Additional file 6 of A minimized symbiotic gene set from the 1.68 Mb pSymB chromid of Sinorhizobium meliloti reveals auxiliary symbiotic loci
Bibliographic record
Abstract
Additional file 6: Fig. S4. Symbiotic phenotype of key strains on the alternate S. meliloti host Melilotus officinalis (yellow sweet clover) and the consistent nodule morphology of exclusively Fix− SmB1.0 nodules. (A) The shoot dry weight of M. officinalis inoculated with SmB1.0 was consistently Fix− and indistinguishable from un-inoculated controls (red). This appears to be due to the simultaneous removal of the B301 and B307 regions as seen when M. officinalis is inoculated with SmB1.0+ pSymBΔB302ΔB307. The addition of pSymBΔB302 to SmB1.0 was able to restore the symbiosis wild-type levels as was seen with alfalfa (light blue). SmB2.0 was Fix+ with M. officinalis at a level below that seen with alfalfa (orange). Mean shoot height differences were assessed using one-way ANOVA followed by a Tukey multiple comparison test. (B-D) Wild-type-inoculated nodules of M. officinalis 5 weeks post-inoculation displayed typical development with highly elongated bacteroids. (E-J) SmB1.0-inoculated nodules of M. officinalis 5 weeks post-inoculation exhibited consistent early arrest of nodule development (E-F, further magnified in G) with poorly elongated bacteria (H). Proximal part of the nodule was often devoid of infected cells and possessed numerous infection threads (I-J). Nodules were fixed and stained with the DNA-binding dye SYTO13. Images are representative of a minimum of five independent nodules examined. Scale bars: (B, E-G) 100 μm; (C-D, H-J) 25 μm. Arrowheads point to examples of bacteria in infection threads.
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How this classification was reachedexpand
Full frame distilled prediction
Teacher imitationNot calibrated prevalence, not ground truth. Human validation pending. Learned from the 10,348 direct Codex labels and 10,348 direct Gemma labels. Candidate is the union of thresholded teacher heads; consensus is their intersection. These outputs are machine_predicted_unvalidated and are not human labels or direct frontier model labels.
Codex and Gemma teacher scores by category
| Category | Codex | Gemma |
|---|---|---|
| Metaresearch | 0.000 | 0.037 |
| Meta-epidemiology (narrow) | 0.000 | 0.000 |
| Meta-epidemiology (broad) | 0.001 | 0.000 |
| Bibliometrics | 0.000 | 0.001 |
| Science and technology studies | 0.001 | 0.000 |
| Scholarly communication | 0.000 | 0.000 |
| Open science | 0.002 | 0.000 |
| Research integrity | 0.001 | 0.001 |
| Insufficient payload (model declined to judge) | 0.987 | 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; both teacher heads agree on what is shown here.
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".