Key resources table.
| Reagent type (species) or resource |
Designation | Source or reference |
Identifiers | Additional information |
|---|---|---|---|---|
| Strain, strain background (Mycobacterium tuberculosis) | H37Rv | ATCC | ATCC −27294 | |
| Strain, strain background (Mycobacterium tuberculosis) | TRS10 | PMID:24687490 | 10 | |
| Strain, strain background (Mycobacterium tuberculosis) | ADB42 | PMID:24687490 | 42 | |
| Sequence-based reagent | Primer a for QRDR amplification | IDT | gyrA_1Fw | CCTGCGTTCGATTGCAAACG |
| Sequence-based reagent | Primer b for QRDR amplification | IDT | gyrA_1Rv | CGTGGTTGACCTGATACGG |
| Commercial assay or kit | RiboZero rRNA removal (bacterial) | Illumina Inc | (discontinued) | |
| Commercial assay or kit | AMPure XP | Agencourt Bioscience Corporation | Beckman Coulter A63881 |
|
| Commercial assay or kit | NEBNext Ultra RNA Library Prep Kit for Illumina | New England Biolabs | E7530S | |
| Commercial assay or kit | NEBNext Multiplex Oligos for Illumina | New England Biolabs | Dual Index Primers Set 1 E7335S |
|
| Commercial assay or kit | Kapa qPCR quantification kit | Roche | KK4824 | |
| Commercial assay or kit | Illumina NextSeq 500 High Output v2 Kit | Illumina Inc | ||
| Commercial assay or kit | MagJet Genomic DNA kit | Thermo Fisher Scientific | K2722 | |
| Commercial assay or kit | Lysing Matrix B | MP Biomedicals | ||
| Chemical compound, drug | Ofloxacin | Sigma | O8757-1G | |
| Software, algorithm | DuffNGS | PMID:21317536 | https://sourceforge.net/projects/duffyrnaseq/ | |
| Software, algorithm | Bowtie 2 | PMID:22388286 | ||
| Software, algorithm | MicroManager v1.4 |
PMID:25606571 | https://micro-manager.org/ | |
| Software, algorithm | MATLAB | Mathworks |
www.mathworks.
com |
|
| Software, algorithm | ODELAY-ODELAM | This manuscript | https://github.com/AitchisonLab/ |