Bibliographic record
Abstract
Global regulators each control hundreds of genes in bacteria, and it is still unclear how these regulators evolve, especially considering that gene regulation changes more rapidly than the regulated genes themselves.Leucine-responsive regulatory protein (Lrp) is a global regulator in enteric bacteria, controlling both metabolic and virulenceassociated genes.Lrp orthologs are found among both Bacteria and Archaea.Surprisingly, even within the phylum γ-Proteobacteria, Lrp is a global regulator in some orders and a local regulator in others.This raises important questions about the evolution of Lrp functions.The way global regulators function is crucially important to bacterial physiology.This thesis presents studies on the evolution and regulation pattern of Lrp, carried out with the goal of providing insights into global regulators more generally.Two independent studies of Lrp were carried out.The first compared Lrp sequences from four bacterial orders within the γ-Proteobacteria: Enterobacteriales, Vibrionales, Pasteurelalles, and Alteromonadales.AsnC was also analyzed in parallel for comparison, as it is a paralog of Lrp that in all known cases is a local regulator controlling a small number of genes.As expected, Lrp and AsnC sequences formed two
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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 | 0.001 |
| Meta-epidemiology (narrow) | 0.001 | 0.000 |
| Meta-epidemiology (broad) | 0.001 | 0.000 |
| Bibliometrics | 0.001 | 0.000 |
| Science and technology studies | 0.000 | 0.001 |
| Scholarly communication | 0.001 | 0.001 |
| Open science | 0.001 | 0.002 |
| Research integrity | 0.001 | 0.002 |
| Insufficient payload (model declined to judge) | 0.003 | 0.002 |
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".