Stars of the terrestrial deep subsurface: A novel ‘star‐shaped’ bacterial morphotype from a South African platinum mine
Bibliographic record
Abstract
We study structure and function. Credit of course, goes to TJB, for it is from him that I inherited the habit of personifying bacteria and attempting to think like a bacterium, to better understand what they do. This work has taken us to wonderful places such as Yellowstone National Park, The Canadian Arctic, Australia, and the deep subsurface in the Republic of South Africa, the subject of this manuscript. From their perspective, why they do what they do is simple, to live. How they do it, is more challenging for us to understand, so it is something that we continue to work on. The marvel of bacteria is something that I, in turn, try to pass on to my students where I hope it will find fertile ground and provide as much enjoyment as it has given me - G. Southam. A biofilm (mine-slime) collected from the Northam Platinum mine in the Republic of South Africa contained a new bacterial morphotype. Mine-slimes are generally considered to be microbiologically compromised, subsurface samples due to the likelihood of contamination from the mining environment. However, careful examination of this biofilm demonstrated that it possessed a diverse bacterial population that included organisms that are consistent with the deep subsurface, suggesting that mine-slimes represent an underutilized, 'natural' bacterial enrichment. Using scanning and transmission electron microscopy, a novel, branching, filamentous, star-shape bacterium (in cross section) has been found, adding a new bacterial morphotype and strategy that bacteria have demonstrated to increase their surface area to volume ratio.
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 | 0.001 | 0.001 |
| Science and technology studies | 0.001 | 0.000 |
| Scholarly communication | 0.001 | 0.000 |
| Open science | 0.000 | 0.001 |
| Research integrity | 0.001 | 0.001 |
| Insufficient payload (model declined to judge) | 0.001 | 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".