A5013400222- RNA Research and Splicing
- Analytical Chemistry and Chromatography
- RNA modifications and cancer
- Antifungal resistance and susceptibility
- Mass Spectrometry Techniques and Applications
- Metabolomics and Mass Spectrometry Studies
- Advanced Chemical Sensor Technologies
- Helminth infection and control
- MicroRNA in disease regulation
- HIV Research and Treatment
- Bacterial Identification and Susceptibility Testing
- Fungal Infections and Studies
- RNA regulation and disease
- Circular RNAs in diseases
- Microbial Natural Products and Biosynthesis
- Catalytic Alkyne Reactions
- vaccines and immunoinformatics approaches
- Mycotoxins in Agriculture and Food
- Toxoplasma gondii Research Studies
- Catalytic Cross-Coupling Reactions
- Antibiotic Resistance in Bacteria
- Synthetic Organic Chemistry Methods
- Organometallic Complex Synthesis and Catalysis
- Neonatal and fetal brain pathology
- Radioactive element chemistry and processing
Czech Academy of Sciences, Institute of Organic Chemistry and Biochemistry
2023-2025
Czech Academy of Sciences
2017-2023
Czech Academy of Sciences, Institute of Microbiology
2017-2023
Charles University
2012-2016
The gas phase structures of gold(I) complexes formed by intermolecular oxidation selected terminal (phenylacetylene) and internal alkynes (2-butyne, 1-phenylpropyne, diphenylacetylene) were investigated using tandem mass spectrometry ion spectroscopy in conjunction with quantum-chemical calculations. experiments demonstrated that the primarily β-gold(I) vinyloxypyridinium readily undergo rearrangement, dependent on their substituents, to either α-oxo carbenenoids (a synthetic surrogate...
Nicotinamide adenine dinucleotide (NAD) is a critical component of the cellular metabolism and also serves as an alternative 5' cap on various RNAs. However, function NAD RNA still under investigation. We studied capping RNAs in HIV-1-infected cells because HIV-1 responsible for depletion NAD/NADH pool causing intracellular pellagra. By applying captureSeq protocol to uninfected cells, we revealed that four snRNAs (e.g., U1) snoRNAs lost their when infected with HIV-1. Here, provide evidence...
Viroids, small circular non-coding RNAs, act as infectious pathogens in higher plants, demonstrating high stability despite consisting solely of naked RNA. Their dependence replication on host machinery poses the question whether RNA modifications play a role viroid biology. Here, we explore avocado sunblotch (ASBVd) and citrus exocortis (CEVd), representative members viroids replicating chloroplasts nucleus, respectively, using LC – MS Oxford Nanopore Technology (ONT) direct sequencing....
The potential use of Bacillus velezensis FZB42 for biological control various phytopathogens has been documented over the past few years, but its antagonistic interactions with xanthomonads not studied in detail. Novel aspects this study consist close observation death Xanthomonas campestris pv. cells a co-culture B. FZB42, and quantification lipopeptides siderophore, bacillibactin, involved killing process. A new robust Xcc-SU isolate tolerating high concentrations ferric ions was used. In...
A new reaction mechanism for the Lossen rearrangement of hydroxamic acids catalyzed by basic salts is presented. It shown that proceeds in metal complexes deprotonated acids. The deprotonation can occur either at oxygen atom (observed zinc complexes) or nitrogen potassium complexes). Both anionic forms are characterized infrared multiphoton dissociation spectroscopy. rearrangements proceed from reactive N-deprotonated hydroxamates and lead to carbamates. elucidated computational chemistry,...
Abstract Invasive pulmonary aspergillosis results in 450,000 deaths per year and complicates cancer chemotherapy, transplantations the treatment of other immunosuppressed patients. Using a rat model experimental aspergillosis, fungal siderophores ferricrocin triacetylfusarinine C were identified as markers quantified urine, serum lung tissues. Biomarkers analyzed by matrix-assisted laser desorption ionization (MALDI) electrospray mass spectrometry using 12T SolariX Fourier transform ion...
Aspergillus fumigatus is a ubiquitous saprophytic airborne fungus responsible for more than one million deaths every year. The siderophores of A. represent important virulence factors that contribute to the microbiome-metabolome dialog in host. From diagnostic point view, monitoring secondary metabolites urine host promising due non-invasiveness, rapidity, sensitivity and potential standardization. Using model experimental aspergillosis immunocompromised Lewis rats, fungal ferricrocin (FC)...
Gliotoxin, identified from a screen of fungal metabolites, disrupts 7SK snRNP, releases P-TEFb, and reverses HIV-1 latency.
Investigation of catalytic organometallic reactions often relies on mass spectrometry. Frequently, however, possible reaction intermediates along the cycle correspond to same mass-to-charge ratio and have rather similar molecular composition. We shown for C–C coupling between phenylacetylene pyridine catalyzed by ruthenium complex [RuCp(PPh3)(Py)2]+ that using a combination collision-induced dissociation experiments, infrared multiphoton spectroscopy, bimolecular reactions, DFT calculations...
Natural product chemistry, microbiology, and food, human, plant metabolomics represent a few sources of complex data generated by mass spectrometry. Among the medley software tools used to handle these sets, no universal tool can qualitatively, quantitatively, or statistically address major biological questions tasks. CycloBranch 2, an open platform-free software, at least now provides de novo generation molecular formulas unknown compounds in both liquid chromatography/mass spectrometry...
Helium tagging infrared photodissociation (IRPD) spectroscopy for the characterization of organometallic complexes is presented. The IRPD spectrum [RuCp(PPh3)(PhCCH)]+ complex reveals that more than 80% detected ions correspond to a structure with π-coordinated phenylacetylene, and rest are alkyne probably isomerized its vinylidene form. C≡C C–H stretches terminal reflect degree activation triple bond. They used benchmark popular DFT functionals in theoretical studies ruthenium catalysis. It...
The multiple forms of pulmonary aspergillosis caused by Aspergillus species are the most common respiratory mycoses. Although invasive, analysis diagnostic biomarkers in bronchoalveolar lavage fluid (BALF) is a clinical standard for diagnosing these conditions. BALF samples from 22 patients with proven or probable were assayed human pentraxin 3 (Ptx3), fungal ferricrocin (Fc), and triacetylfusarinine C (TafC) retrospective study. infected group included invasive (IPA) chronic (CPA). data...
The recent expansion of the field RNA chemical modifications has changed our understanding post-transcriptional gene regulation. Apart from internal nucleobase modifications, 7-methylguanosine was long thought to be only eukaryotic cap. However, discovery non-canonical caps in eukaryotes revealed a new niche previously undetected modifications. We are first report existence cap, diadenosine tetraphosphate (Ap
Compared with classical matrix-assisted laser-desorption ionization mass spectrometry (MALDI), the matrix free-based strategies generate a cleaner background, without significant noise or interference coming from an applied matrix, which is beneficial for analysis of small molecules, such as drugs abuse. In this work, we probed detection efficiency methamphetamine, heroin and cocaine in nanostructure-assisted laser desorption-ionization (NALDI) desorption electrospray compared sensitivity...
In acutely ill patients, particularly in intensive care units or mixed infections, time to a microbe-specific diagnosis is critical successful outcome of therapy. We report the application evolving technologies involving mass spectrometry diagnose and monitor patient’s course. As proof this concept, we studied five patients used two rat models mono-infection coinfection. noninvasive combined monitoring Aspergillus fumigatus Pseudomonas aeruginosa infection. The invasive coinfection was...
Rhizopus spp. are the most common etiological agents of mucormycosis, causing over 90% mortality in disseminated infections. The diagnosis relies on histopathology, culture, and/or polymerase chain reaction. For first time, glycosylation rhizoferrin (RHF) was described a microsporus clinical isolate by liquid chromatography and accurate tandem mass spectrometry. fermentation broth lyophilizate contained 345.3 ± 13.5, 1.2 0.03, 0.03 0.002 mg/g RHF, imido-RHF, bis-imido-RHF, respectively....
Invasive pulmonary aspergillosis (IPA) may be a rare cause of granulomatous pneumonia in horses. The mortality IPA is almost 100%; direct diagnostic tools horses are needed. Bronchoalveolar lavage fluid (BALF) and serum samples were collected from 18 horses, including individuals suffering (n = 1), equine asthma (EA, n 12), 5 healthy controls. Serum another 6 Samples BALF 18) analyzed for Aspergillus spp. DNA, fungal galactomannan (GM), ferricrocin (Fc), triacetylfusarinin C (TafC),...
Neonatal hypoxic-ischaemic (HI) encephalopathy is among the most serious complications in neonatology. In present study, we studied immediate (0 hour), subacute (36 hours) and late (144 responses of neonatal brain to experimental HI insult laboratory rats. At striatal level, mass spectrometry imaging revealed an aberrant plasma membrane distribution Na+/K+ ions oedema-affected areas. The failure gradients was also apparent magnetic resonance measurements, demonstrating intracellular water...
A procedure for processing frozen rat lung tissue sections scanning electron microscopy (SEM) from deeply samples initially collected and stored matrix-assisted laser desorption/ionization mass spectrometry imaging (MALDI-MSI) was developed. The employed slow thawing of the while floating on surface melting in a fixative solution. After float-washing step, were dehydrated graded ethanol series dried critical point dryer. SEM generated images with well-preserved structures, allowing...
A detailed experimental and DFT study of the S to N alkyl migration substituted S-(1(3H)-isobenzofuranon-3-yl)isothiuronium bromide N,N′-dimethyl-N-(3-oxo-1,3-dihydro-2-benzofuran-1-yl)thiourea provided evidence for existence an unusual double displacement mechanism involving two consecutive back-side SN2 reactions where a carboxylate anion has crucial role both as leaving group well internal nucleophile. The thiazetidine zwitterionic species that is involved in this intermediate was...
Abstract Nicotinamide adenine dinucleotide (NAD) is a critical component of the cellular metabolism and also serves as an alternative 5′ cap on various RNAs. However, function NAD RNA still under investigation. We studied capping RNAs in HIV–1–infected cells because HIV–1 responsible for depletion NAD/NADH pool causing intracellular pellagra. By applying captureSeq protocol to uninfected cells, we revealed that four snRNAs (e.g. U1) snoRNAs lost their when infected with HIV–1. Here, provide...