Bacteroides ovatus is an obligately anaerobic, non-spore-forming Gram-negative rod in the family Bacteroidaceae, and one of the most abundant Bacteroides species in the human colon. It plays a key role in the degradation of complex dietary polysaccharides, particularly xylans and pectins, contributing to short-chain fatty acid production and cross-feeding interactions within the gut microbial community. B. ovatus encodes a large number of polysaccharide utilisation loci and carbohydrate-active enzymes, and has been shown to promote immune homeostasis through the induction of regulatory T cells via specific capsular polysaccharides.
Derived from 612 genomes: 14 from RefSeq and 598 from other sources. For the derivation pipeline and the PASS / WARN / FAIL verdict model, see the methods page for qualibact-v1.0.
Applied to the full All-The-Bacteria dataset, these thresholds place 528 genomes at PASS, 59 at WARN, and 44 at FAIL (631 assessed in total). The per-tier genome lists can be downloaded below in .csv.gz format; the FAIL list also records the reason each assembly was rejected.
This table summarises the distribution of each metric, including standard deviation, mean, median, and percentiles.
A combined summary table across all species is available on the summary page.
| Metric | Distribution | n | Mean | SD | Min | Q1 | Median | Q3 | Max |
|---|---|---|---|---|---|---|---|---|---|
| N50 | non-normal | 598 | 215,851 | 91,732 | 25,610 | 147,848 | 201,356 | 269,821 | 656,385 |
| no_of_contigs | non-normal | 598 | 143.33 | 69.83 | 57 | 94.25 | 126 | 171 | 622 |
| longest | non-normal | 598 | 549,159 | 193,734 | 108,540 | 411,634 | 524,950 | 657,810 | 1,092,850 |
| GC_Content | non-normal | 598 | 41.9 | 0.2 | 41.47 | 41.76 | 41.88 | 42.04 | 42.49 |
| Completeness_Specific | non-normal | 598 | 99.97 | 0.09 | 98.05 | 99.98 | 99.99 | 100 | 100 |
| Contamination | non-normal | 598 | 1.25 | 0.69 | 0.08 | 0.8 | 1.07 | 1.68 | 5.2 |
| Total_Coding_Sequences | non-normal | 598 | 5,402 | 313.52 | 4,661 | 5,190 | 5,364 | 5,562 | 6,352 |
| Genome_Size | non-normal | 598 | 6,798,055 | 285,167 | 6,162,817 | 6,623,414 | 6,740,717 | 6,947,123 | 7,813,299 |
Full statistics including KS test vs RefSeq and Wasserstein distance are in the downloadable summary.csv.
Derived from 612 genomes including 14 RefSeq references
Both Fail and Warn bands shown as the published rounded values — easier to cite and consistent across the species page, CSV downloads, and downstream QC tools.
| Metric | Fail below | Warn below | Warn above | Fail above |
|---|---|---|---|---|
| Genome_Size | 6,200,000 | 6,300,000 | 7,700,000 | 7,700,000 |
| GC_Content | 41.4 | 41.5 | 42.3 | 42.5 |
| Total_Coding_Sequences | 4,700 | 4,800 | 6,300 | 6,400 |
| Completeness_Specific | 92 | 99 | - | - |
| Contamination | - | - | 3 | 4 |
| N50 | 46,000 | 78,000 | - | - |
| no_of_contigs | - | - | 320 | 430 |
| longest | - | - | - | - |
How to read this: a value between the two warn columns is typical for this species and passes QC. A value between a warn column and the corresponding fail column is borderline — worth a manual look but not an outright failure. A value outside the fail columns is unusual enough to fail QC.
The published rounded thresholds (the values in the table above) were applied to the full AllTheBacteria-2024-08 set for this species. Each row carries the per-metric verdict and, where applicable, the reason a genome was demoted to WARN or FAIL. Files are gzipped CSV.
This plot shows the relationship between the number of coding sequences (CDS) and genome size — how the number of genes scales with assembly length. The relationship should be roughly linear: as genome size increases, the number of coding sequences should rise proportionally. A secondary trend line or non-linear behaviour can indicate either bona fide sub-populations within the retained genomes (e.g. distinct sub-clades) or residual contamination that survived filtering.
Histogram comparing SRA to RefSeq; each bar shows genome density across value ranges to highlight shifts, peaks, or outliers.
QQ (quantile-quantile) plot comparing SRA and RefSeq. Points along the diagonal follow the expected distribution; deviations indicate skew, outliers, or other systematic differences.
A table of complete RefSeq genomes for Bacteroides ovatus used to calibrate this scheme. The file includes accessions, some sample information, genome size, GC content, and other key metrics.
These plots show genomes before and after filtering to highlight the outliers removed:
The filtered distribution shown here may not exactly match the published thresholds because additional rounding and curator adjustments are applied on top.
