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A hermetically closed sample chamber enables time-lapse nano-characterization of pathogenic microorganisms<i>in-vitro</i>

2025-01 | Preprint
DOI: 10.1101/2025.01.08.631953
PPR: PPR965658
Contributors: Braun E; Andany SH; Kangül M; Asmari NS; McKinney JD; Fantner GE
Source: Self-asserted source
John D. McKinney via Europe PubMed Central

Open-source microscope add-on for structured illumination microscopy.

Nature communications
2024-02 | Journal article
DOI: 10.1038/s41467-024-45567-7
PMID: 38378733
PMC: PMC10879112
Contributors: Hannebelle MTM; Raeth E; Leitao SM; Lukeš T; Pospíšil J; Toniolo C; Venzin OF; Chrisnandy A; Swain PP; Ronceray N et al.
Source: Self-asserted source
John D. McKinney via Europe PubMed Central

Mechanical morphotype switching as an adaptive response in mycobacteria.

Science advances
2024-01 | Journal article
DOI: 10.1126/sciadv.adh7957
PMID: 38170768
PMC: PMC10776010
Contributors: Eskandarian HA; Chen YX; Toniolo C; Belardinelli JM; Palcekova Z; Hom L; Ashby PD; Fantner GE; Jackson M; McKinney JD et al.
Source: Self-asserted source
John D. McKinney via Europe PubMed Central

Quantification of Mycobacterium tuberculosis Growth in Cell-Based Infection Assays by Time-Lapse Fluorescence Microscopy.

Methods in molecular biology (Clifton, N.J.)
2024-01 | Journal article
DOI: 10.1007/978-1-0716-3890-3_12
PMID: 38888778
Contributors: Toniolo C; Sage D; McKinney JD; Dhar N
Source: Self-asserted source
John D. McKinney via Europe PubMed Central

Revitalizing antibiotic discovery and development through in vitro modelling of in-patient conditions.

Nature microbiology
2024-01 | Journal article
DOI: 10.1038/s41564-023-01566-w
PMID: 38177300
Contributors: Sollier J; Basler M; Broz P; Dittrich PS; Drescher K; Egli A; Harms A; Hierlemann A; Hiller S; King CG et al.
Source: Self-asserted source
John D. McKinney via Europe PubMed Central

Mechanopathology of biofilm-like Mycobacterium tuberculosis cords.

Cell
2023-10 | Journal article
DOI: 10.1016/j.cell.2023.09.016
PMID: 37865090
PMC: PMC10642369
Contributors: Mishra R; Hannebelle M; Patil VP; Dubois A; Garcia-Mouton C; Kirsch GM; Jan M; Sharma K; Guex N; Sordet-Dessimoz J et al.
Source: Self-asserted source
John D. McKinney via Europe PubMed Central

Investigating the composition and recruitment of the mycobacterial ImuA'-ImuB-DnaE2 mutasome.

eLife
2023-08 | Journal article
DOI: 10.7554/elife.75628
PMID: 37530405
PMC: PMC10421592
Contributors: Gessner S; Martin ZA; Reiche MA; Santos JA; Dinkele R; Ramudzuli A; Dhar N; de Wet TJ; Anoosheh S; Lang DM et al.
Source: Self-asserted source
John D. McKinney via Europe PubMed Central

OpenSIM: open source microscope add-on for structured illumination microscopy

2023-06 | Preprint
DOI: 10.1101/2023.06.16.545316
PPR: PPR677847
Contributors: Hannebelle MT; Raeth E; Leitao SM; Lukeš T; Pospíšil J; Toniolo C; Venzin OF; Chrisnandy A; Swain PP; Ronceray N et al.
Source: Self-asserted source
John D. McKinney via Europe PubMed Central

Uptake-independent killing of macrophages by extracellular Mycobacterium tuberculosis aggregates.

The EMBO journal
2023-03 | Journal article
DOI: 10.15252/embj.2023113490
PMID: 36920246
PMC: PMC10152147
Contributors: Toniolo C; Dhar N; McKinney JD
Source: Self-asserted source
John D. McKinney via Europe PubMed Central

Uptake-independent killing of macrophages by extracellular aggregates of<i>Mycobacterium tuberculosis</i>is ESX-1 and PDIM-dependent

2023-01 | Preprint
DOI: 10.1101/2023.01.11.523669
PPR: PPR596054
Contributors: Toniolo C; Dhar N; McKinney JD
Source: Self-asserted source
John D. McKinney via Europe PubMed Central

Preexisting Heterogeneity of Inducible Nitric Oxide Synthase Expression Drives Differential Growth of Mycobacterium tuberculosis in Macrophages.

mBio
2022-09 | Journal article
DOI: 10.1128/mbio.02251-22
PMID: 36121153
PMC: PMC9600446
Contributors: Rutschmann O; Toniolo C; McKinney JD
Source: Self-asserted source
John D. McKinney via Europe PubMed Central

Mechanical morphotype switching as an adaptive response in mycobacteria

2022-04 | Preprint
DOI: 10.1101/2022.04.06.487411
PPR: PPR479141
Contributors: Eskandarian HA; Chen Y; Toniolo C; Belardinelli JM; Palcekova Z; Ashby P; Fantner GE; Jackson M; McKinney JD; Javid B
Source: Self-asserted source
John D. McKinney via Europe PubMed Central

The mycobacterial mutasome: composition and recruitment in live cells

2021-11 | Preprint
DOI: 10.1101/2021.11.16.468908
PPR: PPR421701
Contributors: Gessner S; Martin Z; Reiche MA; Santos JA; Dhar N; Dinkele R; De Wet T; Ramudzuli A; Anoosheh S; Lang DM et al.
Source: Self-asserted source
John D. McKinney via Europe PubMed Central

Dynamic persistence of UPEC intracellular bacterial communities in a human bladder-chip model of urinary tract infection.

eLife
2021-07 | Journal article
DOI: 10.7554/elife.66481
PMID: 34219648
PMC: PMC8354636
Contributors: Sharma K; Dhar N; Thacker VV; Simonet TM; Signorino-Gelo F; Knott GW; McKinney JD
Source: Self-asserted source
John D. McKinney via Europe PubMed Central

Early invasion of the bladder wall by solitary bacteria protects UPEC from antibiotics and neutrophil swarms in an organoid model.

Cell reports
2021-07 | Journal article
DOI: 10.1016/j.celrep.2021.109351
PMID: 34289360
Contributors: Sharma K; Thacker VV; Dhar N; Clapés Cabrer M; Dubois A; Signorino-Gelo F; Mullenders J; Knott GW; Clevers H; McKinney JD
Source: Self-asserted source
John D. McKinney via Europe PubMed Central

Revealing Antibiotic Tolerance of the <i>Mycobacterium smegmatis</i> Xanthine/Uracil Permease Mutant Using Microfluidics and Single-Cell Analysis.

Antibiotics (Basel, Switzerland)
2021-06 | Journal article
DOI: 10.3390/antibiotics10070794
PMID: 34209966
PMC: PMC8300736
Contributors: Elitas M; Dhar N; McKinney JD
Source: Self-asserted source
John D. McKinney via Europe PubMed Central

Rapid endotheliitis and vascular damage characterize SARS-CoV-2 infection in a human lung-on-chip model.

EMBO reports
2021-05 | Journal article
DOI: 10.15252/embr.202152744
PMID: 33908688
PMC: PMC8183417
Contributors: Thacker VV; Sharma K; Dhar N; Mancini GF; Sordet-Dessimoz J; McKinney JD
Source: Self-asserted source
John D. McKinney via Europe PubMed Central

Seeing and Touching the Mycomembrane at the Nanoscale.

Journal of bacteriology
2021-04 | Journal article
DOI: 10.1128/jb.00547-20
PMID: 33468595
PMC: PMC8088606
Contributors: Viljoen A; Räth E; Mckinney JD; Fantner GE; Dufrêne YF
Source: Self-asserted source
John D. McKinney via Europe PubMed Central

Microfluidic-assisted bioprinting of tissues and organoids at high cell concentrations.

Biofabrication
2021-03 | Journal article
DOI: 10.1088/1758-5090/abca80
PMID: 33186924
Contributors: Serex L; Sharma K; Rizov V; Bertsch A; McKinney JD; Renaud P
Source: Self-asserted source
John D. McKinney via Europe PubMed Central

Dynamic persistence of intracellular bacterial communities of uropathogenic<i>Escherichia coli</i>in a human bladder-chip model of urinary tract infections

2021-01 | Preprint
DOI: 10.1101/2021.01.03.424836
PPR: PPR260496
Contributors: Sharma K; Dhar N; Thacker VV; Simonet TM; Signorino-Gelo F; Knott G; McKinney JD
Source: Self-asserted source
John D. McKinney via Europe PubMed Central

A lung-on-chip model of early <i>Mycobacterium tuberculosis</i> infection reveals an essential role for alveolar epithelial cells in controlling bacterial growth.

eLife
2020-11 | Journal article
DOI: 10.7554/elife.59961
PMID: 33228849
PMC: PMC7735758
Contributors: Thacker VV; Dhar N; Sharma K; Barrile R; Karalis K; McKinney JD
Source: Self-asserted source
John D. McKinney via Europe PubMed Central

Do chance encounters between heterogeneous cells shape the outcome of tuberculosis infections?

Current opinion in microbiology
2020-10 | Journal article
DOI: 10.1016/j.mib.2020.08.008
PMID: 33049596
Contributors: Toniolo C; Rutschmann O; McKinney JD
Source: Self-asserted source
John D. McKinney via Europe PubMed Central

Early invasion of uropathogenic<i>Escherichia coli</i>into the bladder wall by solitary bacteria that are protected from antibiotics and neutrophil swarms in an organoid model

2020-10 | Preprint
DOI: 10.1101/2020.10.29.358622
PPR: PPR232360
Contributors: Sharma K; Thacker VV; Dhar N; Signorino-Gelo F; Cabrer MC; Dubois A; Mullenders J; Knott G; Clevers H; McKinney JD
Source: Self-asserted source
John D. McKinney via Europe PubMed Central

Rapid endothelial infection, endothelialitis and vascular damage characterise SARS-CoV-2 infection in a human lung-on-chip model

2020-08 | Preprint
DOI: 10.1101/2020.08.10.243220
PPR: PPR199026
Contributors: Thacker VV; Sharma K; Dhar N; Mancini G; Sordet-Dessimoz J; McKinney JD
Source: Self-asserted source
John D. McKinney via Europe PubMed Central

A lung-on-chip model reveals an essential role for alveolar epithelial cells in controlling bacterial growth during early tuberculosis

2020-02 | Preprint
DOI: 10.1101/2020.02.03.931170
PPR: PPR111461
Contributors: Thacker VV; Dhar N; Sharma K; Barrile R; Karalis K; McKinney JD
Source: Self-asserted source
John D. McKinney via Europe PubMed Central

A biphasic growth model for cell pole elongation in mycobacteria.

Nature communications
2020-01 | Journal article
DOI: 10.1038/s41467-019-14088-z
PMID: 31974342
PMC: PMC6978421
Contributors: Hannebelle MTM; Ven JXY; Toniolo C; Eskandarian HA; Vuaridel-Thurre G; McKinney JD; Fantner GE
Source: Self-asserted source
John D. McKinney via Europe PubMed Central

Computational Analysis of the Mutual Constraints between Single-Cell Growth and Division Control Models.

Advanced biosystems
2019-12 | Journal article
DOI: 10.1002/adbi.201900103
PMID: 32293136
Contributors: Vuaridel-Thurre G; Vuaridel AR; Dhar N; McKinney JD
Source: Self-asserted source
John D. McKinney via Europe PubMed Central

Overlapping and essential roles for molecular and mechanical mechanisms in mycobacterial cell division.

Nature physics
2019-10 | Journal article
DOI: 10.1038/s41567-019-0679-1
PMID: 31921326
PMC: PMC6952280
Contributors: Odermatt PD; Hannebelle MTM; Eskandarian HA; Nievergelt AP; McKinney JD; Fantner GE
Source: Self-asserted source
John D. McKinney via Europe PubMed Central

Preexisting variation in DNA damage response predicts the fate of single mycobacteria under stress.

The EMBO journal
2019-10 | Journal article
DOI: 10.15252/embj.2019101876
PMID: 31583725
PMC: PMC6856624
Contributors: Manina G; Griego A; Singh LK; McKinney JD; Dhar N
Source: Self-asserted source
John D. McKinney via Europe PubMed Central

Fluorescent Benzothiazinone Analogues Efficiently and Selectively Label Dpre1 in Mycobacteria and Actinobacteria.

ACS chemical biology
2018-10 | Journal article
DOI: 10.1021/acschembio.8b00790
PMID: 30289689
Contributors: Sommer R; Neres J; Piton J; Dhar N; van der Sar A; Mukherjee R; Laroche T; Dyson PJ; McKinney JD; Bitter W et al.
Source: Self-asserted source
John D. McKinney via Europe PubMed Central

Maturing <i>Mycobacterium smegmatis</i> peptidoglycan requires non-canonical crosslinks to maintain shape.

eLife
2018-10 | Journal article
DOI: 10.7554/elife.37516
PMID: 30324906
PMC: PMC6231781
Contributors: Baranowski C; Welsh MA; Sham LT; Eskandarian HA; Lim HC; Kieser KJ; Wagner JC; McKinney JD; Fantner GE; Ioerger TR et al.
Source: Self-asserted source
John D. McKinney via Europe PubMed Central

Photothermal off-resonance tapping for rapid and gentle atomic force imaging of live cells

2018-09 | Preprint
DOI: 10.20944/preprints201809.0065.v1
PPR: PPR55172
Contributors: Nievergelt AP; Brillard CC; Eskandarian HA; McKinney JD; Fantner GE
Source: Self-asserted source
John D. McKinney via Europe PubMed Central

Photothermal Off-Resonance Tapping for Rapid and Gentle Atomic Force Imaging of Live Cells.

International journal of molecular sciences
2018-09 | Journal article
DOI: 10.3390/ijms19102984
PMID: 30274330
PMC: PMC6213139
Contributors: Nievergelt AP; Brillard C; Eskandarian HA; McKinney JD; Fantner GE
Source: Self-asserted source
John D. McKinney via Europe PubMed Central

A microfluidic cell-trapping device to study dynamic host-microbe interactions at the single-cell level.

Methods in cell biology
2018-08 | Journal article
DOI: 10.1016/bs.mcb.2018.06.008
PMID: 30165958
Contributors: Toniolo C; Delincé M; McKinney JD
Source: Self-asserted source
John D. McKinney via Europe PubMed Central

Elucidating the role of (p)ppGpp in mycobacterial persistence against antibiotics.

IUBMB life
2018-08 | Journal article
DOI: 10.1002/iub.1888
PMID: 30092117
Contributors: Bhaskar A; De Piano C; Gelman E; McKinney JD; Dhar N
Source: Self-asserted source
John D. McKinney via Europe PubMed Central

Maturing Mycobacterial Peptidoglycan Requires Non-canonical Crosslinks to Maintain Shape

2018-03 | Preprint
DOI: 10.1101/291823
PPR: PPR14229
Contributors: Baranowski C; Welsh MA; Sham L; Eskandarian HA; Lim HC; Kieser KJ; Wagner JC; McKinney JD; Fantner GE; Ioerger TR et al.
Source: Self-asserted source
John D. McKinney via Europe PubMed Central

Division site selection linked to inherited cell surface wave troughs in mycobacteria.

Nature microbiology
2017-06 | Journal article
DOI: 10.1038/nmicrobiol.2017.94
PMID: 28650475
Contributors: Eskandarian HA; Odermatt PD; Ven JXY; Hannebelle MTM; Nievergelt AP; Dhar N; McKinney JD; Fantner GE
Source: Self-asserted source
John D. McKinney via Europe PubMed Central

Identification of aminopyrimidine-sulfonamides as potent modulators of Wag31-mediated cell elongation in mycobacteria.

Molecular microbiology
2016-10 | Journal article
DOI: 10.1111/mmi.13535
PMID: 27677649
Contributors: Singh V; Dhar N; Pató J; Kolly GS; Korduláková J; Forbak M; Evans JC; Székely R; Rybniker J; Palčeková Z et al.
Source: Self-asserted source
John D. McKinney via Europe PubMed Central

The Inosine Monophosphate Dehydrogenase, GuaB2, Is a Vulnerable New Bactericidal Drug Target for Tuberculosis.

ACS infectious diseases
2016-09 | Journal article
DOI: 10.1021/acsinfecdis.6b00102
PMID: 27726334
PMC: PMC5241705
Contributors: Singh V; Donini S; Pacitto A; Sala C; Hartkoorn RC; Dhar N; Keri G; Ascher DB; Mondésert G; Vocat A et al.
Source: Self-asserted source
John D. McKinney via Europe PubMed Central

A microfluidic cell-trapping device for single-cell tracking of host-microbe interactions.

Lab on a chip
2016-08 | Journal article
DOI: 10.1039/c6lc00649c
PMID: 27425421
Contributors: Delincé MJ; Bureau JB; López-Jiménez AT; Cosson P; Soldati T; McKinney JD
Source: Self-asserted source
John D. McKinney via Europe PubMed Central

A rheostat mechanism governs the bifurcation of carbon flux in mycobacteria.

Nature communications
2016-08 | Journal article
DOI: 10.1038/ncomms12527
PMID: 27555519
PMC: PMC4999502
Contributors: Murima P; Zimmermann M; Chopra T; Pojer F; Fonti G; Dal Peraro M; Alonso S; Sauer U; Pethe K; McKinney JD
Source: Self-asserted source
John D. McKinney via Europe PubMed Central

Mycobacterium tuberculosis Phosphate Uptake System Component PstA2 Is Not Required for Gene Regulation or Virulence.

PloS one
2016-08 | Journal article
DOI: 10.1371/journal.pone.0161467
PMID: 27557082
PMC: PMC4996455
Contributors: Tischler AD; Leistikow RL; Ramakrishnan P; Voskuil MI; McKinney JD
Source: Self-asserted source
John D. McKinney via Europe PubMed Central

Antitubercular drugs for an old target: GSK693 as a promising InhA direct inhibitor.

EBioMedicine
2016-05 | Journal article
DOI: 10.1016/j.ebiom.2016.05.006
PMID: 27428438
PMC: PMC4919555
Contributors: Martínez-Hoyos M; Perez-Herran E; Gulten G; Encinas L; Álvarez-Gómez D; Alvarez E; Ferrer-Bazaga S; García-Pérez A; Ortega F; Angulo-Barturen I et al.
Source: Self-asserted source
John D. McKinney via Europe PubMed Central

Mycobacterium tuberculosis Resists Stress by Regulating PE19 Expression.

Infection and immunity
2015-12 | Journal article
DOI: 10.1128/iai.00942-15
PMID: 26712204
PMC: PMC4771341
Contributors: Ramakrishnan P; Aagesen AM; McKinney JD; Tischler AD
Source: Self-asserted source
John D. McKinney via Europe PubMed Central

Whole Cell Target Engagement Identifies Novel Inhibitors of Mycobacterium tuberculosis Decaprenylphosphoryl-β-d-ribose Oxidase.

ACS infectious diseases
2015-08 | Journal article
DOI: 10.1021/acsinfecdis.5b00065
PMID: 27623058
Contributors: Batt SM; Cacho Izquierdo M; Castro Pichel J; Stubbs CJ; Vela-Glez Del Peral L; Pérez-Herrán E; Dhar N; Mouzon B; Rees M; Hutchinson JP et al.
Source: Self-asserted source
John D. McKinney via Europe PubMed Central

Combinations of β-Lactam Antibiotics Currently in Clinical Trials Are Efficacious in a DHP-I-Deficient Mouse Model of Tuberculosis Infection.

Antimicrobial agents and chemotherapy
2015-05 | Journal article
DOI: 10.1128/aac.01063-15
PMID: 25987618
PMC: PMC4505286
Contributors: Rullas J; Dhar N; McKinney JD; García-Pérez A; Lelievre J; Diacon AH; Hugonnet JE; Arthur M; Angulo-Barturen I; Barros-Aguirre D et al.
Source: Self-asserted source
John D. McKinney via Europe PubMed Central

Chromosome organization and replisome dynamics in Mycobacterium smegmatis.

mBio
2015-02 | Journal article
DOI: 10.1128/mbio.01999-14
PMID: 25691587
PMC: PMC4337562
Contributors: Santi I; McKinney JD
Source: Self-asserted source
John D. McKinney via Europe PubMed Central

Single-cell tracking reveals antibiotic-induced changes in mycobacterial energy metabolism.

mBio
2015-02 | Journal article
DOI: 10.1128/mbio.02236-14
PMID: 25691591
PMC: PMC4338811
Contributors: Maglica Ž; Özdemir E; McKinney JD
Source: Self-asserted source
John D. McKinney via Europe PubMed Central

Stress and host immunity amplify Mycobacterium tuberculosis phenotypic heterogeneity and induce nongrowing metabolically active forms.

Cell host & microbe
2014-12 | Journal article
DOI: 10.1016/j.chom.2014.11.016
PMID: 25543231
Contributors: Manina G; Dhar N; McKinney JD
Source: Self-asserted source
John D. McKinney via Europe PubMed Central

Rapid cytolysis of Mycobacterium tuberculosis by faropenem, an orally bioavailable β-lactam antibiotic.

Antimicrobial agents and chemotherapy
2014-11 | Journal article
DOI: 10.1128/aac.03461-14
PMID: 25421469
PMC: PMC4335862
Contributors: Dhar N; Dubée V; Ballell L; Cuinet G; Hugonnet JE; Signorino-Gelo F; Barros D; Arthur M; McKinney JD
Source: Self-asserted source
John D. McKinney via Europe PubMed Central
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