References
1. Adan A, Alizada G, Kiraz Y et al (2017) Flow
cytometry: basic principles and applications.
Crit Rev Biotechnol 37:163–176. https://doi.
org/10.3109/07388551.2015.1128876
2. Bendall SC, Simonds EF, Qiu P et al (2011)
Single-cell mass cytometry of differential
immune and drug responses across a human
hematopoietic
continuum.
Science
332:687–696. https://doi.org/10.1126/sci
ence.1198704
3. Chattopadhyay PK, Winters AF, Lomas WE
et al (2019) High-parameter single-cell analysis. Annu Rev Anal Chem Palo Alto Calif
12:411–430.
https://doi.org/10.1146/
annurev-anchem-061417-125927
4. Haridas V, Ranjbar S, Vorobjev IA et al (2017)
Imaging flow cytometry analysis of intracellular
pathogens. Methods 112:91–104. https://doi.
org/10.1016/j.ymeth.2016.09.007
5. Pisu D, Huang L, Grenier JK, Russell DG
(2020) Dual RNA-Seq of Mtb-infected macrophages in vivo reveals ontologically distinct
host-pathogen
interactions.
Cell
Rep
30:335–350.e4. https://doi.org/10.1016/j.
celrep.2019.12.033
6. Rego EH, Audette RE, Rubin EJ (2017) Deletion of a mycobacterial divisome factor collapses single-cell phenotypic heterogeneity.
Nature 546:153–157. https://doi.org/10.
1038/nature22361
7. Xue J, Schmidt SV, Sander J et al (2014)
Transcriptome-based network analysis reveals
a spectrum model of human macrophage activation. Immunity 40:274–288. https://doi.
org/10.1016/j.immuni.2014.01.006
8. Berney M, Hammes F, Bosshard F et al (2007)
Assessment and interpretation of bacterial
viability by using the LIVE/DEAD BacLight
kit in combination with flow cytometry. Appl
Environ Microbiol 73:3283–3290. https://
doi.org/10.1128/AEM.02750-06
9. Lamprecht DA, Finin PM, Rahman MA et al
(2016) Turning the respiratory flexibility of
Mycobacterium tuberculosis against itself. Nat
Commun
7:12393.
https://doi.org/10.
1038/ncomms12393
10. Danilchanka O, Sun J, Pavlenok M et al (2014)
An outer membrane channel protein of Mycobacterium tuberculosis with exotoxin activity.
Proc Natl Acad Sci U S A 111:6750–6755.
https://doi.org/10.1073/pnas.1400136111
11. Burggraaf MJ, Ates LS, Speer A et al (2019)
Optimization of secretion and surface localization of heterologous OVA protein in mycobacteria by using LipY as a carrier. Microb Cell
Factories 18:44. https://doi.org/10.1186/
s12934-019-1093-1
12. Wiens KE, Ernst JD (2016) The mechanism
for type I interferon induction by Mycobacterium tuberculosis is bacterial strain-dependent.
PLoS Pathog 12:e1005809. https://doi.org/
10.1371/journal.ppat.1005809
13. Bruns H, Stegelmann F, Fabri M et al (2012)
Abelson tyrosine kinase controls Phagosomal
acidification required for killing of Mycobacterium tuberculosis in human macrophages. J
Immunol 189:4069–4078. https://doi.org/
10.4049/jimmunol.1201538
14. Kaufmann E, Sanz J, Dunn JL et al (2018)
BCG educates hematopoietic stem cells to generate protective innate immunity against tuberculosis. Cell 172:176–190. e19. https://doi.
org/10.1016/j.cell.2017.12.031
Flow Cytometry for Mycobacteria
271
1. Adan A, Alizada G, Kiraz Y et al (2017) Flow
cytometry: basic principles and applications.
Crit Rev Biotechnol 37:163–176. https://doi.
org/10.3109/07388551.2015.1128876
2. Bendall SC, Simonds EF, Qiu P et al (2011)
Single-cell mass cytometry of differential
immune and drug responses across a human
hematopoietic
continuum.
Science
332:687–696. https://doi.org/10.1126/sci
ence.1198704
3. Chattopadhyay PK, Winters AF, Lomas WE
et al (2019) High-parameter single-cell analysis. Annu Rev Anal Chem Palo Alto Calif
12:411–430.
https://doi.org/10.1146/
annurev-anchem-061417-125927
4. Haridas V, Ranjbar S, Vorobjev IA et al (2017)
Imaging flow cytometry analysis of intracellular
pathogens. Methods 112:91–104. https://doi.
org/10.1016/j.ymeth.2016.09.007
5. Pisu D, Huang L, Grenier JK, Russell DG
(2020) Dual RNA-Seq of Mtb-infected macrophages in vivo reveals ontologically distinct
host-pathogen
interactions.
Cell
Rep
30:335–350.e4. https://doi.org/10.1016/j.
celrep.2019.12.033
6. Rego EH, Audette RE, Rubin EJ (2017) Deletion of a mycobacterial divisome factor collapses single-cell phenotypic heterogeneity.
Nature 546:153–157. https://doi.org/10.
1038/nature22361
7. Xue J, Schmidt SV, Sander J et al (2014)
Transcriptome-based network analysis reveals
a spectrum model of human macrophage activation. Immunity 40:274–288. https://doi.
org/10.1016/j.immuni.2014.01.006
8. Berney M, Hammes F, Bosshard F et al (2007)
Assessment and interpretation of bacterial
viability by using the LIVE/DEAD BacLight
kit in combination with flow cytometry. Appl
Environ Microbiol 73:3283–3290. https://
doi.org/10.1128/AEM.02750-06
9. Lamprecht DA, Finin PM, Rahman MA et al
(2016) Turning the respiratory flexibility of
Mycobacterium tuberculosis against itself. Nat
Commun
7:12393.
https://doi.org/10.
1038/ncomms12393
10. Danilchanka O, Sun J, Pavlenok M et al (2014)
An outer membrane channel protein of Mycobacterium tuberculosis with exotoxin activity.
Proc Natl Acad Sci U S A 111:6750–6755.
https://doi.org/10.1073/pnas.1400136111
11. Burggraaf MJ, Ates LS, Speer A et al (2019)
Optimization of secretion and surface localization of heterologous OVA protein in mycobacteria by using LipY as a carrier. Microb Cell
Factories 18:44. https://doi.org/10.1186/
s12934-019-1093-1
12. Wiens KE, Ernst JD (2016) The mechanism
for type I interferon induction by Mycobacterium tuberculosis is bacterial strain-dependent.
PLoS Pathog 12:e1005809. https://doi.org/
10.1371/journal.ppat.1005809
13. Bruns H, Stegelmann F, Fabri M et al (2012)
Abelson tyrosine kinase controls Phagosomal
acidification required for killing of Mycobacterium tuberculosis in human macrophages. J
Immunol 189:4069–4078. https://doi.org/
10.4049/jimmunol.1201538
14. Kaufmann E, Sanz J, Dunn JL et al (2018)
BCG educates hematopoietic stem cells to generate protective innate immunity against tuberculosis. Cell 172:176–190. e19. https://doi.
org/10.1016/j.cell.2017.12.031
Flow Cytometry for Mycobacteria
271