ena-PROJECT-UMCU-01-02-2013-07:22:43:690-12
Whole genome sequence of Staphylococcus aureus S2395
Background. The change of the bacteria from colonizers to pathogens is accompanied by a drastic change in expression profiles. These changes may be due to environmental signals or to mutational changes. We therefore compared the whole genome sequences of a set of S. aureus isolates from the same patient.   Methods. The isolates of the pair (S2395 infection/S2396 carrier) were obtained within <30 days of each other with the carrier isolate first and caused skin infection. Sequencing was performed using Illumina  technology. The isolates are then compared for differences in gene content and SNPs using Kodon. SNPs are excluded when they are present within 50 bp of the end of a contig;  are within 10 bp of a GGC motif; are present in multiple identical sequences. for the remaining potential SNPs the reads are mapped against the sequence. Regions <1 kb with =>3 mutations are sequenced conventionally.
Background. The change of the bacteria from colonizers to pathogens is accompanied by a drastic change in expression profiles. These changes may be due to environmental signals or to mutational changes. We therefore compared the whole genome sequences of a set of S. aureus isolates from the same patient.   Methods. The isolates of the pair (S2395 infection/S2396 carrier) were obtained within <30 days of each other with the carrier isolate first and caused skin infection. Sequencing was performed using Illumina  technology. The isolates are then compared for differences in gene content and SNPs using Kodon. SNPs are excluded when they are present within 50 bp of the end of a contig;  are within 10 bp of a GGC motif; are present in multiple identical sequences. for the remaining potential SNPs the reads are mapped against the sequence. Regions <1 kb with =>3 mutations are sequenced conventionally.