The minor types C5 and C9 were further subdivided into
three and two, respectively, by PFGE and VNTR-MIRU subdivided C16 into two types. By combining PFGE and VNTR-MIRU or all three typing techniques it was possible to discriminate 37 and 44 patterns, respectively (Table 4 and see Additional file 2: Table S2). Table 3 Subdivision of the predominant types by the different typing techniques. Type No. of PSI-7977 molecular weight isolates1 Subdivided by BstEII RFLP 2 PFGE 3 MIRU-VNTR 4 [2-1] 83 C1, C5, C9, C10, C17, C36, C38 1, 2, 5, 8, 19, 22, 24, 25, 30 [1-1] 15 C1, Belnacasan price C5, C18 1, 2, 6 [29-15] 4 C1 36, 37 [34-22] 4 C1 2, 8 [2-30] 2 C16 25, 1 INMV 1 75 C1, C9, C16, C17 [1-1], [2-1], [2-10], [2-30], [3-2], [5-2], [20-1], [32-29], [33-20], [36-27], [41-1] INMV 2 35 C1, C5, C17, C18, C22, C27, C36 [1-1], [2-1], [2-17], [2-19], [2-31], [27-18], [30-21], [34-22] INMV 26 9 C1 [15-25], [40-28] INMV 6 4 C1 [1-1], [2-21] INMV 25 2 C16, C17 [2-1], [2-30] INMV 8 2 C1 [2-1], [34-22] INMV 35 2 C1 [26-1], [58-64] C1 71 [1-1], [2-1], [2-10], [15-16], [15-25], [18-1], [20-1], [26-1], [29-15], [30-21], [34-22], [36-27], [40-28], [58-64] 1, 2, 6, 8, 13, 24, 26, 35, 36, 37, 38 C17 49 [2-1], [3-2], [5-2], [32-29] 1, 2, 19, 25 C5 5 [1-1], [2-1], [2-19] 2 C9 3 [2-1], [41-1] 1 C16 2 [2-30] 1, 25 1. 123 Map isolates were typed by IS900-RFLP, PFGE and MIRU-VNTR but not all isolates were typed by all three typing procedures. 2. Nomenclature Ipatasertib research buy as defined by
Pavlik et al. 1999 [50] 3. SSR128129E Nomenclature as defined by Stevenson et al. (2002)
[11] 4. INMV numbers as defined by INRA Nouzilly MIRU-VNTR [56] Table 4 Simpson’s index of diversity (SID) with 95% confidence interval for individual and combined typing methods All isolates Scotland Mainland Europe Method No. of types SID No. of types SID No. of types SID PFGE-SnaBI 21 0.594 (0.493-0.695)a 5 0.234 (0.075-0.393)ab 17 0.744 (0.655-0.834)ac PFGE-SpeI 19 0.485 (0.372-0.597)a 5 0.267 (0.105-0.430)ab 16 0.599 (0.468-0.729)ab PFGE-multiplex 26 0.654 (0.558-0.749)ab 6 0.270 (0.104-0.437)ab 22 0.804 (0.727-0.881)acd IS900-RFLP 15 0.636 (0.582-0.690)a 3 0.080 (0.00-0.191)a 14 0.422 (0.277-0.567)b MIRU-VNTR 19 0.664 (0.588-0.740)ab 5 0.235 (0.074-0.395)ab 16 0.770 (0.706-0.835)ac Multiplex PFGE + IS900-RFLP 34 0.834 (0.782-0.885)c 6 0.270 (0.104-0.437)ab 30 0.877 (0.82-0.934)cde Multiplex PFGE + MIRU-VNTR 37 0.797 (0.727-0.867)bc 9 0.406 (0.228-0.584)ab 30 0.914 (0.878-0.949)de IS900-RFLP + MIRU-VNTR 29 0.825 (0.774-0.876)c 6 0.236 (0.074-0.398)ab 24 0.868 (0.820-0.917)cde All methods combined 44 0.879 (0.831-0.927)c 9 0.406 (0.228-0.584)b 36 0.941 (0.913-0.969)e Simpson’s index of diversity (SID) with 95% confidence interval for individual and combined typing methods based on analysis of 123 Map isolates originating from Scotland (n = 48) and mainland Europe (n = 75) abcde Non-overlapping 95% confidence intervals are considered significantly different [55] and are indicated by different superscripts.
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