Article Figures & Data
Figures
- FIG. 1.
Dendrogram representation of the TTGE profiles of 16S rRNa gene and rRNA amplicons (obtained using primers for the V6 to V8 regions) from fecal samples of nine UC patients and nine healthy controls. The dendrogram represents a statistically optimal representation of the similarities between TTGE profiles based on the matrix of Pearson correlation coefficients and by applying the unweighted pair group method using arithmetic averages. RNA- and DNA-derived TTGE profiles from a given patient did not cluster together, except for two patients with UC (UC1 and UC7). Samples tended to cluster on the basis of their clinical origin (UC versus control).
- FIG. 2.
TTGE of 16S rRNA gene and rRNA amplicons (obtained using primers for the V6 to V8 regions) from fecal samples from three UC patients and one control. Right side: similarity indexes (%) of paired samples. Black arrow: band present in the DNA-derived but not the RNA-derived TTGE profile. White arrow: band present in the RNA-derived but not the DNA-derived TTGE profile.
- FIG. 3.
TTGE of 16S rRNA amplicons (obtained using primers for the V6 to V8 regions) from fecal samples from nine UC patients and nine controls. One band was present for eight UC patients (framed) and only two controls.
Tables
- TABLE 1.
Characteristics of six bands excised and sequenced after fecal intraindividual comparisons (RNA- versus DNA-derived TTGE profiles)a
Subject TTGE profile of origin Best match in GenBank database % Identity (BlastN) UC2 RNA Neisseria flava 98 UC5 DNA Butyrate-producing bacterium T2-145 99 UC6 DNA Butyrate-producing bacterium A2-175 99 UC6 DNA Butyrate-producing bacterium SM6/1 99 UC6 RNA Escherichia coli 99 UC1 DNA Acidaminococcus sp. 100 ↵ a All six bands were specific for either the RNA- or DNA-derived TTGE pattern.
- TABLE 2.
Characteristics of six bands excised after interindividual comparisons of fecal RNA-derived TTGE profilesa
Band Subject TTGE profile Best match % Identity (BlastN) 1 UC1 RNA Escherichia coli, Escherichia albertii, Escherichia fergusonii, Shigella boydii, Shigella flexneri, Photorhabdus luminescens 100 2 UC2 RNA Escherichia coli, Shigella boydii, Salmonella serovar Typhi, Shigella sonnei 99 3 UC4 RNA Escherichia coli, Escherichia albertii, Escherichia fergusonii, Shigella boydii, Photorhabdus luminescens 98 4, 5 UC6, UC8 RNA Escherichia coli, Shigella boydii, Salmonella serovar Typhi, Shigella sonnei 100 6 UC9 RNA Escherichia coli, Shigella boydii, Salmonella serovar Typhi, Shigella dysenteriae 100 ↵ a All six bands were observed at the same level in the TTGE profile of each of the six subjects.
