Candida auris is an emerging multidrug-resistant yeast first described in 2009, belonging to the family Metschnikowiaceae within the phylum Ascomycota. It causes healthcare-associated outbreaks of invasive candidiasis with high mortality, persists on skin and environmental surfaces, and is often resistant to fluconazole, amphotericin B, and sometimes echinocandins. Genomic analyses have revealed at least five distinct phylogeographic clades that emerged independently across continents, with relatively compact genomes harbouring clade-specific antifungal resistance mutations and virulence factor repertoires.
For detailed methods on how these thresholds were calculated, please see Methods. The suggested thresholds are in the table below. These thresholds are based on 59 genomes from RefSeq and 0 genomes from other sources.
These tables provide a summary of the distribution of each metric, including SDeviation, Mean, Median, and Percentiles.
| Metric | Lower bound | Upper bound |
|---|---|---|
| Genome_Size | 12,000,000 | 12,400,000 |
| GC_Content | 45.00 | 46.00 |
| Total_Coding_Sequences | 10,300 | 12,000 |
| Completeness_Specific | 100.0 | - |
| Contamination | - | 93.00 |
| no_of_contigs | - | 110.0 |
| N50 | 435,000 | - |
This plot shows the relationship between the number of coding sequences (CDS) and genome size. It helps to visualize how genome size correlates with the number of genes. This should be linear – as genome size increases, the number of coding sequences should also increase. Any secondary trend lines or non-linear behaviour indicates bona fide separate populations within the retained genomes or some remaining contaminant.
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 Candida auris used to calibrate this scheme. The file includes accessions, some sample information, genome size, GC content, and other key metrics.