PMC:4996382 / 17051-19139 JSONTXT

{"target":"https://pubannotation.org/docs/sourcedb/PMC/sourceid/4996382","sourcedb":"PMC","sourceid":"4996382","source_url":"https://www.ncbi.nlm.nih.gov/pmc/4996382","text":"3.4. Distance Table\nThe fingerprints were compared to calculate similarity measures between them. In order to accurately identify a given organism from fingerprint results, each organism should yield a specific virtual hybridization pattern and the between-patterns similarity should be related to their genomes (as to length and G + C content). The number of signals shared by fingerprint patterns can be used to estimate similarity indices and distances between genome sequences.\nTable 3 shows the distance values between the eight Bacillus anthracis strains studied, out of an average of 4603 potential sites. When a given organism is compared to itself, the distance value is zero but when it is compared to another organism, the distance value increases (0 \u003c score ≥ 1), in relation to the genomic difference between the strains. The minimum value (0.000017) found in this study (shown in yellow in Table 3) corresponds to the comparison between the genomic fingerprints of Bacillus anthracis str. Ames and Bacillus anthracis str. Ames Ancestor (allowing only one mismatch and using a ΔG° between −19.53 and −11.67 kcal/mol). The largest distance value (0.001088) was obtained for Bacillus anthracis str. Kruger.\nmicroarrays-04-00084-t003_Table 3 Table 3 Distances calculated from the extended method results. When thermodynamic conditions were made stricter by using a ΔG° between −19.53 and −13.01 kcal/mol for the eight genomes, with an average of 1528 signals, the UFC was not sensitive enough to discriminate between highly similar strains. A minimum distance value of zero (green) was obtained for the comparison between the Bacillus anthracis str. Ames and Bacillus anthracis str. Ames Ancestor strains. This means that the method cannot discriminate these two strains. The largest distance value (0.001261) was obtained for the comparison between these two strains and Bacillus anthracis str. Kruger; the latter is the strain that is most different to the others (Table 4).\nmicroarrays-04-00084-t004_Table 4 Table 4 Distances calculated from the direct method results.\n\n3","divisions":[{"label":"Title","span":{"begin":0,"end":19}},{"label":"Table caption","span":{"begin":1218,"end":1317}},{"label":"Table caption","span":{"begin":1990,"end":2087}}],"tracks":[]}