Background
Methods
Pulmonary samples
Mycobacterial isolation and phenotypic characterization
Data analysis
PCR amplification and nucleotide sequencing
Species identification
Phylogenetic analyses
Results
Reference | Year of isolation | Origin | Specimen | Sex | Runyon Classification | BIOCHEMICAL TESTS | ||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Niacin | Nit- Red | Urease | Catalase | Arylsulfatase | Tween 80 | β-Gal | ||||||||
3 days | 22 °C | 68 °C | 3 days | 14 days | ||||||||||
TNTM1 | 2002 | Bizerte | Sputum | M | P/SGM |
–
|
+
|
+
|
+
|
+
|
–
|
+
|
+
|
–
|
TNTM2 | 2009 | Bizerte | Sputum | M | P/SGM |
–
|
+
|
+
|
+
|
+
|
–
|
+/−
|
+
|
–
|
TNTM3 | 2009 | Bizerte | Sputum | M | P/SGM |
–
|
+
|
+
|
+
|
+
|
–
|
+/−
|
+
|
–
|
TNTM4 | 2010 | Bizerte | Sputum | M | P/SGM |
–
|
+
|
+
|
+
|
+
|
–
|
+/−
|
+
|
–
|
TNTM5 | 2008 | Bizerte | Sputum | M | P/SGM |
–
|
+
|
+
|
+
|
+
|
–
|
+
|
+
|
–
|
TNTM6 | 2002 | Bizerte | Sputum | M | P/SGM |
–
|
+
|
+
|
+
|
+
|
–
|
+
|
+
|
–
|
TNTM7 | 2007 | Bizerte | Sputum | M | P/SGM |
–
|
+
|
+
|
+
|
+
|
–
|
+
|
+
|
–
|
TNTM8 | 2000 | Tunis | Sputum | M | S/SGM |
–
|
–
|
–
|
+
|
+
|
–
|
+
|
+
|
–
|
TNTM9 | 2004 | Tunis | Sputum | M | S/SGM |
–
|
–
|
–
|
+
|
+
|
–
|
+
|
+
|
–
|
TNTM10 | 2003 | Tunis | Sputum | F | N/RGM |
–
|
+
|
+
|
+
|
+
|
+
|
+
|
–
|
–
|
TNTM11 | 2011 | Tunis | Sputum | M | N/RGM |
–
|
+
|
+
|
+
|
+
|
+
|
+
|
–
|
–
|
TNTM12 | 2015 | Tunis | Sputum | F | N/RGM |
–
|
+
|
+
|
+
|
+
|
+
|
+
|
–
|
–
|
TNTM13 | 2011 | Tunis | Sputum | F | N/RGM |
–
|
+
|
+
|
+
|
+
|
+
|
+
|
–
|
–
|
TNTM14 | 2005 | Tunis | Sputum | M | N/RGM |
–
|
+
|
+
|
+
|
+
|
+
|
+
|
–
|
–
|
TNTM15 | 2004 | Tunis | Sputum | M | N/RGM |
–
|
+
|
+
|
+
|
+
|
+
|
+
|
–
|
–
|
TNTM16 | 2008 | Bizerte | Sputum | M | N/RGM |
–
|
–
|
+
|
+
|
+
|
+
|
+
|
–
|
–
|
TNTM17 | 2003 | Bizerte | Sputum | M | P/RGM |
–
|
+
|
+
|
+
|
+
|
+
|
+
|
–
|
–
|
TNTM18 | 2008 | Tunis | Sputum | M | P/RGM |
–
|
+
|
–
|
+
|
+
|
+
|
+
|
–
|
–
|
TNTM19 | 2008 | Tunis | Sputum | F | P/RGM |
–
|
+
|
–
|
+
|
+
|
+
|
+
|
–
|
–
|
TNTM20 | 2009 | Tunis | Sputum | M | P/RGM |
–
|
+
|
+
|
+
|
+
|
+
|
+
|
–
|
–
|
TNTM21 | 2004 | Tunis | Sputum | F | P/RGM |
–
|
+
|
+
|
+
|
+
|
+
|
+
|
–
|
–
|
TNTM22 | 2016 | Tunis | Sputum | M | S/RGM |
–
|
+
|
+
|
+
|
+
|
+
|
+
|
+
|
–
|
TNTM23 | 2003 | Bizerte | Sputum | M | S/RGM |
–
|
+
|
+
|
+
|
+
|
–
|
–
|
–
|
–
|
TNTM24 | 2003 | Tunis | Sputum | M | S/RGM |
–
|
+
|
+
|
+
|
+
|
–
|
–
|
–
|
–
|
TNTM25 | 2009 | Tunis | Sputum | M | N/RGM |
–
|
–
|
+
|
+
|
+
|
+
|
+
|
–
|
–
|
TNTM26 | 2010 | Tunis | Sputum | F | N/RGM |
–
|
–
|
+
|
+
|
+
|
+
|
+
|
–
|
–
|
TNTM27 | 2009 | Tunis | Sputum | M | N/RGM |
–
|
–
|
+
|
+
|
+
|
+
|
+
|
–
|
–
|
TNTM28 | 2010 | Tunis | Sputum | M | N/RGM |
–
|
+
|
+
|
+
|
+
|
+
|
+
|
–
|
–
|
TNTM29 | 2004 | Tunis | Sputum | F | S/RGM |
–
|
–
|
+
|
+
|
+
|
+
|
+
|
–
|
–
|
TNTM30 | 2008 | Tunis | Sputum | M | S/RGM |
–
|
+
|
+
|
+
|
+
|
+
|
+
|
–
|
–
|
Reference | Species identification based on % similarity | |||
---|---|---|---|---|
rpoB
| 16S rRNA gene |
hsp65
|
sodA
| |
TNTM1 | M. kansasii (100%) | M. kansasii (100%) | M. kansasii (100%) | M. kansasii (100%) |
TNTM2 | M. kansasii (100%) | M. kansasii (100%) | M. kansasii (100%) | M. kansasii (100%) |
TNTM3 | M. kansasii (100%) | M. kansasii (100%) | M. kansasii (100%) | M. kansasii (100%) |
TNTM4 | M. kansasii (100%) | M. kansasii (100%) | M. kansasii (100%) | M. kansasii (100%) |
TNTM5 | M. kansasii (100%) | M. kansasii (100%) | M. kansasii (100%) | M. kansasii (100%) |
TNTM6 | M. kansasii (100%) | M. kansasii (100%) | M. kansasii (100%) | M. kansasii (100%) |
TNTM7 | M. kansasii (100%) | M. kansasii (100%) | M. kansasii (100%) | M. kansasii (100%) |
TNTM8 | M. gordonae (100%) | M. gordonae (100%) | M. gordonae (97.64%) | M. gordonae (99.76%) |
TNTM9 | M. gordonae (100%) | M. gordonae (100%) | M. gordonae (100%) | M. gordonae (100%) |
TNTM10 | M. fortuitum (100%) | M. fortuitum (100%) | M. fortuitum (100%) | M.fortuitum (99.76%) |
TNTM11 | M. fortuitum (100%) | M. fortuitum (100%) | M. fortuitum (100%) | M. fortuitum (99.76%) |
TNTM12 | M. fortuitum (100%) | M. fortuitum (100%) | M. fortuitum (100%) | M. fortuitum (99.76%) |
TNTM13 | M.fortuitum (100%) | M. fortuitum (100%) | M. fortuitum (100%) | M. fortuitum (99.76% |
TNTM14 | M.fortuitum (100%) | M. fortuitum (100%) | M. fortuitum 100% | M. fortuitum (99.76%) |
TNTM15 | M. peregrinum (100%) | M. peregrinum (100%) | M.peregrinum (100%) | M. peregrinum (100%) |
TNTM16 | M. porcinum (100%) | M.porcinum (100%) | M. porcinum (99.71%) | M. porcinum (100%) |
TNTM17 | M. novocastrense (99.99%) | M. novocastrense (100%) | M. novocastrense (100%) | M. novocastrense (100%) |
TNTM18 | M. novocastrense (100%) | M. novocastrense (99.73%) | M. novocastrense (100%) | M. novocastrense (100%) |
TNTM19 | M. novocastrense (100%) | M. novocastrense (99.73%) | M. novocastrense (100%) | M. novocastrense (100%) |
TNTM20 | M. novocastrense (99.85%) | M. novocastrense (100%) | M .novocastrense (100%) | M. novocastrense (100%) |
TNTM21 | M. novocastrense (99.85%) | M. novocastrense (99.73%) | M. novocastrense (100%) | M. novocastrense (100%) |
TNTM22 | M. flavescens (99.98%) | M. flavescens (99.74%) | M. flavescens (99.41%) | M. flavescens (100%) |
TNTM23 | M. gadium (100%) | M. gadium (100%) | M. gadium (100%) | M. gadium (100%) |
TNTM24 | M. gadium (98.45%) | M. gadium (100%) | M. gadium (98.82%) | M. gadium (100%) |
TNTM25 | M. chelonae (100%) | M. chelonae (100%) | M. chelonae 100% | M. chelonae (100%) |
TNTM26 | M. chelonae (100%) | M. chelonae (100%) | M. chelonae (100%) | M. chelonae (100%) |
TNTM27 | M. chelonae (100%) | M. chelonae (100%) | M. chelonae (100%) | M. chelonae (100%) |
TNTM28 | M. peregrinum (94.06%) | M. fortuitum complex (100%) | M. sp H12O-99,072 (96.76%) | M. fortuitum (92.95%) |
TNTM29 | rUMS (90.03%) | M. sp GR2001–270 (100%) | M. sp GR 2001–270 (97.64%) | M. aurum (90.10%) |
TNTM30 | rUMS (92.16%) | M. sp G1368 (99.86%) | M. sp G1368 (96%) | M. abscessus (97.80%) |