MALDI-TOF MS data A total of 46 spectra representing the 23 strains of O. anthropi were generated with the automated MALDI-TOF MS measurement. Protein mass patterns were detected in the mass range 2000–20,000 Da, were matched against Bruker Daltonics reference library, which included three O. anthropi ATCC strains, and resulted correctly identified at the species level (log score ≥ 2). In order to create reliable MSPs for phylogenetic analysis,
we measured a total of 368 spectra, 16 for each eFT-508 cell line strain. Each mass spectrum dataset was compared with the others, yielding a matrix of cross-wise relatedness computed with the default setting provided by Biotyper 2.0 (CCI matrix). A CCI value approaching 1.0 showed confirmation of the set of spectra at a high level of significance, and is shown in Figure 3 by the brown squares at the diagonal intersection of the samples (maximum = self-to-self correlation). Inter-sample INCB28060 nmr comparisons showed decreasing colour to yellow–blue, corresponding to decreasing GSK2245840 research buy degrees of correlation down to 0.02, the lowest match. Composite correlation index analysis for the 23 Ochrobactrum anthropi strains showed
similar inter-strain relatedness (Figure 3). Strains CZ1424 and CZ1443, as well as strains CZ1523 and CZ1504, isolated from the same patients but from two different sites, shared high degrees of similarity (over 80% and 85% respectively). Lower similarity, ranging from 60 to 80%, was found among strains CZ1427, CZ1429 and CZ1449,
also isolated from two different sites in the same patient. Strains CZ 1403, CZ1433 and CZ1442 showed Methane monooxygenase the lowest degree of similarity with other strains (less than 20%). At the other end of the scale, two strain clusters (CZ1439, CZ1442, CZ1443, CZ1449, CZ1454, CZ1458 and CZ1460, CZ1474, CZ1476, CZ1504, CZ1505, CZ1519, CZ1523, CZ1532, CZ1541) shared a high degree of similarity (up to 95%). Figure 3 Composite correlation index (CCI) matrix value for the strains of Ochrobactrum anthropi. Different colors indicate the correlation distance. CCI was calculated with MALDI Biotyper 2.0 software at the default settings: the lower boundary is 2000, the upper boundary is 20,000, the resolution of the mass range is four, and the number of intervals for CCI is four. A CCI value near 1.0 indicates relatedness between the spectral sets, and 0.02 indicates the lowest match. Based on the CCI data, a score-orientated MSP dendrogram was generated using the default setting of Biotyper 2.0, and included the 23 clinical strains and the 3 ATCC strains in the database (Figure 4). According to their mass signals and intensities, a hierarchic dendrogram clustered the 23 strains of O. anthropi in a single group, between 20 and 25 distance levels phylogenetically distinct from the ATCC isolates present in database.