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Explanation of fields used in the table
| Shorthand | Longhand | Significance |
|---|---|---|
| Net Effect | Net health effect on people | Takes into account reports of infections, effect on immune response and general benefits to humans and the HGM. |
| BAuA | The Federal Institute for Occupational Safety and Health (Germany) | BAuA produced a list of estimated hazards and risks associated with known bacteria. About 65% of the Pubiome database matches these entries. Severity ranges from 1 (safe) to 4 (very dangerous). |
| Risk Notes | BAuA risk notes | Notes on the ability of the bacterium to cause health issues, including transmission, opportunism, and infectivity. |
| Coloniser | Colonises lower intestine | Whether the organism can colonise the bowel and/or the lower small intestine, at least temporarily. |
| Symbiosis | Symbiotic relationship | Whether the organism is a mutualist, commensal, parasite or pathogen. |
| Pathogenic | Pathogenicity | What the organism has been labelled in the literature. |
| Source | Source and/or habitat | Where the bug has been isolated from. |
| Studies | Publications of gut microbiome communities | Reports of lists of bacteria based on sample cultures, assignment of S16 sequencing or shotgun genetic sequencing fragments. |
| O2 Tolerance | Ability to tolerate oxygen (classified as strictly aerobic, aerobic, facultative anaerobic, microaerobic, aerotolerant, anaerobic or strictly anaerobic). | |
| Mobility | Ability to independently move against a 'current', either through swimming (flagella), twitching, gliding, or pili action. | |
| Morphology | The predominant shape of the organism. | |
| Spore | Endospore or exospore | Whether the organism produces internal spores, external spores or none. |
| DNA GC (%) | Proportion of GC content in DNA (%) | The percentage of the guanine:cytosine pair in bacterial DNA. |
| Bile Tolerance (%) | Ability to cope with presence of bile | Some bacteria are sensitive to the emulsifying effects of bile, which disrupts membranes, denatures proteins and chelates iron and calcium ions (Urdaneta2017). Evolved commensals (and pathogens) have developed mechanisms to cope with this potentially lethal substance. |
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