Out of 539, 368 unique sequences aligned with the full NucS structure-based profile (Supplementary Fig. 5, Supplementary Data 3), 422 sequences containing the C-terminal region (NucS-CT) (Supplementary Fig. 6), 370 sequences containing the N-terminal region (NucS-NT) (Supplementary Fig. 7) were run.
We identified 246 potential replication origins that include 214 out of the 220 origins detected on the replication timing profile (supplementary table S2, Supplementary Material online).
In addition, SCt highly resembles SAp functionally, as determined by analysis of a COG degradation profile (supplementary fig. S1, Supplementary Material online).
The phylogenetic analysis clustered the outbreak isolates together even though the PFGE profile (supplementary fig. S1, Supplementary Material online) is slightly different (XbaI pattern JF6X01.0032, JF6X01.0058; BlnI pattern JF6A26.0017 and JF6A26.0076).
During this "single origin" regime, it is possible to resolve some adjacent origins that appear as a single peak in the replication timing profile (supplementary fig. S7, Supplementary Material online).
All treatment groups had improvements from baseline in mean nine-point SMPG profile (Supplementary Figure 1, see section on supplementary data given at the end of this article).
We saw no other gross change in the high-performance liquid chromatography (HPLC) profile (Supplementary Figure S8A), and using HPLC and mass spectrometry we also excluded a rise in NR (Supplementary Figure S8A(b and c) and B).
Supplementary Figure 8 Profile and number of MMs in LysMCre/+ Ifngr1fl/fl mice.
Visual inspection of large genomic regions did not show gross alterations of the DNA replication profile (Supplementary Figure S4).
Based on drug resistance profile (Supplementary Table 1), U3790 strain was deemed as Extremely Drug Resistant (XDR) isolate as proposed earlier for classification of drug resistant strains20.
In some cases, TSS regions were divided into several pieces because of the shape of −TAP profile (Supplementary Fig. S14; merge false-split).
