Ere older than 60 years. However, no data were available on 2.29 (n = 17) of the patients. Origin. The RG1662 cancer isolates included in the study were from patients from all of the departments in Colombia except San Andr and Vaup . The Department of Valle del Cauca contributed 33.6 of the isolates in this study S1 Fig. State of TB treatment. In total, 22.4 (n = 166) of the isolates were from previously treated patients, whereas the remaining 77.6 (n = 575) were from patients who did not have a previous history of treatment.Phenotype of isolates susceptible to first-line drugsIn total, 61.94 (n = 460) of the isolates were resistant to one or more drugs, and 33.33 (n = 246) of the isolates were susceptible. However, susceptibility information was not available for 4.72 (n = 35) of the isolates. The MDR phenotype was found in 19.83 (n = 147) of the isolates. The patterns of resistance to first-line drugs are described in Table 1.Genotypes by spoligotyping and drug susceptibilityIn total, 170 genotypes were identified; the SIT42 (LAM 9) was the most frequent genotype and included 24.7 (n = 183) of the isolates. The distribution of the families identified, their frequency and the susceptible phenotypes are presented in Table 2.Description of groupings by spoligotypingThere were 32 groupings that consisted of 3?83 isolates from the total population; therefore, 79.8 (n = 591) of the isolates were grouped. The major grouping genotypes were SIT42 (LAM9), SIT62 (H1), SIT53 (T1) and SIT50 (H3) (Fig 1).PLOS ONE | DOI:10.1371/journal.pone.0124308 June 11,4 /Mycobacterium tuberculosis Genotypes in ColombiaTable 1. Distribution of patterns of susceptibility to first-line drugs. Resistance Pattern H+R+S+E H+R+S H+R+E H+R H+S+E H+S H+E R+E S+E S+R E H R S Sensitive No data TOTAL N 66 59 5 17 12 90 4 1 1 1 8 78 3 115 246 35 741 8.91 7.96 0.67 2.29 1.62 12.15 0.54 0.13 0.13 0.13 1.08 10.53 0.4 15.52 33.2 4.72H: Isoniazid, R: Rifampicin; S: Streptomycin: E: Ethambutol. doi:10.1371/journal.pone.0124308.tFor both study periods analyzed (1999?005 and 2006?012), a high proportion of grouped isolates was found, (78.78 (n = 323) and 80.97 (n = 268), respectively). In total, 80.4 (n = 369) of the resistant isolates were grouped together, whereas 77.7 (n = 192) of the susceptible isolates were grouped together. The two populations showed no significant differences in terms of active or recent transmission (p = 0.229).Bivariate analyses and associationsThe results from analyzing the variables according to the presence of grouping isolates are shown in Table 3. The variable EPZ-5676 solubility genotypic family, specifically the Haarlem family, was associated with grouping isolates (p = 0.031), whereas the T, X and Orphan families were associated with the non-grouped isolates (p < 0.001). Moreover, a statistically significant association was found between the MDR isolates and the non-grouped isolates (p = 0.045). The variables analyzed regarding the resistance to first-line drugs are shown in Table 4. The Beijing family was strongly associated with drug-resistant isolates, whereas the Haarlem (p = 0.003) and T (p < 0.001) families were associated with susceptibility to first-line drugs. Moreover, the isolates from the second study period were associated with drug sensitivity (p < 0.001), and the resistant isolates were associated with patients who had been previously treated (p < 0.001).Trend analysisFamilies. The evaluation of the dynamics of presentation of the genotypic families.Ere older than 60 years. However, no data were available on 2.29 (n = 17) of the patients. Origin. The isolates included in the study were from patients from all of the departments in Colombia except San Andr and Vaup . The Department of Valle del Cauca contributed 33.6 of the isolates in this study S1 Fig. State of TB treatment. In total, 22.4 (n = 166) of the isolates were from previously treated patients, whereas the remaining 77.6 (n = 575) were from patients who did not have a previous history of treatment.Phenotype of isolates susceptible to first-line drugsIn total, 61.94 (n = 460) of the isolates were resistant to one or more drugs, and 33.33 (n = 246) of the isolates were susceptible. However, susceptibility information was not available for 4.72 (n = 35) of the isolates. The MDR phenotype was found in 19.83 (n = 147) of the isolates. The patterns of resistance to first-line drugs are described in Table 1.Genotypes by spoligotyping and drug susceptibilityIn total, 170 genotypes were identified; the SIT42 (LAM 9) was the most frequent genotype and included 24.7 (n = 183) of the isolates. The distribution of the families identified, their frequency and the susceptible phenotypes are presented in Table 2.Description of groupings by spoligotypingThere were 32 groupings that consisted of 3?83 isolates from the total population; therefore, 79.8 (n = 591) of the isolates were grouped. The major grouping genotypes were SIT42 (LAM9), SIT62 (H1), SIT53 (T1) and SIT50 (H3) (Fig 1).PLOS ONE | DOI:10.1371/journal.pone.0124308 June 11,4 /Mycobacterium tuberculosis Genotypes in ColombiaTable 1. Distribution of patterns of susceptibility to first-line drugs. Resistance Pattern H+R+S+E H+R+S H+R+E H+R H+S+E H+S H+E R+E S+E S+R E H R S Sensitive No data TOTAL N 66 59 5 17 12 90 4 1 1 1 8 78 3 115 246 35 741 8.91 7.96 0.67 2.29 1.62 12.15 0.54 0.13 0.13 0.13 1.08 10.53 0.4 15.52 33.2 4.72H: Isoniazid, R: Rifampicin; S: Streptomycin: E: Ethambutol. doi:10.1371/journal.pone.0124308.tFor both study periods analyzed (1999?005 and 2006?012), a high proportion of grouped isolates was found, (78.78 (n = 323) and 80.97 (n = 268), respectively). In total, 80.4 (n = 369) of the resistant isolates were grouped together, whereas 77.7 (n = 192) of the susceptible isolates were grouped together. The two populations showed no significant differences in terms of active or recent transmission (p = 0.229).Bivariate analyses and associationsThe results from analyzing the variables according to the presence of grouping isolates are shown in Table 3. The variable genotypic family, specifically the Haarlem family, was associated with grouping isolates (p = 0.031), whereas the T, X and Orphan families were associated with the non-grouped isolates (p < 0.001). Moreover, a statistically significant association was found between the MDR isolates and the non-grouped isolates (p = 0.045). The variables analyzed regarding the resistance to first-line drugs are shown in Table 4. The Beijing family was strongly associated with drug-resistant isolates, whereas the Haarlem (p = 0.003) and T (p < 0.001) families were associated with susceptibility to first-line drugs. Moreover, the isolates from the second study period were associated with drug sensitivity (p < 0.001), and the resistant isolates were associated with patients who had been previously treated (p < 0.001).Trend analysisFamilies. The evaluation of the dynamics of presentation of the genotypic families.
