Table 1.
Closest species match, inferred by alignment of 16S rRNA sequence to GreenGenes database a | % 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.