Volume 28, Number 7—July 2022
Research
Novel Mycobacterium tuberculosis Complex Genotype Related to M. caprae
Joseph Shea, Carol Smith, Tanya A. Halse, Donna Kohlerschmidt, Amy K. Rourke, Kimberlee A. Musser, Vincent Escuyer, and Pascal Lapierre
Table
List of markers used for species and lineage determination in investigation of novel Mycobacterium tuberculosis complex genotype related to M. caprae*
| Species and lineage | Specific markers | Strain 20-2359 genotype |
|---|---|---|
| Mycobacterium tuberculosis |
gyrB403 GCG + katG203 ACC |
gyrB403 TCG + katG203 ACT |
| M. africanum | ethA124 GAC + nt1673338 A or | ethA124 GGC + nt1673338 C |
| |
inhA78 GCG + atpE69 GCT |
inhA78 GTG + atpE69 GCG |
| M. pinnipedii | inhA107 TCG + nt1473094 C | inhA107 CCG + nt1473094 G |
| M. microti | gyrB144 TAT + nt1473079 A | gyrB144 TAC + nt1473079 C |
| M. caprae | gyrB171 GTA + gyrB356 GCG | gyrB171 GTA + gyrB356 GCT |
| M. bovis bacillus Calmette-Guérin | pncA57 GAC + furA43 GTC | pncA57 CAC + furA43 GCC |
| M. bovis |
pncA57 GAC + furA43 GCC |
pncA57 CAC + furA43 GCC |
| Lineage | ||
| 1 (Indo-Oceanic) | gidB110 GTT | gidB110 GTG |
| 2 (Beijing) | gidB92 GAC | gidB92 GAA |
| 3 (Central-Asian) | nt2726105 A | nt2726105 G |
| 4 (Euro-American) | katG463 CGG | katG463 CTG |
| 5 (West African 1) | ethA124 GAC | ethA124 GGC |
| 6 (West African 2) | inhA78 GCG | inhA78 GTG |
*The codons or individual nucleotide positions were based on the sequence of the reference genome H37Rv. None of the complete marker set are present in strain 20-2359; 2 partial matches are in bold. Three primate (SRR1792164, SRR1792165, SRR7617662) and 2 elephant (DRR120408, DRR120409) isolates shared the same genotypes with 20-2359 for these markers.
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Page updated: June 18, 2022
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