Figure 4

Coverage of bacterial reference genomes by metagenomic reads originating from intraocular fluid of endophthalmitis patients. For each individual patient, the metagenomic shotgun reads of the most abundant microbial organism were extracted at genus-level and mapped as unpaired reads using BBmap suite to the respective reference genome sequence in the database. For patients C1 and I7 a particular microbial organism could not be assigned confidently in the metagenomics analysis and these patients are regarded as “sterile” endophthalmitis cases. The outer most circle displays all sequences of the reference genome (including short contigs and plasmids). The orange and blue inner circles display the depth of mapped reads originating from the vitreous specimens that were extracted with the QIA and UCP DNA extraction methods, respectively. In the two cases where metagenomics analysis and culture results from the hospital were not identical regarding the most abundant organism (patients C5 and I3), we examined the reads via genome mapping for all organisms detected in the metagenomics analysis. The most relevant abundant organism is shown here and the additional plots, as well as information about the maximum read depth for all detected organisms, is available from https://figshare.com/s/c2ce2d32daf25db54904.