A5003186937- RNA and protein synthesis mechanisms
- Bacterial Genetics and Biotechnology
- Bacteriophages and microbial interactions
- RNA Research and Splicing
- RNA modifications and cancer
- Protein Structure and Dynamics
- Chromatin Remodeling and Cancer
- Protein Degradation and Inhibitors
- CRISPR and Genetic Engineering
- Multiple Myeloma Research and Treatments
- Peptidase Inhibition and Analysis
- Plant Micronutrient Interactions and Effects
- Enzyme Structure and Function
- Oral microbiology and periodontitis research
- interferon and immune responses
- Genomics and Chromatin Dynamics
- Advanced biosensing and bioanalysis techniques
- Legume Nitrogen Fixing Symbiosis
- Biochemical and Structural Characterization
- Molecular Biology Techniques and Applications
- RNA Interference and Gene Delivery
- Plant nutrient uptake and metabolism
International Institute of Molecular and Cell Biology
2024
Johns Hopkins University
2019-2024
University of Warsaw
2021-2023
Adam Mickiewicz University in Poznań
2012-2021
Jagiellonian University
2021
Bacterial regulatory RNAs require the chaperone protein Hfq to enable their pairing mRNAs. Recent data showed that there is a hierarchy among sRNAs in competition for access Hfq, which could be important tuning of sRNA-dependent translation regulation. Here, seven structurally different were compared using filter-based assays. Moreover, chimeric sRNA constructs designed identify structure elements performance. The besides 3′-terminal oligouridine sequences also 5′-terminal essential When...
Abstract RNA-guided enzymes must quickly search a vast sequence space for their targets. This is aided by chaperones such as Hfq, protein that mediates regulation bacterial small RNAs (sRNAs). How RNA binding proteins enhance this little known. Using single-molecule Förster resonance energy transfer, we show E. coli Hfq performs one-dimensional scan in which compaction of the target delivers sRNAs to sites distant from location recruitment. We also can transfer an sRNA between different...
Abstract In Pseudomonas aeruginosa the RNA chaperone Hfq and catabolite repression control protein (Crc) govern translation of numerous transcripts during carbon repression. Here, Crc was shown to enhance Hfq-mediated translational several mRNAs. We have developed a single-molecule fluorescence assay quantitatively assess cooperation form repressive complex on RNA, encompassing initiation region proximal coding sequence P. amiE gene. The presence did not change RNA-Hfq interaction lifetimes,...
SWI/SNF chromatin remodelers are evolutionarily conserved multiprotein complexes that use the energy of ATP hydrolysis to change structure. A characteristic feature is occurrence in both catalytic ATPase subunit and some auxiliary subunits, bromodomains, protein motifs capable binding acetylated histones. Here, we report Arabidopsis bromodomain-containing proteins BRD1, BRD2, BRD13 likely true subunits interact with core components SWI3C SWP73B. Loss function each single BRD caused early...
Inorganic phosphate (Pi) is an easily accessible form of phosphorus for plants. Plant Pi uptake usually limited however by slow diffusion through the soil which strongly adsorps species. Plants have developed mechanisms to increase availability. There are also abiotic (phosphate level) and biotic (e.g., mycorrhizal) factors regulating expression Pi-responsive genes. Transcription binding promoters genes activate different pathways transport, distribution, homeostasis maintenance. metabolism...
We have solved the X-ray crystal structure of RNA chaperone protein Hfq from alpha-proteobacterium Caulobacter crescentus to 2.15-Å resolution, resolving conserved core and entire C-terminal domain (CTD). The reveals that CTD neighboring hexamers pack in contacts, acidic residues at tip interact with positive on rim Hfq, as has been recently proposed for a mechanism modulating binding. De novo computational models predict similar docking against Hfq. also show C. sRNA binding annealing...
is a keystone pathogen of the human dysbiotic oral microbiome that causes severe periodontitis. It employs type-IX secretion system (T9SS) to shuttle proteins across outer membrane (OM) for virulence. Uniquely, T9SS cargoes carry C-terminal domain (CTD) as signal, which cleaved and replaced with anionic lipopolysaccharide by transpeptidation extracellular anchorage OM. Both reactions are carried out PorU, only known dual-function, signal peptidase sortase. PorU itself secreted T9SS, but its...
ATP-dependent SWI/SNF chromatin remodelling complexes are conserved multi-subunit assemblies that control genome activity. Functions of in plant development and growth have been well established, but the architecture particular is unclear. In this study, we elucidate organization Arabidopsis formed around a BRM catalytic subunit, define requirement bromodomain-containing proteins BRD1/2/13 for formation stability entire complex. Using affinity purification followed by mass spectrometry,...
RNA-binding proteins contain intrinsically disordered regions whose functions in RNA recognition are poorly understood. The chaperone Hfq is a homohexamer that contains six flexible C-terminal domains (CTDs). effect of the CTDs on Hfq's integrity and binding has been challenging to study because their sequence identity inherent disorder. We used native mass spectrometry coupled with surface-induced dissociation molecular dynamics simulations disentangle arrangement impact stability
Abstract RNA-binding proteins contain intrinsically disordered regions whose functions in RNA recognition are poorly understood. The chaperone Hfq is a homohexamer that contains six flexible C-terminal domains (CTDs). effect of the CTDs on Hfq’s integrity and binding has been challenging to study because their sequence identity inherent disorder. We used native mass spectrometry (nMS) coupled with surface-induced dissociation (SID) molecular dynamics (MD) simulations disentangle arrangement...
Bacterial small RNAs (sRNAs) in association with the chaperone protein Hfq regulate expression of many target mRNAs. Since sRNAs' action is crucial to engendering a response changing environmental conditions, their activity needs be regulated. One such mechanism occurs at post-transcriptional level and involves sponge RNAs, which sequester sRNAs affecting regulatory output. Both types were identified on Hfq, but it not known how interacts RNA sponges stimulates base-pairing sRNAs. Here, we...
Bacterial small RNAs (sRNAs) regulate the expression of hundreds transcripts via base pairing mediated by Hfq chaperone protein. sRNAs and mRNA sites they target are heterogeneous in sequence, length, secondary structure. To understand how can flexibly match diverse sRNA pairs, we developed a single-molecule Förster resonance energy transfer (smFRET) platform that visualizes search on time scales relevant cells. Here show unfolding structure creates kinetic barrier determines whether...
RNA-guided enzymes must quickly search a vast sequence space for their targets. This is aided by chaperones such as Hfq, protein that mediates regulation bacterial small RNAs (sRNAs). How RNA binding proteins enhance this little known. Using single-molecule Förster resonance energy transfer, we show E. coli Hfq performs one-dimensional scan in which compaction of the target delivers sRNAs to sites distant from location recruitment. We also can transfer an sRNA between different single mRNA,...
ABSTRACT Bacterial small RNAs (sRNAs) in association with the chaperone protein Hfq regulate expression of many target mRNAs. Since sRNAs’ action is crucial to engender a response changing environmental conditions, their activity needs be regulated. One such mechanism occurs at posttranscriptional level and involves sponge (or anti-sRNAs) which sequester sRNAs affecting regulatory output. Both types were identified on Hfq, but it not known how interacts RNA sponges stimulates base-pairing...