Characterization of Redundant Vibrio cholerae Riboflavin Biosynthetic Pathway Genes
Bibliographic record
Abstract
Bacteria often possess elaborate riboflavin provision pathways with puzzling roles in physiology. Vibrio cholerae has a riboflavin biosynthetic pathway (RBP) with putative genetic redundancy. Particularly, this species contains a putative ribBX (originally annotated as ribBA) fusion gene on its main RBP operon in addition to monocistronic ribB and ribA genes. In this study, sequence analysis and heterologous complementation experiments were performed to evaluate the functions of RibBX, RibB and RibA of the RBP of V. cholerae. The results indicate that the RibB dihydroxy-butanone phosphate synthase function is provided by both the RibBX hybrid and the orphan RibB. RibBX homologs have been described in other members of the proteobacteria. These proteins conserve RibB activity, but the exact function of the RibX domain remains unelucidated. Here, structural comparisons of the RibB and RibX domains of RibBX homologs in proteobacteria evidenced structural variation in the RibX domain across bacteria, suggesting differential functions. Moreover, this analysis identified the carriage of one extra domain putatively involved in genetic regulation in a group of orthologs within the Neisseriaceae family. Together, the results show that in V. cholerae, RibB activity is provided by the presence of monofunctional RibB and a RibBX hybrid. Notably, the function of the RibX domains fused to RibB may vary across bacteria and some hybrids include yet extra functional domains.
Fetched live from OpenAlex and de-inverted. Abstracts are not stored in this database: the inverted indexes are 8.6 GB of the frame’s 9.3 GB of text, and the host has 13 GB free.
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 | 0.000 | 0.000 |
| Meta-epidemiology (narrow) | 0.000 | 0.000 |
| Meta-epidemiology (broad) | 0.000 | 0.000 |
| Bibliometrics | 0.000 | 0.000 |
| Science and technology studies | 0.000 | 0.000 |
| Scholarly communication | 0.000 | 0.000 |
| Open science | 0.000 | 0.000 |
| Research integrity | 0.000 | 0.001 |
| Insufficient payload (model declined to judge) | 0.000 | 0.000 |
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".