Table 1.
Overview of tHTS studies directly on clinical specimens for Mycobacterium tuberculosis DNA.
| Author/Year | Location | tHTS Kit | Index Test Sample |
Platform | Reference Standard/Comparisons |
|---|---|---|---|---|---|
| Cabbibe 2020 [18] | Italy | Deeplex Myc-TB | Sputum | MinION | Deeplex Myc-TB amplicons on MiniSeq |
| Kambli 2021 [23] | Mumbai, India | Deeplex Myc-TB | Sputum, isolates | iSeq | pDST from MGIT; LPA; pyrosequencing |
| Kayomo 2020 [19] | Congo | Deeplex Myc-TB | Sputum | MiSeq | Xpert MTB/RIF |
| Colman 2019 [14] | United States | SMOR assay [24] | Isolates | MiSeq, iSeq | WGS (MiSeq and iSeq) |
| Tafess 2020 [13] | Hong Kong, Ethiopia | In-house PCR (19 gene targets) |
Isolates | MiSeq, MinION | pDST from MGIT |
| Gliddon 2021 [25] | Kwazulu, South Africa | In-house RPA (isothermal) | Isolates | MinION | WGS (HiSeq), pDST from MGIT and solid agar |
| Sibandze 2022 [21] | Eswatini, Germany | Deeplex Myc-TB | Stool | NextSeq | pDST from MGIT |
| Wang 2019 [26] | Botswana | SMOR assay [24] | Isolates | MiSeq | pDST on MGIT; LPA, Xpert MTB/RIF |
| Mariner-Llicer 2021 [27] | Spain | In-house assay (11 gene targets) |
Sputum, isolates | MinION | WGS (MiSeq) |
| Mesfin 2021 [20] | Eritrea | Deeplex Myc-TB | Sputum | MiniSeq | Xpert MTB/RIF |
| Tagliani 2017 [28] | Djibouti | Deeplex Myc-TB | Sputum | MiniSeq | WGS (HiSeq) from isolates |
| Song 2022 [24] | China | In house PCR (11 gene targets) |
FFPE tissues | Ion Proton | pDST from microtitre plate |
| Chan 2020 [15] | Hong Kong | In-house PCR (10 gene targets) |
Bronchial aspirate, LN, sputum, bone marrow | MinION, MiSeq | pDST from MGIT; LPA |
| Rowneki 2020 [16] | Ghana, Kenya, Uganda, Zambia | In house PCR (17 gene targets) |
Sputum | MiSeq | Sanger sequencing on subset of samples |
| Colman 2016 [22] | Moldova | SMOR assay | Sputum | MiSeq | pDST from MGIT |
| Colman 2015 [29] | Moldova | SMOR assay | Sputum | MiSeq | pDST from MGIT |
| Zhao 2022 [17] | Shanghai, China | In-house PCR (7 gene targets) |
Sputum | GridION | Sanger sequencing, pDST |
| Jouet 2021 [30] | Djibouti, Congo | Deeplex Myc-TB | Sputum | MiSeq | WGS, pDST from Löwenstein–Jensen or Middlebrook 7H11 agar |