New three-stage in vitro model for infant colonic fermentation with immobilized fecal microbiota
Bibliographic record
Abstract
In the paper by Cinquin et al. (2006), some footnote symbols were reproduced incorrectly in Tables 2 and 3, and there was also an error in the symbols in the legend to Fig. 2. Bacterial populations measured by plate counts and fluorescence in situ hybridization in effluent samples from the three reactor stages at the pseudo-steady state and in fecal inocula for fermentation F1 (13 and 10 g L−1 of carbohydrate concentrations) and F2 (10 g L−1 of carbohydrate concentrations) FISH counts significantly different from plate counts at the significance level: *P<0.05, **P<0.005, ***P<0.0005. Effects of fermentation section (PCS, TCS and DCS) on bacterial populations: values with different letters (capitals for plate counts and small letters for FISH) are significantly different by Tukey-Kramer HSD test (P<0.05). Data are mean values calculated for the last 4 and 2 days for each fermentation period for plate counts and FISH, respectively. PCS, proximal colon simulation; TCS, transverse colon simulation; DCS, distal colon simulation; PC, plate counts; nd, not determined; ND, not detected, value below the detection threshold of the FISH method which was 6.8 Log 10 cell number per mL for effluent samples and 7.5 Log 10 cell number per g for wet feces. Metabolite concentrations and ratios in effluent samples from the three reactor stages at the pseudo-steady state and fecal inocula for fermentation F1 (13 and 10 g L−1 of carbohydrates) and F2 (10 g L−1 of carbohydrates) SCFA concentrations in F1 (10 g L−1 total carbohydrate) significantly different from SCFA concentrations in F1 (13 g L−1 total carbohydrate) at the significance level: *P<0.05, **P<0.005, ***P<0.0005. Effects of fermentation section (PCS, TCS and DCS) on metabolites concentrations: values with different letters are significantly different by Tukey-Kramer HSD test (P<0.05). ‡Pooled SEM, pooled standard errors of the mean. Data are mean values calculated for the last 4 days of each period. PCS, proximal colon simulation; TCS, transverse colon simulation; DCS, distal colon simulation; PC, plate counts; nd, not determined; ND, not detected, value below the detection threshold of the HPLC method (2 mM). Viable bacterial counts of total and facultative anaerobe populations in proximal (PCS) and distal (DCS) effluent from fermentation F2 with total carbohydrate concentration of 10 g L−1: total anaerobes (), bifidobacteria (), bacteroides (), clostridia (), facultative anaerobes (), Gram+cocci (), staphylococci (), coliforms (), lactobacilli (), pH (—). RBC (repeated batch cultures) corresponding to beads precolonization. Tables 2 and 3 and Fig. 2 are reproduced correctly here. The publishers apologize for this error.
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How this classification was reachedexpand
Full frame machine prediction
Teacher imitationNot calibrated prevalence, not ground truth. Human validation pending. The Gemma side is a direct model label for every work in the frame, read from the title-only record. The Codex side is a classifier learned from the 10,348 direct Codex labels and calibrated to design-weighted sample rates; fields without enough sample support carry no Codex call. Candidate is the union of the two sides; consensus is their intersection. These outputs are machine_predicted_unvalidated and are not human labels.
Distilled classifier scores by category (both heads)
| Category | Codex | Gemma |
|---|---|---|
| Metaresearch | 0.001 | 0.000 |
| Meta-epidemiology (narrow) | 0.001 | 0.001 |
| Meta-epidemiology (broad) | 0.002 | 0.002 |
| Bibliometrics | 0.001 | 0.001 |
| Science and technology studies | 0.000 | 0.000 |
| Scholarly communication | 0.001 | 0.001 |
| Open science | 0.002 | 0.001 |
| Research integrity | 0.001 | 0.001 |
| Insufficient payload (model declined to judge) | 0.001 | 0.001 |
Machine scores (provisional)
The two teacher heads of the student model, read on this work. A score orders the frame for review; it never asserts a category, and the validation status ships verbatim with every row.
Baseline scores from an immature model (maturity gate not passed, 7 training rounds). Scores rank; they never assert a category.
score_only:v0-immature-baseline · verbatim from the scoring run: score_only means the number may rank works, and no category label ships from itClassification
machine, unvalidatedMachine predicted; a candidate call from one source (direct Gemma or distilled Codex), not a consensus.
How this classification was reached, model by model and score by score, is at the end of the page under "How this classification was reached".