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  1. AU="Maarten Fauvart"
  2. AU="Mohamed, Maryama"
  3. AU="Deignan, Joshua L"
  4. AU="Jaber, Nadia" AU="Jaber, Nadia"
  5. AU=Lanctot Krista L
  6. AU="Ma, Yan-Ming"
  7. AU=Wu Huijuan AU=Wu Huijuan
  8. AU=Li Siwen
  9. AU="Prendergast, Deirdre M"
  10. AU="Saeid Eslami"
  11. AU="Amini, Masoud"
  12. AU="Almeida-de-Oliveira, Natália Ketrin"
  13. AU="Binyamin, Sultana"
  14. AU="Bénédicte Goussault"
  15. AU="Desmettre, Thibault"
  16. AU="Bloom-Ackerman, Zohar"
  17. AU="Allemandou, Delphine"
  18. AU="Negrón Marty, Arnaldo"
  19. AU="Adrian V. Hill"
  20. AU="Du, Jialing"
  21. AU="Marion Migueres"
  22. AU="Sauka-Spengler, Tatjana"
  23. AU="Košir, Mitja"
  24. AU="Narro, Carla"
  25. AU="Antunes-Meireles, Pedro"

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  1. Artikel ; Online: The bacterial cell cycle checkpoint protein Obg and its role in programmed cell death

    Liselot Dewachter / Natalie Verstraeten / Maarten Fauvart / Jan Michiels

    Microbial Cell, Vol 3, Iss 6, Pp 255-

    2016  Band 256

    Abstract: The phenomenon of programmed cell death (PCD), in which cells initiate their own demise, is not restricted to multicellular organisms. Unicellular organisms, both eukaryotes and prokaryotes, also possess pathways that mediate PCD. We recently identified ... ...

    Abstract The phenomenon of programmed cell death (PCD), in which cells initiate their own demise, is not restricted to multicellular organisms. Unicellular organisms, both eukaryotes and prokaryotes, also possess pathways that mediate PCD. We recently identified a PCD mechanism in Escherichia coli that is triggered by a mutant isoform of the essential GTPase ObgE (Obg of E. coli). Importantly, the PCD pathway mediated by mutant Obg (Obg*) differs fundamentally from other previously described bacterial PCD pathways and thus constitutes a new mode of PCD. ObgE was previously proposed to act as a cell cycle checkpoint protein able to halt cell division. The implication of ObgE in the regulation of PCD further increases the similarity between this protein and eukaryotic cell cycle regulators that are capable of doing both. Moreover, since Obg is conserved in eukaryotes, the elucidation of this cell death mechanism might contribute to the understanding of PCD in higher organisms. Additionally, if Obg*-mediated PCD is conserved among different bacterial species, it will be a prime target for the development of innovative antibacterials that artificially induce this pathway.
    Schlagwörter Obg ; ObgE ; CgtA ; programmed cell death ; apoptosis ; Biology (General) ; QH301-705.5
    Thema/Rubrik (Code) 571
    Sprache Englisch
    Erscheinungsdatum 2016-03-01T00:00:00Z
    Verlag Shared Science Publishers OG
    Dokumenttyp Artikel ; Online
    Datenquelle BASE - Bielefeld Academic Search Engine (Lebenswissenschaftliche Auswahl)

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  2. Artikel ; Online: High-throughput time-resolved morphology screening in bacteria reveals phenotypic responses to antibiotics

    Taiyeb Zahir / Rafael Camacho / Raffaele Vitale / Cyril Ruckebusch / Johan Hofkens / Maarten Fauvart / Jan Michiels

    Communications Biology, Vol 2, Iss 1, Pp 1-

    2019  Band 13

    Abstract: In a high-throughput time-resolved microscopy screen, Taiyeb Zahir et al identify bacterial genes mediating morphological changes to antibiotics. An image analysis workflow enables the classification of single cells and deletion strains according to ... ...

    Abstract In a high-throughput time-resolved microscopy screen, Taiyeb Zahir et al identify bacterial genes mediating morphological changes to antibiotics. An image analysis workflow enables the classification of single cells and deletion strains according to morphological changes.
    Schlagwörter Biology (General) ; QH301-705.5
    Sprache Englisch
    Erscheinungsdatum 2019-07-01T00:00:00Z
    Verlag Nature Publishing Group
    Dokumenttyp Artikel ; Online
    Datenquelle BASE - Bielefeld Academic Search Engine (Lebenswissenschaftliche Auswahl)

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  3. Artikel ; Online: Mutations in respiratory complex I promote antibiotic persistence through alterations in intracellular acidity and protein synthesis

    Bram Van den Bergh / Hannah Schramke / Joran Elie Michiels / Tom E. P. Kimkes / Jakub Leszek Radzikowski / Johannes Schimpf / Silke R. Vedelaar / Sabrina Burschel / Liselot Dewachter / Nikola Lončar / Alexander Schmidt / Tim Meijer / Maarten Fauvart / Thorsten Friedrich / Jan Michiels / Matthias Heinemann

    Nature Communications, Vol 13, Iss 1, Pp 1-

    2022  Band 18

    Abstract: Antibiotic persisters are phenotypic variants within an isogenic bacterial population that are transiently tolerant to antibiotic treatment. Here, the authors provide evidence that cytoplasmic acidification, amplified by a compromised respiratory complex ...

    Abstract Antibiotic persisters are phenotypic variants within an isogenic bacterial population that are transiently tolerant to antibiotic treatment. Here, the authors provide evidence that cytoplasmic acidification, amplified by a compromised respiratory complex I, can act as a signaling hub for perturbed metabolic homeostasis in antibiotic persisters.
    Schlagwörter Science ; Q
    Sprache Englisch
    Erscheinungsdatum 2022-01-01T00:00:00Z
    Verlag Nature Portfolio
    Dokumenttyp Artikel ; Online
    Datenquelle BASE - Bielefeld Academic Search Engine (Lebenswissenschaftliche Auswahl)

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  4. Artikel ; Online: Membrane depolarization-triggered responsive diversification leads to antibiotic tolerance

    Natalie Verstraeten / Wouter Joris Knapen / Maarten Fauvart / Jan Michiels

    Microbial Cell, Vol 2, Iss 8, Pp 299-

    2015  Band 301

    Abstract: Bacterial populations are known to harbor a small fraction of so-called persister cells that have the remarkable ability to survive treatment with very high doses of antibiotics. Recent studies underscore the importance of persistence in chronic ... ...

    Abstract Bacterial populations are known to harbor a small fraction of so-called persister cells that have the remarkable ability to survive treatment with very high doses of antibiotics. Recent studies underscore the importance of persistence in chronic infections, yet the nature of persisters remains poorly understood. We recently showed that the universally conserved GTPase Obg modulates persistence via a (p)ppGpp-dependent mechanism that proceeds through expression of hokB. HokB is a membrane-bound toxin that causes the membrane potential to collapse. The resulting drop in cellular energy levels triggers a switch to the persistent state, yielding protection from antibiotic attack. Obg-mediated persistence is conserved in the human pathogen Pseudomonas aeruginosa, making Obg a promising target for therapies directed against bacterial persistence.
    Schlagwörter Obg ; ObgE ; CgtA ; YhbZ ; persistence ; antibiotic tolerance ; (p)ppGpp ; HokB ; toxin antitoxin ; responsive diversification ; membrane depolarization ; Biology (General) ; QH301-705.5
    Sprache Englisch
    Erscheinungsdatum 2015-07-01T00:00:00Z
    Verlag Shared Science Publishers OG
    Dokumenttyp Artikel ; Online
    Datenquelle BASE - Bielefeld Academic Search Engine (Lebenswissenschaftliche Auswahl)

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  5. Artikel: Ultra-fast, sensitive and quantitative on-chip detection of group B streptococci in clinical samples

    Cai, Qing / Benjamin Jones / Maarten Fauvart / Mario Vaneechoutte / Peter Goos / Piet Cools / Rodrigo Sergio Wiederkehr / Tim Stakenborg

    Talanta. 2019 Jan. 15, v. 192

    2019  

    Abstract: PCR enables sensitive and specific detection of infectious disease agents, but application in point-of-care diagnostic testing remains scarce. A compact tool that runs PCR assays in less than a few minutes and that relies on mass-producible, disposable ... ...

    Abstract PCR enables sensitive and specific detection of infectious disease agents, but application in point-of-care diagnostic testing remains scarce. A compact tool that runs PCR assays in less than a few minutes and that relies on mass-producible, disposable reactors could revolutionize while-you-wait molecular testing. We here exploit well-established semiconductor manufacturing processes to produce silicon ultra-fast quantitative PCR (UF-qPCR) chips that can run PCR protocols with limited assay optimization. A total of 110 clinical samples were analyzed for the detection of group B streptococci using both a validated benchtop and an on-chip qPCR assay. For the on-chip assay, the total reaction time was reduced after optimization to less than 5 min. The standard curve, spanning a concentration range of 5 log units, yielded a PCR efficiency of 94%. The sensitivity obtained was 96% (96/100; CI: 90–98%) and the specificity 70% (7/10; CI: 40–90%). We show that if melting analyses would be integrated, the obtained sensitivity would drop slightly to 93% (CI: 86–96%), while the specificity would increase to 100% (CI: 72% − 100%). In comparison to the benchtop reference qPCR assay performed on a LightCycler©96, the on-chip assay demonstrated a highly significant qualitative (Spearman's rank correlation) and quantitative (linear regression) correlation. Using a mass-producible qPCR chip and limited assay optimization, we were able to develop a validated qPCR protocol that can be carried out in less than five minutes. The analytical performance of the microchip-based UF-qPCR system was shown to match that of a benchtop assay. This is the first report to provide UF-qPCR validation using clinical samples. We demonstrate that qPCR-based while-you-wait testing is feasible without jeopardizing assay performance.
    Schlagwörter infectious diseases ; manufacturing ; melting ; point-of-care testing ; protocols ; quantitative polymerase chain reaction ; semiconductors ; silicon ; Streptococcus agalactiae
    Sprache Englisch
    Erscheinungsverlauf 2019-0115
    Umfang p. 220-225.
    Erscheinungsort Elsevier B.V.
    Dokumenttyp Artikel
    ZDB-ID 1500969-5
    ISSN 1873-3573 ; 0039-9140
    ISSN (online) 1873-3573
    ISSN 0039-9140
    DOI 10.1016/j.talanta.2018.09.041
    Datenquelle NAL Katalog (AGRICOLA)

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  6. Artikel ; Online: Model-Driven Controlled Alteration of Nanopillar Cap Architecture Reveals its Effects on Bactericidal Activity

    Taiyeb Zahir / Jiri Pesek / Sabine Franke / Jasper Van Pee / Ashish Rathore / Bart Smeets / Herman Ramon / Xiumei Xu / Maarten Fauvart / Jan Michiels

    Microorganisms, Vol 8, Iss 2, p

    2020  Band 186

    Abstract: Nanostructured surfaces can be engineered to kill bacteria in a contact-dependent manner. The study of bacterial interactions with a nanoscale topology is thus crucial to developing antibacterial surfaces. Here, a systematic study of the effects of ... ...

    Abstract Nanostructured surfaces can be engineered to kill bacteria in a contact-dependent manner. The study of bacterial interactions with a nanoscale topology is thus crucial to developing antibacterial surfaces. Here, a systematic study of the effects of nanoscale topology on bactericidal activity is presented. We describe the antibacterial properties of highly ordered and uniformly arrayed cotton swab-shaped (or mushroom-shaped) nanopillars. These nanostructured surfaces show bactericidal activity against Staphylococcus aureus and Pseudomonas aeruginosa . A biophysical model of the cell envelope in contact with the surface, developed ab initio from the infinitesimal strain theory, suggests that bacterial adhesion and subsequent lysis are highly influenced by the bending rigidity of the cell envelope and the surface topography formed by the nanopillars. We used the biophysical model to analyse the influence of the nanopillar cap geometry on the bactericidal activity and made several geometrical alterations of the nanostructured surface. Measurement of the bactericidal activities of these surfaces confirms model predictions, highlights the non-trivial role of cell envelope bending rigidity, and sheds light on the effects of nanopillar cap architecture on the interactions with the bacterial envelope. More importantly, our results show that the surface nanotopology can be rationally designed to enhance the bactericidal efficiency.
    Schlagwörter nanostructured surface ; antibacterial surface ; bacteriolysis ; nanopillars ; Biology (General) ; QH301-705.5
    Thema/Rubrik (Code) 612
    Sprache Englisch
    Erscheinungsdatum 2020-01-01T00:00:00Z
    Verlag MDPI AG
    Dokumenttyp Artikel ; Online
    Datenquelle BASE - Bielefeld Academic Search Engine (Lebenswissenschaftliche Auswahl)

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  7. Artikel ; Online: Silicon µPCR Chip for Forensic STR Profiling with Hybeacon Probe Melting Curves

    Senne Cornelis / Olivier Tytgat / Maarten Fauvart / Yannick Gansemans / Ann-Sophie Vander Plaetsen / Rodrigo S. Wiederkehr / Dieter Deforce / Filip Van Nieuwerburgh / Tim Stakenborg

    Scientific Reports, Vol 9, Iss 1, Pp 1-

    2019  Band 9

    Abstract: Abstract The demand to perform forensic DNA profiling outside of centralized laboratories and on the crime scene is increasing. Several criminal investigations would benefit tremendously from having DNA based information available in the first hours ... ...

    Abstract Abstract The demand to perform forensic DNA profiling outside of centralized laboratories and on the crime scene is increasing. Several criminal investigations would benefit tremendously from having DNA based information available in the first hours rather than days or weeks. However, due to the complexity and time-consuming nature of standard DNA fingerprinting methods, rapid and automated analyses are hard to achieve. We here demonstrate the implementation of an alternative DNA fingerprinting method in a single microchip. By combining PCR amplification and HyBeacon melting assays in a silicon Lab-on-a-chip (LoC), a significant step towards rapid on-site DNA fingerprinting is taken. The small form factor of a LoC reduces reagent consumption and increases portability. Additional miniaturization is achieved through an integrated heating element covering 24 parallel micro-reactors with a reaction volume of 0.14 µl each. The high level of parallelization allows the simultaneous analysis of 4 short tandem repeat (STR) loci and the amelogenin gender marker commonly included in forensic DNA analysis. A reference and crime scene sample can be analyzed simultaneously for direct comparison. Importantly, by using industry-standard semiconductor manufacturing processes, mass manufacturability can be guaranteed. Following assay design and optimization, complete 5-loci profiles could be robustly generated on-chip that are on par with those obtained using conventional benchtop real-time PCR thermal cyclers. Together, our results are an important step towards the development of commercial, mass-produced, portable devices for on-site testing in forensic DNA analysis.
    Schlagwörter Medicine ; R ; Science ; Q
    Thema/Rubrik (Code) 612
    Sprache Englisch
    Erscheinungsdatum 2019-05-01T00:00:00Z
    Verlag Nature Publishing Group
    Dokumenttyp Artikel ; Online
    Datenquelle BASE - Bielefeld Academic Search Engine (Lebenswissenschaftliche Auswahl)

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  8. Artikel ; Online: Multiplex STR amplification sensitivity in a silicon microchip

    Senne Cornelis / Maarten Fauvart / Yannick Gansemans / Ann-Sophie Vander Plaetsen / Frederik Colle / Rodrigo S. Wiederkehr / Dieter Deforce / Tim Stakenborg / Filip Van Nieuwerburgh

    Scientific Reports, Vol 8, Iss 1, Pp 1-

    2018  Band 8

    Abstract: Abstract The demand for solutions to perform forensic DNA profiling outside of centralized laboratories is increasing. We here demonstrate highly sensitive STR amplification using a silicon micro-PCR (µPCR) chip. Exploiting industry-standard ... ...

    Abstract Abstract The demand for solutions to perform forensic DNA profiling outside of centralized laboratories is increasing. We here demonstrate highly sensitive STR amplification using a silicon micro-PCR (µPCR) chip. Exploiting industry-standard semiconductor manufacturing processes, a device was fabricated that features a small form factor thanks to an integrated heating element covering three parallel micro-reactors with a reaction volume of 0.5 µl each. Diluted reference DNA samples (1 ng–31 pg) were amplified on the µPCR chip using the forensically validated AmpFISTR Identifier Plus kit, followed by conventional capillary electrophoresis. Complete STR profiles were generated with input DNA quantities down to 62 pg. Occasional allelic dropouts were observed from 31 pg downward. On-chip STR profiles were compared with those of identical samples amplified using a conventional thermal cycler for direct comparison of amplification sensitivity in a forensic setting. The observed sensitivity was in line with kit specifications for both µPCR and conventional PCR. Finally, a rapid amplification protocol was developed. Complete STR profiles could be generated in less than 17 minutes from as little as 125 pg template DNA. Together, our results are an important step towards the development of commercial, mass-produced, relatively cheap, handheld devices for on-site testing in forensic DNA analysis.
    Schlagwörter Medicine ; R ; Science ; Q
    Sprache Englisch
    Erscheinungsdatum 2018-06-01T00:00:00Z
    Verlag Nature Publishing Group
    Dokumenttyp Artikel ; Online
    Datenquelle BASE - Bielefeld Academic Search Engine (Lebenswissenschaftliche Auswahl)

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  9. Artikel ; Online: Adaptive tuning of mutation rates allows fast response to lethal stress in Escherichia coli

    Toon Swings / Bram Van den Bergh / Sander Wuyts / Eline Oeyen / Karin Voordeckers / Kevin J Verstrepen / Maarten Fauvart / Natalie Verstraeten / Jan Michiels

    eLife, Vol

    2017  Band 6

    Abstract: While specific mutations allow organisms to adapt to stressful environments, most changes in an organism's DNA negatively impact fitness. The mutation rate is therefore strictly regulated and often considered a slowly-evolving parameter. In contrast, we ... ...

    Abstract While specific mutations allow organisms to adapt to stressful environments, most changes in an organism's DNA negatively impact fitness. The mutation rate is therefore strictly regulated and often considered a slowly-evolving parameter. In contrast, we demonstrate an unexpected flexibility in cellular mutation rates as a response to changes in selective pressure. We show that hypermutation independently evolves when different Escherichia coli cultures adapt to high ethanol stress. Furthermore, hypermutator states are transitory and repeatedly alternate with decreases in mutation rate. Specifically, population mutation rates rise when cells experience higher stress and decline again once cells are adapted. Interestingly, we identified cellular mortality as the major force driving the quick evolution of mutation rates. Together, these findings show how organisms balance robustness and evolvability and help explain the prevalence of hypermutation in various settings, ranging from emergence of antibiotic resistance in microbes to cancer relapses upon chemotherapy.
    Schlagwörter mutagenesis ; evolvability ; hypermutation ; experimental evolution ; ethanol ; mortality ; Medicine ; R ; Science ; Q ; Biology (General) ; QH301-705.5
    Sprache Englisch
    Erscheinungsdatum 2017-05-01T00:00:00Z
    Verlag eLife Sciences Publications Ltd
    Dokumenttyp Artikel ; Online
    Datenquelle BASE - Bielefeld Academic Search Engine (Lebenswissenschaftliche Auswahl)

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  10. Artikel: Stress response regulators identified through genome-wide transcriptome analysis of the (p)ppGpp-dependent response in Rhizobium etli

    Vercruysse, Maarten / Ann Jans / Jan Michiels / Kathleen Marchal / Kristien Braeken / Kristof Engelen / Lore Cloots / Maarten Fauvart / Serge Beullens

    Genome biology. 2011 Sept., v. 12, no. 2

    2011  

    Abstract: BACKGROUND: The alarmone (p)ppGpp mediates a global reprogramming of gene expression upon nutrient limitation and other stresses to cope with these unfavorable conditions. Synthesis of (p)ppGpp is, in most bacteria, controlled by RelA/SpoT (Rsh) proteins. ...

    Abstract BACKGROUND: The alarmone (p)ppGpp mediates a global reprogramming of gene expression upon nutrient limitation and other stresses to cope with these unfavorable conditions. Synthesis of (p)ppGpp is, in most bacteria, controlled by RelA/SpoT (Rsh) proteins. The role of (p)ppGpp has been characterized primarily in Escherichia coli and several Gram-positive bacteria. Here, we report the first in-depth analysis of the (p)ppGpp-regulon in an α-proteobacterium using a high-resolution tiling array to better understand the pleiotropic stress phenotype of a relA/rsh mutant. RESULTS: We compared gene expression of the Rhizobium etli wild type and rsh (previously rel) mutant during exponential and stationary phase, identifying numerous (p)ppGpp targets, including small non-coding RNAs. The majority of the 834 (p)ppGpp-dependent genes were detected during stationary phase. Unexpectedly, 223 genes were expressed (p)ppGpp-dependently during early exponential phase, indicating the hitherto unrecognized importance of (p)ppGpp during active growth. Furthermore, we identified two (p)ppGpp-dependent key regulators for survival during heat and oxidative stress and one regulator putatively involved in metabolic adaptation, namely extracytoplasmic function sigma factor EcfG2/PF00052, transcription factor CH00371, and serine protein kinase PrkA. CONCLUSIONS: The regulatory role of (p)ppGpp in R. etli stress adaptation is far-reaching in redirecting gene expression during all growth phases. Genome-wide transcriptome analysis of a strain deficient in a global regulator, and exhibiting a pleiotropic phenotype, enables the identification of more specific regulators that control genes associated with a subset of stress phenotypes. This work is an important step toward a full understanding of the regulatory network underlying stress responses in α-proteobacteria.
    Schlagwörter Escherichia coli ; gene expression ; genes ; Gram-positive bacteria ; heat ; mutants ; non-coding RNA ; non-specific serine/threonine protein kinase ; oxidative stress ; phenotype ; Rhizobium etli ; stress response ; transcription (genetics) ; transcription factors ; transcriptomics
    Sprache Englisch
    Erscheinungsverlauf 2011-09
    Umfang p. 2487.
    Erscheinungsort Springer-Verlag
    Dokumenttyp Artikel
    ZDB-ID 2040529-7
    ISSN 1474-760X ; 1465-6914 ; 1465-6906
    ISSN (online) 1474-760X ; 1465-6914
    ISSN 1465-6906
    DOI 10.1186/gb-2011-12-2-r17
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