128
Terskikh A, Fradkov A, Ermakova G, Zaraisky A, Tan P, Kajava AV, Zhao X, Lukyanov S, Matz M,
Kim S, Weissman I, Siebert P (2000) “Fluorescent timer”: protein that changes color with time.
Science 290(5496):1585–1588. https://doi.org/10.1126/science.290.5496.1585
Torrey HL, Keren I, Via LE, Lee JS, Lewis K (2016) High persister mutants in Mycobacterium
tuberculosis. PLoS One 11(5):e0155127. https://doi.org/10.1371/journal.pone.0155127
Unger MA, Chou HP, Thorsen T, Scherer A, Quake SR (2000) Monolithic microfabricated
valves and pumps by multilayer soft lithography. Science 288(5463):113–116. https://doi.
org/10.1126/science.288.5463.113
Van den Bergh B, Michiels JE, Wenseleers T, Windels EM, Boer PV, Kestemont D, De Meester L,
Verstrepen KJ, Verstraeten N, Fauvart M, Michiels J (2016) Frequency of antibiotic application
drives rapid evolutionary adaptation of Escherichia coli persistence. Nat Microbiol 1:16020.
https://doi.org/10.1038/nmicrobiol.2016.20
Van den Bergh B, Fauvart M, Michiels J (2017) Formation, physiology, ecology, evolution and
clinical importance of bacterial persisters. FEMS Microbiol Rev 41(3):219–251. https://doi.
org/10.1093/femsre/fux001
van Opijnen T, Camilli A (2013) Transposon insertion sequencing: a new tool for systems-level
analysis of microorganisms. Nat Rev Microbiol 11(7). https://doi.org/10.1038/nrmicro3033
van Opijnen T, Bodi KL, Camilli A (2009) Tn-seq: high-throughput parallel sequencing for fitness
and genetic interaction studies in microorganisms. Nat Methods 6(10):767–U21. https://doi.
org/10.1038/Nmeth.1377
Vrzheshch PV, Akovbian NA, Varfolomeyev SD, Verkhusha VV (2000) Denaturation and partial
renaturation of a tightly tetramerized DsRed protein under mildly acidic conditions. FEBS Lett
487(2):203–208. https://doi.org/10.1016/S0014-5793(00)02344-9
Wang W, Chen J, Chen G, Du X, Cui P, Wu J, Zhao J, Wu N, Zhang W, Li M, Zhang Y (2015)
Transposon mutagenesis identifies novel genes associated with Staphylococcus aureus persister formation. Front Microbiol 6. https://doi.org/10.3389/fmicb.2015.01437
Wang Y, Bojer MS, George SE, Wang ZH, Jensen PR, Wolz C, Ingmer H (2018) Inactivation of
TCA cycle enhances Staphylococcus aureus persister cell formation in stationary phase. Sci
Rep 8. https://doi.org/10.1038/s41598-018-29123-0
Wanner BL (1990) Phosphorus assimilation and its control of gene-expression in Escherichia-coli.
Biol Chem H-S 371(3):180–180
Wilmaerts D, Windels EM, Verstraeten N, Michiels J (2019) General mechanisms leading to
persister formation and awakening. Trends Genet 35(6):401–411. https://doi.org/10.1016/j.
tig.2019.03.007
Wolters DA, Washburn MP, Yates JR (2001) An automated multidimensional protein identification
technology for shotgun proteomics. Anal Chem 73(23):5683–5690. https://doi.org/10.1021/
ac010617e
Wood TK (2016) Combatting bacterial persister cells. Biotechnol Bioeng 113(3):476–483. https://
doi.org/10.1002/bit.25721
Xia AG, Han JD, Jin ZY, Ni L, Yang S, Jin F (2018) Dual-color fluorescent timer enables detection of growth-arrested pathogenic bacterium. Acs Infect Dis 4(12):1666–1670. https://doi.
org/10.1021/acsinfecdis.8b00129
Yaginuma H, Kawai S, Tabata KV, Tomiyama K, Kakizuka A, Komatsuzaki T, Noji H, Imamura H
(2014) Diversity in ATP concentrations in a single bacterial cell population revealed by quantitative single-cell imaging. Sci Rep 4. https://doi.org/10.1038/srep06522
Yamamoto N, Nakahigashi K, Nakamichi T, Yoshino M, Takai Y, Touda Y, Furubayashi A, Kinjyo
S, Dose H, Hasegawa M, Datsenko KA, Nakayashiki T, Tomita M, Wanner BL, Mori H (2009)
Update on the Keio collection of Escherichia coli single-gene deletion mutants. Mol Syst Biol
5. https://doi.org/10.1038/msb.2009.92
Zampieri M, Zimmermann M, Claassen M, Sauer U (2017) Nontargeted metabolomics reveals
the multilevel response to antibiotic perturbations. Cell Rep 19(6):1214–1228. https://doi.
org/10.1016/j.celrep.2017.04.002
X. Duan et al.
Terskikh A, Fradkov A, Ermakova G, Zaraisky A, Tan P, Kajava AV, Zhao X, Lukyanov S, Matz M,
Kim S, Weissman I, Siebert P (2000) “Fluorescent timer”: protein that changes color with time.
Science 290(5496):1585–1588. https://doi.org/10.1126/science.290.5496.1585
Torrey HL, Keren I, Via LE, Lee JS, Lewis K (2016) High persister mutants in Mycobacterium
tuberculosis. PLoS One 11(5):e0155127. https://doi.org/10.1371/journal.pone.0155127
Unger MA, Chou HP, Thorsen T, Scherer A, Quake SR (2000) Monolithic microfabricated
valves and pumps by multilayer soft lithography. Science 288(5463):113–116. https://doi.
org/10.1126/science.288.5463.113
Van den Bergh B, Michiels JE, Wenseleers T, Windels EM, Boer PV, Kestemont D, De Meester L,
Verstrepen KJ, Verstraeten N, Fauvart M, Michiels J (2016) Frequency of antibiotic application
drives rapid evolutionary adaptation of Escherichia coli persistence. Nat Microbiol 1:16020.
https://doi.org/10.1038/nmicrobiol.2016.20
Van den Bergh B, Fauvart M, Michiels J (2017) Formation, physiology, ecology, evolution and
clinical importance of bacterial persisters. FEMS Microbiol Rev 41(3):219–251. https://doi.
org/10.1093/femsre/fux001
van Opijnen T, Camilli A (2013) Transposon insertion sequencing: a new tool for systems-level
analysis of microorganisms. Nat Rev Microbiol 11(7). https://doi.org/10.1038/nrmicro3033
van Opijnen T, Bodi KL, Camilli A (2009) Tn-seq: high-throughput parallel sequencing for fitness
and genetic interaction studies in microorganisms. Nat Methods 6(10):767–U21. https://doi.
org/10.1038/Nmeth.1377
Vrzheshch PV, Akovbian NA, Varfolomeyev SD, Verkhusha VV (2000) Denaturation and partial
renaturation of a tightly tetramerized DsRed protein under mildly acidic conditions. FEBS Lett
487(2):203–208. https://doi.org/10.1016/S0014-5793(00)02344-9
Wang W, Chen J, Chen G, Du X, Cui P, Wu J, Zhao J, Wu N, Zhang W, Li M, Zhang Y (2015)
Transposon mutagenesis identifies novel genes associated with Staphylococcus aureus persister formation. Front Microbiol 6. https://doi.org/10.3389/fmicb.2015.01437
Wang Y, Bojer MS, George SE, Wang ZH, Jensen PR, Wolz C, Ingmer H (2018) Inactivation of
TCA cycle enhances Staphylococcus aureus persister cell formation in stationary phase. Sci
Rep 8. https://doi.org/10.1038/s41598-018-29123-0
Wanner BL (1990) Phosphorus assimilation and its control of gene-expression in Escherichia-coli.
Biol Chem H-S 371(3):180–180
Wilmaerts D, Windels EM, Verstraeten N, Michiels J (2019) General mechanisms leading to
persister formation and awakening. Trends Genet 35(6):401–411. https://doi.org/10.1016/j.
tig.2019.03.007
Wolters DA, Washburn MP, Yates JR (2001) An automated multidimensional protein identification
technology for shotgun proteomics. Anal Chem 73(23):5683–5690. https://doi.org/10.1021/
ac010617e
Wood TK (2016) Combatting bacterial persister cells. Biotechnol Bioeng 113(3):476–483. https://
doi.org/10.1002/bit.25721
Xia AG, Han JD, Jin ZY, Ni L, Yang S, Jin F (2018) Dual-color fluorescent timer enables detection of growth-arrested pathogenic bacterium. Acs Infect Dis 4(12):1666–1670. https://doi.
org/10.1021/acsinfecdis.8b00129
Yaginuma H, Kawai S, Tabata KV, Tomiyama K, Kakizuka A, Komatsuzaki T, Noji H, Imamura H
(2014) Diversity in ATP concentrations in a single bacterial cell population revealed by quantitative single-cell imaging. Sci Rep 4. https://doi.org/10.1038/srep06522
Yamamoto N, Nakahigashi K, Nakamichi T, Yoshino M, Takai Y, Touda Y, Furubayashi A, Kinjyo
S, Dose H, Hasegawa M, Datsenko KA, Nakayashiki T, Tomita M, Wanner BL, Mori H (2009)
Update on the Keio collection of Escherichia coli single-gene deletion mutants. Mol Syst Biol
5. https://doi.org/10.1038/msb.2009.92
Zampieri M, Zimmermann M, Claassen M, Sauer U (2017) Nontargeted metabolomics reveals
the multilevel response to antibiotic perturbations. Cell Rep 19(6):1214–1228. https://doi.
org/10.1016/j.celrep.2017.04.002
X. Duan et al.