A5070500269- Bacterial Identification and Susceptibility Testing
- Advanced Proteomics Techniques and Applications
- Genomics and Phylogenetic Studies
- Metabolomics and Mass Spectrometry Studies
- Mass Spectrometry Techniques and Applications
- Enterobacteriaceae and Cronobacter Research
- Mycobacterium research and diagnosis
- Probiotics and Fermented Foods
- Bacillus and Francisella bacterial research
- Plant-Microbe Interactions and Immunity
- Yersinia bacterium, plague, ectoparasites research
- Microbial Community Ecology and Physiology
- Antimicrobial Peptides and Activities
- Planetary Science and Exploration
- Biochemical and Structural Characterization
- Antibiotic Resistance in Bacteria
- Folate and B Vitamins Research
- Metabolism and Genetic Disorders
- Chemical Analysis and Environmental Impact
- Identification and Quantification in Food
- Plant Pathogenic Bacteria Studies
- Nematode management and characterization studies
- Neuroscience and Neuropharmacology Research
- Bacteriophages and microbial interactions
- Protein purification and stability
Robert Koch Institute
2016-2025
Polytechnic Institute of Bragança
2024-2025
FHNW University of Applied Sciences and Arts
2023
University of Freiburg
2015-2019
Bruker (Germany)
2010
The main challenge of bottom-up proteomic sample preparation is to extract proteomes in a manner that enables efficient protein digestion for subsequent mass spectrometric analysis. Today's strategies are commonly conceptualized around the removal detergents, which essential extraction but strongly interfere with and LC-MS. These multi-step preparations contribute lack reproducibility as they prone losses, biases contaminations, while being time-consuming labor-intensive. We report...
GABAB receptors (GBRs) are key regulators of synaptic release but little is known about trafficking mechanisms that control their presynaptic abundance. We now show sequence-related epitopes in APP, AJAP-1 and PIANP bind with nanomolar affinities to the N-terminal sushi-domain GBRs. Of three interacting proteins, selectively genetic loss APP impaired GBR-mediated inhibition axonal GBR expression. Proteomic functional analyses revealed associates JIP calsyntenin proteins link APP/GBR complex...
The combination of short liquid chromatography (LC) gradients and data-independent acquisition (DIA) by mass spectrometry (MS) has proven its huge potential for high-throughput proteomics. However, the optimization isolation window schemes resulting in a certain number data points per peak (DPPP) is understudied, although it one most important parameters outcome this methodology. In study, we show that substantially reducing DPPP short-gradient DIA massively increases protein identifications...
Nearly 1400 Bacillus strains growing in the plant rhizosphere were sampled from different sites on Qinghai-Tibetan Plateau. Forty-five of isolates, selected due to their biocontrol activity, genome-sequenced and taxonomic identification revealed that they representatives subtilis species complex (20) cereus group (9). Majority remaining found closely related pumilus, but average nucleotide identity based BLAST electronic DNA/DNA hybridization values excluded closer identification. A total 45...
In silico spectral library prediction of all possible peptides from whole organisms has a great potential for improving proteome profiling by data-independent acquisition (DIA) and extending its scope application. combination with other recent improvements in the field mass spectrometry (MS)-based proteomics, including sample preparation, peptide separation, data analysis, we aimed to uncover full such an advanced DIA strategy optimization acquisition. The results demonstrate that...
Over the past decade, modern methods of MS (MS) have emerged that allow reliable, fast and cost-effective identification pathogenic microorganisms. Although MALDI-TOF has already revolutionized way microorganisms are identified, recent years witnessed also substantial progress in development liquid chromatography (LC)-MS based proteomics for microbiological applications. For example, LC-tandem (LC-MS2) been proposed microbial characterization by means multiple discriminative peptides enable...
Optimizing recovery is crucial for maintaining performance and reducing fatigue injury risk in youth football players. This study applied machine learning (ML) models to classify mental U15, U17, U19 male players using wearable signals, tracking data, psychophysiological features. Over six weeks, training loads were monitored via GPS, scales, heart rate sensors, analyzing variables such as total distance, high-speed running, state, perceived exertion. The data preparation process involved...
We have previously reported the draft genome sequences of 59 endospore-forming Gram-positive bacterial strains isolated from Vietnamese crop plants due to their ability suppress plant pathogens. Based on sequence, eleven them were assigned Brevibacillus and one Lysinibacillus genus. Further analysis including full sequencing revealed that several these represent novel genomospecies. In vitro in vivo assays demonstrated promote growth, as well strong biocontrol potential Brevibacilli directed...
Elimination of chemically synthesized pesticides, such as fungicides and nematicides, in agricultural products is a key to successful practice the Vietnamese agriculture. We describe here route for developing biostimulants based on members Bacillus subtilis species complex. A number endospore-forming Gram-positive bacterial strains with antagonistic action against plant pathogens were isolated from crop plants. Based their draft genome sequence, thirty them assigned Most velezensis . Whole...
Abstract If life exists on Mars, it would face several challenges including the presence of perchlorates, which destabilize biomacromolecules by inducing chaotropic stress. However, little is known about perchlorate toxicity for microorganisms cellular level. Here, we present first proteomic investigation perchlorate‐specific stress responses halotolerant yeast Debaryomyces hansenii and compare these to generally salt adaptations. We found that NaCl NaClO 4 ‐induced stresses share many...
Bacillus cereus plays an often unrecognized role in food borne diseases. Food poisoning caused by this pathogen is manifested either diarrhea or emesis. Due to the relatively high prevalence of emetic toxin cereulide associated poisoning, methods for simple and reliable detection producing strains are utmost importance. Recently, two different studies reported on application MALDI-ToF MS differentiation non-emetic B. direct from bacterial colony smears. However, implementation using routine...
We report the draft genome sequences of 59 Gram-positive bacterial strains that were isolated from Vietnamese crop plants. The assigned to nine different Bacillus and Brevibacillus species. Ten classified as being a sp. (3 strains), (6 or Lysinibacillus (1 strain) could not be identified species level.
Antimicrobial resistance (AMR) poses an increasing challenge for therapy and clinical management of bacterial infections. Currently, antimicrobial detection relies on phenotypic assays, which are performed independently from species identification. Sequencing-based approaches possible alternatives AMR detection, although the analysis proteins should be superior to gene or transcript sequencing phenotype prediction as actual antibiotics is almost exclusively mediated by proteins. In this...
The marine thermophilic archaeon Nanoarchaeum equitans possesses a monomeric primase encompassing the conserved domains of small catalytic and large regulatory subunits archaeoeukaryotic heterodimeric primases in one protein chain. recombinant primes on templates containing triplet with central thymidine, thus displaying pronounced sequence specificity typically observed bacterial type only. N. (NEQ395) is highly active enzyme synthesizing short RNA primers. Termination occurs preferentially...
Seventeen bacterial strains able to suppress plant pathogens have been isolated from healthy Vietnamese crop plants and taxonomically assigned as members of the Bacillus cereus group. In order prove their potential biocontrol agents, we perform a comprehensive analysis that included whole-genome sequencing selected mining for genes gene clusters involved in synthesis endo- exotoxins secondary metabolites, such antimicrobial peptides (AMPs). Kurstakin, thumolycin, other AMPs were detected...
Here, we report the complete genome sequence data of biocontrol strains Bacillus velezensis BP1.2A and BT2.4 isolated from Vietnamese crop plants. The size genomes is 3,916,868 bp (BP1.2A), 3,922,686 (BT2.4), respectively. BioProjects have been deposited at NCBI GenBank. GenBank accession numbers for B. are PRJNA634914 (BP1.2A) PRJNA634832 (BT2.4) BioProjects, CP085504 CP085505 chromosomes, GCA_013284785.2 (BP2.1A), assembly accessions, SAMN15012571 SAMN15009897 BioSamples. Both were closely...
ABSTRACT In silico spectral library prediction of all possible peptides from whole organisms has a great potential for improving proteome profiling by data-independent acquisition (DIA) and extending its scope application. combination with other recent improvements in the field mass spectrometry (MS)-based proteomics, including sample preparation, peptide separation data analysis, we aimed to uncover full such an advanced DIA strategy optimization acquisition. The results demonstrate that...
Seventeen bacterial strains able to suppress plant pathogens have been isolated from healthy Vietnamese crop plants, and taxonomically assigned as members of the Bacillus cereus group. In order prove their potential biocontrol agents, we performed a comprehensive analysis which included whole genome sequencing selected strains, mining for genes gene clusters involved in synthesis endo- exotoxins, secondary metabolites, such antimicrobial peptides (AMPs). Kurstakin, thumolycin, other AMPs...
Seventeen bacterial strains able to suppress plant pathogens have been isolated from healthy Vietnamese crop plants, and taxonomically assigned as members of the Bacillus cereus group. In order prove their potential biocontrol agents, we performed a comprehensive analysis which included whole genome sequencing selected strains, mining for genes gene clusters involved in synthesis endo- exotoxins, secondary metabolites, such antimicrobial peptides (AMPs). Kurstakin, thumolycin, other AMPs...