectinoshiza 95.22 +
Lactobacillus casei/paracasei 99.47 +
Lactobacillus casei 99.74 +
Parabacteroides distasonis 99.45 ++
Raoultella sp. 99.40 +
Roseburia faecalis 99.65 ++
Roseburia intestinalis 100 ++
Ruminococcus torques (two different strains) 99.15 +++
99.29 +++
Ruminococcus obeum (two different strains) 94.89 +
94.69 +
Streptococcus mitisb 99.79 +

List of cultured isolates from the healthy donor, with favorable antibiotic resistance profiles (defined as vancomycin and/or imipenem sensitive, with further sensitivity to at least three of piperacillin, amoxicillin/clavulanic acid, ceftazidime, ceftriaxone, moxifloxacin and metronidazole) that were included in the stool substitute preparation. aClosest species match was inferred by alignment of the 16S rRNA sequence to the GreenGenes database [7]; note that in some cases 16S rRNA gene sequences could not resolve identity beyond genus, and that closest match does not infer definitive speciation. Shaded boxes indicate strains that are possibly novel species (and, in some cases, genera). Note that some representative strains identify with the same species by 16S rRNA gene sequence alignment, but we believe them to be different strains based on differences in colony morphology, antibiotic resistance patterns and growth rates. bIdentifies with S. mitis but is not β-hemolytic.

Petrof et al.

Petrof et al. Microbiome 2013 1:3   doi:10.1186/2049-2618-1-3

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