@article{pmid41290386,

title = {Impact of Small RNA Sponges on Regulatory RNA Networks in Bacteria},

author = {Laura N Vogt and Kathrin S Fröhlich},

doi = {10.1146/annurev-genet-013125-091919},

issn = {1545-2948},

year  = {2025},

date = {2025-11-01},

urldate = {2025-11-01},

journal = {Annu Rev Genet},

volume = {59},

number = {1},

pages = {69–89},

abstract = {Decades of research into the noncoding transcriptome have unveiled a complex, multilayered web of molecular interactions that govern gene expression, protein synthesis, and cellular function, challenging the once-presumed linear simplicity of the flow of genetic information. In bacteria, highly diverse small RNAs (sRNAs) play a crucial role in gene expression, often acting at the heart of large regulatory networks to modulate cellular processes through direct base-pairing interactions with target messenger RNAs (mRNAs). The expression of most sRNAs is tightly controlled at the level of transcription, but RNA sponges have recently emerged as an additional layer of regulation restricting sRNA activity and abundance. By titrating sRNAs and influencing their interactions with target mRNAs and RNA-binding proteins, RNA sponges contribute to the fine-tuning of global gene expression networks. In addition, the integration of RNA sponges into functional loops promotes elegant crosstalk between major regulons at the posttranscriptional level.},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{pmid38377209,

title = {The global RNA-RNA interactome of unveils a small RNA regulator of cell division},

author = {Eric Ruhland and Malte Siemers and Ruman Gerst and Felix Späth and Laura Nicole Vogt and Marc Thilo Figge and Kai Papenfort and Kathrin Sophie Fröhlich},

doi = {10.1073/pnas.2317322121},

issn = {1091-6490},

year  = {2024},

date = {2024-02-01},

urldate = {2024-02-01},

journal = {Proc Natl Acad Sci U S A},

volume = {121},

number = {9},

pages = {e2317322121},

abstract = {The ubiquitous RNA chaperone Hfq is involved in the regulation of key biological processes in many species across the bacterial kingdom. In the opportunistic human pathogen , deletion of the gene affects the global transcriptome, virulence, and stress resistance; however, the ligands of the major RNA-binding protein in this species have remained elusive. In this study, we have combined transcriptomic, co-immunoprecipitation, and global RNA interactome analyses to compile an inventory of conserved and species-specific RNAs bound by Hfq and to monitor Hfq-mediated RNA-RNA interactions. In addition to dozens of RNA-RNA pairs, our study revealed an Hfq-dependent small regulatory RNA (sRNA), DinR, which is processed from the 3' terminal portion of mRNA. Transcription of is controlled by the master regulator of the SOS response, LexA. As DinR accumulates in in response to DNA damage, the sRNA represses translation of the transcript by occupation of the ribosome binding site. Ectopic overexpression of DinR causes depletion of mRNA and inhibition of cell division, while deletion of antagonizes cell elongation in the presence of DNA damage. Collectively, our work highlights the important role of RNA-based gene regulation in and uncovers the central role of DinR in LexA-controlled division inhibition during the SOS response.},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{articlej,

title = {Studies on the Virucidal Effects of UV-C of 233 nm and 275 nm Wavelengths},

author = {Jessica Kohs and Tom Lichtenthäler and Carolyn Gouma and Hyun Cho and Andreas Reith and Axel Kramer and Sven Reiche and Paula Zwicker},

doi = {10.3390/v16121904},

year  = {2024},

date = {2024-01-01},

urldate = {2024-01-01},

journal = {Viruses},

volume = {16},

pages = {1904},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{pmid36708684,

title = {Polymer-based particles against pathogenic fungi: A non-uptake delivery of compounds},

author = {Thomas Orasch and Gauri Gangapurwala and Antje Vollrath and Katherine González and Julien Alex and Alicia De San Luis and Christine Weber and Stephanie Hoeppener and Zoltán Cseresnyés and Marc Thilo Figge and Carlos Guerrero-Sanchez and Ulrich S Schubert and Axel A Brakhage},

doi = {10.1016/j.bioadv.2023.213300},

issn = {2772-9508},

year  = {2023},

date = {2023-03-01},

urldate = {2023-03-01},

journal = {Biomater Adv},

volume = {146},

pages = {213300},

abstract = {The therapy of life-threatening fungal infections is limited and needs urgent improvement. This is in part due to toxic side effects of clinically used antifungal compounds or their limited delivery to fungal structures. Until today, it is a matter of debate how drugs or drug-delivery systems can efficiently reach the intracellular lumen of fungal cells and how this can be improved. Here, we addressed both questions by applying two different polymeric particles for delivery of compounds. Their formulation was based on two biocompatible polymers, i.e., poly(lactic-co-glycolic acid) and poly(methyl methacrylate-stat-methacrylic acid) yielding particles with hydrodynamic diameters ranging from 100 to 300 nm. The polymers were covalently labeled with the fluorescent dye DY-550 to monitor the interaction between particles and fungi by confocal laser scanning microscopy. Furthermore, the fluorescent dye coumarin-6 and the antifungal drug itraconazole were successfully encapsulated in particles to study the fate of both the cargo and the particle when interacting with the clinically most important human-pathogenic fungi Aspergillus fumigatus, A. terreus, Candida albicans, and Cryptococcus neoformans. While the polymers were exclusively located on the fungal surface, the encapsulated cargo was efficiently transported into fungal hyphae, indicated by increased intracellular fluorescence signals due to coumarin-6. In accordance with this finding, compared to the pristine drug a reduced minimal inhibitory concentration for itraconazole was determined, when it was encapsulated. Together, the herein used polymeric particles were not internalized by pathogenic fungi but were able to efficiently deliver hydrophobic cargos into fungal cells.},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{pmid36480041,

title = {Targeting of phagolysosomes containing conidia of the fungus Aspergillus fumigatus with polymeric particles},

author = {Katherine González and Gauri Gangapurwala and Julien Alex and Antje Vollrath and Zoltán Cseresnyés and Christine Weber and Justyna A Czaplewska and Stephanie Hoeppener and Carl-Magnus Svensson and Thomas Orasch and Thorsten Heinekamp and Carlos Guerrero-Sánchez and Marc Thilo Figge and Ulrich S Schubert and Axel A Brakhage},

doi = {10.1007/s00253-022-12287-1},

issn = {1432-0614},

year  = {2023},

date = {2023-02-01},

urldate = {2023-02-01},

journal = {Appl Microbiol Biotechnol},

volume = {107},

number = {2-3},

pages = {819–834},

abstract = {Conidia of the airborne human-pathogenic fungus Aspergillus fumigatus are inhaled by humans. In the lung, they are phagocytosed by alveolar macrophages and intracellularly processed. In macrophages, however, conidia can interfere with the maturation of phagolysosomes to avoid their elimination. To investigate whether polymeric particles (PPs) can reach this intracellular pathogen in macrophages, we formulated dye-labeled PPs with a size allowing for their phagocytosis. PPs were efficiently taken up by RAW 264.7 macrophages and were found in phagolysosomes. When macrophages were infected with conidia prior to the addition of PPs, we found that they co-localized in the same phagolysosomes. Mechanistically, the fusion of phagolysosomes containing PPs with phagolysosomes containing conidia was observed. Increasing concentrations of PPs increased fusion events, resulting in 14% of phagolysosomes containing both conidia and PPs. We demonstrate that PPs can reach conidia-containing phagolysosomes, making these particles a promising carrier system for antimicrobial drugs to target intracellular pathogens. KEY POINTS: • Polymer particles of a size larger than 500 nm are internalized by macrophages and localized in phagolysosomes. • These particles can be delivered to Aspergillus fumigatus conidia-containing phagolysosomes of macrophages. • Enhanced phagolysosome fusion by the use of vacuolin1 can increase particle delivery.},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{pmid32997426,

title = {Effect of Hydrophilic Monomer Distribution on Self-Assembly of a pH-Responsive Copolymer: Spheres, Worms and Vesicles from a Single Copolymer Composition},

author = {Junliang Zhang and Barbara Farias-Mancilla and Ihor Kulai and Stephanie Hoeppener and Barbara Lonetti and Sylvain Prévost and Jens Ulbrich and Mathias Destarac and Olivier Colombani and Ulrich S Schubert and Carlos Guerrero-Sanchez and Simon Harrisson},

doi = {10.1002/anie.202010501},

issn = {1521-3773},

year  = {2021},

date = {2021-02-01},

urldate = {2021-02-01},

journal = {Angew Chem Int Ed Engl},

volume = {60},

number = {9},

pages = {4925–4930},

abstract = {A series of copolymers containing 50 mol % acrylic acid (AA) and 50 mol % butyl acrylate (BA) but with differing composition profiles ranging from an AA-BA diblock copolymer to a linear gradient poly(AA-grad-BA) copolymer were synthesized and their pH-responsive self-assembly behavior was investigated. While assemblies of the AA-BA diblock copolymer were kinetically frozen, the gradient-like compositions underwent reversible changes in size and morphology in response to changes in pH. In particular, a diblock copolymer consisting of two random copolymer segments of equal length (16 mol % and 84 mol % AA content, respectively) formed spherical micelles at pH >5, a mix of spherical and wormlike micelles at pH 5 and vesicles at pH 4. These assemblies were characterized by dynamic light scattering, cryo-transmission electron microscopy and small angle neutron scattering.},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{Peschek2020-qy,

title = {RNA-mediated control of cell shape modulates antibiotic resistance in Vibrio cholerae},

author = {Nikolai Peschek and Roman Herzog and Praveen K Singh and Marcel Sprenger and Fabian Meyer and Kathrin S Fröhlich and Luise Schröger and Marc Bramkamp and Knut Drescher and Kai Papenfort},

year  = {2020},

date = {2020-11-01},

urldate = {2020-11-01},

journal = {Nat. Commun.},

volume = {11},

number = {1},

pages = {6067},

publisher = {Springer Science and Business Media LLC},

abstract = {Vibrio cholerae, the cause of cholera disease, exhibits a 

 characteristic curved rod morphology, which promotes infectivity 

 and motility in dense hydrogels. Periplasmic protein CrvA 

 determines cell curvature in V. cholerae, yet the regulatory 

 factors controlling CrvA are unknown. Here, we discover the VadR 

 small RNA (sRNA) as a post-transcriptional inhibitor of the crvA 

 mRNA. Mutation of vadR increases cell curvature, whereas 

 overexpression has the inverse effect. We show that vadR 

 transcription is activated by the VxrAB two-component system and 

 triggered by cell-wall-targeting antibiotics. V. cholerae cells 

 failing to repress crvA by VadR display decreased survival upon 

 challenge with penicillin G indicating that cell shape 

 maintenance by the sRNA is critical for antibiotic resistance. 

 VadR also blocks the expression of various key biofilm genes and 

 thereby inhibits biofilm formation in V. cholerae. Thus, VadR is 

 an important regulator for synchronizing peptidoglycan 

 integrity, cell shape, and biofilm formation in V. cholerae.},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{pmid32843625,

title = {Calcium-sensing receptor-mediated NLRP3 inflammasome response to calciprotein particles drives inflammation in rheumatoid arthritis},

author = {Elisabeth Jäger and Supriya Murthy and Caroline Schmidt and Magdalena Hahn and Sarah Strobel and Anna Peters and Claudia Stäubert and Pelin Sungur and Tom Venus and Mandy Geisler and Veselina Radusheva and Stefanie Raps and Kathrin Rothe and Roger Scholz and Sebastian Jung and Sylke Wagner and Matthias Pierer and Olga Seifert and Wenhan Chang and Irina Estrela-Lopis and Nora Raulien and Knut Krohn and Norbert Sträter and Stephanie Hoeppener and Torsten Schöneberg and Manuela Rossol and Ulf Wagner},

doi = {10.1038/s41467-020-17749-6},

issn = {2041-1723},

year  = {2020},

date = {2020-08-01},

urldate = {2020-08-01},

journal = {Nat Commun},

volume = {11},

number = {1},

pages = {4243},

abstract = {Increased extracellular Ca concentrations ([Ca]) trigger activation of the NLRP3 inflammasome in monocytes through calcium-sensing receptor (CaSR). To prevent extraosseous calcification in vivo, the serum protein fetuin-A stabilizes calcium and phosphate into 70-100 nm-sized colloidal calciprotein particles (CPPs). Here we show that monocytes engulf CPPs via macropinocytosis, and this process is strictly dependent on CaSR signaling triggered by increases in [Ca]. Enhanced macropinocytosis of CPPs results in increased lysosomal activity, NLRP3 inflammasome activation, and IL-1β release. Monocytes in the context of rheumatoid arthritis (RA) exhibit increased CPP uptake and IL-1β release in response to CaSR signaling. CaSR expression in these monocytes and local [Ca] in afflicted joints are increased, probably contributing to this enhanced response. We propose that CaSR-mediated NLRP3 inflammasome activation contributes to inflammatory arthritis and systemic inflammation not only in RA, but possibly also in other inflammatory conditions. Inhibition of CaSR-mediated CPP uptake might be a therapeutic approach to treating RA.},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{ROMETTE2018127,

title = {The European Virus Archive goes global: A growing resource for research},

author = {J. L. Romette and C. M. Prat and E. A. Gould and X. Lamballerie and R. Charrel and B. Coutard and A. R. Fooks and M. Bardsley and M. Carroll and C. Drosten and J. F. Drexler and S. Günther and B. Klempa and D. Pinschewer and T. Klimkait and T. Avsic-Zupanc and M. R. Capobianchi and A. Dicaro and G. Ippolito and A. Nitsche and M. Koopmans and C. Reusken and A. Gorbalenya and H. Raoul and H. Bourhy and T. Mettenleiter and S. Reiche and C. Batten and C. Sabeta and J. T. Paweska and M. Eropkin and V. Zverev and Z. Hu and S. Mac Cullough and A. Mirazimi and F. Pradel and P. Lieutaud},

url = {https://www.sciencedirect.com/science/article/pii/S0166354218302067},

doi = {https://doi.org/10.1016/j.antiviral.2018.07.017},

issn = {0166-3542},

year  = {2018},

date = {2018-01-01},

urldate = {2018-01-01},

journal = {Antiviral Research},

volume = {158},

pages = {127-134},

abstract = {The European Virus Archive (EVA) was created in 2008 with funding from the FP7-EU Infrastructure Programme, in response to the need for a coordinated and readily accessible collection of viruses that could be made available to academia, public health organisations and industry. Within three years, it developed from a consortium of nine European laboratories to encompass associated partners in Africa, Russia, China, Turkey, Germany and Italy. In 2014, the H2020 Research and Innovation Framework Programme (INFRAS projects) provided support for the transformation of the EVA from a European to a global organization (EVAg). The EVAg now operates as a non-profit consortium, with 26 partners and 20 associated partners from 21 EU and non-EU countries. In this paper, we outline the structure, management and goals of the EVAg, to bring to the attention of researchers the wealth of products it can provide and to illustrate how end-users can gain access to these resources. Organisations or individuals who would like to be considered as contributors are invited to contact the EVAg coordinator, Jean-Louis Romette, at jean-louis.romette@univmed.fr.},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{articlek,

title = {Interplay of regulatory RNAs and mobile genetic elements in enteric pathogens},

author = {Kathrin Fröhlich and Kai Papenfort},

doi = {10.1111/mmi.13428},

year  = {2016},

date = {2016-01-01},

urldate = {2016-01-01},

journal = {Molecular microbiology},

volume = {101},

keywords = {},

pubstate = {published},

tppubtype = {article}

}