A5065713437- Isotope Analysis in Ecology
- Mycobacterium research and diagnosis
- Molecular Biology Techniques and Applications
- Environmental DNA in Biodiversity Studies
- Agriculture, Soil, Plant Science
- Soil and Water Nutrient Dynamics
- Genomics and Phylogenetic Studies
- Plant-Microbe Interactions and Immunity
- Hydrocarbon exploration and reservoir analysis
- Soil Carbon and Nitrogen Dynamics
- Microbial Community Ecology and Physiology
- Pharmaceutical and Antibiotic Environmental Impacts
- Geological Studies and Exploration
- Multimedia Communication and Technology
- Microbial Fuel Cells and Bioremediation
- Tactile and Sensory Interactions
- RNA and protein synthesis mechanisms
- Chromium effects and bioremediation
- Digital Accessibility for Disabilities
- Actinomycetales infections and treatment
- Geochemistry and Geologic Mapping
- Plant Disease Resistance and Genetics
- Geochemistry and Elemental Analysis
- Gut microbiota and health
- Enterobacteriaceae and Cronobacter Research
Institute of Soil Biology
2021-2024
Czech Academy of Sciences, Biology Centre
2021-2024
Czech Academy of Sciences
2022-2024
University of Chemistry and Technology, Prague
2024
Universidad de Los Andes
2016
Abstract. Microbial carbon use efficiency (CUE) in soils is used to estimate the balance of CO2 respired by heterotrophs versus accumulation organic (C). While most CUE studies assume that aerobic respiration predominant degradation process C, anoxic microniches are common inside soil aggregates. Microorganisms these carry out fermentation and anaerobic using alternative electron acceptors, e.g. NO3-, Fe, SO42-. Extracellular metabolites also not traditionally accounted for but may represent...
Methanogens represent the final decomposition step in anaerobic degradation of organic matter, occurring digestive tracts various invertebrates. However, factors determining their community structure and activity distinct gut sections are still debated. In this study, we focused on tropical millipede species Archispirostreptus gigas (Diplopoda, Spirostreptidae) Epibolus pulchripes Pachybolidae), which release considerable amounts methane. We aimed to characterize relationships between...
Notwithstanding the fact that streptomycetes are overlooked in clinical laboratories, studies describing their occurrence disease and potential pathogenicity emerging. Information on species diversity specimens, aetiology appropriate therapeutic treatment is scarce. We identified evaluated antibiotic susceptibility profile of 84 Streptomyces isolates from Czech Republic. In absence disk diffusion (DD) breakpoints for testing (AST) spp., we determined DD by correlation with broth...
Streptomyces sp. TR1341 was isolated from the sputum of a man with history lung and kidney tuberculosis, recurrent respiratory infections, COPD. It produces secondary metabolites associated cytotoxicity immune response modulation. In this study, we complement our previous results by identifying genetic features production these other characteristics that could benefit strain during its colonization human tissues (virulence factors, modification host response, or siderophores). We performed...
Sensory impaired individuals are at a disadvantage in accessing and processing electronic information. The first author (i.e. Thomas Hahn) is legally blind due to Albinism. In this experience report we describe challenges faced by the visually explain how remote access programs combination with voice communication can be used to---at least partially---compensate for those disadvantages because they don't transmit magnification. This property especially important effectively train on new...
The taxonomic position of three actinobacterial strains, BCCO 10_0061 T , 10_0798 and 10_0856 recovered from bare soil in the Sokolov Coal Basin, Czech Republic, was established using a polyphasic approach. multilocus sequence analysis based on 100 single-copy genes positioned same cluster as Lentzea waywayandensis strain flaviverrucosa californiensis violacea albidocapillata clustered together with kentuckyensis alba . Morphological chemotaxonomic characteristics these strains support their...
The following protocol describes how to perform an RNA-Stable Isotope Probing experiment. scope of this only covers the parts involving separating labelled RNA from unlabelled using ultracentrifugation in a caesium trifluoroacetate density gradient and downstream quantification evaluate whether labelling separation were successful. Total should be extracted environmental sample or enrichment culture that was incubated with isotopically-labelled substrate. Labelling can carbon, oxygen...
The following protocol is intended as a downstream application for our Total Nucleic Acids Extraction from Soil protocol. This describes how to purify RNA DNA and extract using TURBO™ DNase GeneJET Cleanup Concentration Micro Kit. simplified condensed version of the full protocols provided by manufacturers.
For the diferential isolation of Clostridium sp.
The following protocol describes how to perform an RNA-Stable Isotope Probing experiment. scope of this only covers the parts involving separating labelled RNA from unlabelled using ultracentrifugation in a caesium trifluoroacetate density gradient and downstream quantification evaluate whether labelling separation were successful. Total should be extracted environmental sample or enrichment culture that was incubated with isotopically-labelled substrate. Labelling can carbon, oxygen...
Universal 16S rRNA probe-based-qPCR assay for bacteria. The primers and probe are taken from Yu et al. (2005).
The following protocol is intended for the quantification of double-stranded DNA using Quant-iT™PicoGreen® dsDNA Assay Kit (ThermoFisher). This a simplified and condensed version full from manufacturer. procedure described here 96 reactions. If samples are run in duplicates, then this should allow quantifying 40 samples.
The following protocol describes how to perform an RNA-Stable Isotope Probing experiment. scope of this only covers the parts involving separating labelled RNA from unlabelled using ultracentrifugation in a caesium trifluoroacetate density gradient and downstream quantification evaluate whether labelling separation were successful. Total should be extracted environmental sample or enrichment culture that was incubated with isotopically-labelled substrate. Labelling can carbon, oxygen...
The following protocol is intended for the simultaneous extraction of DNA and RNA (total nucleic acids, or TNA) from various soil sediment samples. was designed based on two protocols published by Henckel et al. (1999) Griffiths (2000), with several critical modifications. Recently, we have added option to include an ammonium aluminium sulfate salt soils high humic content (Braid al., 2003). result a highly flexible streamlined protocol, which delivers yields acids quality suitable all...
The following protocol is intended for the simultaneous extraction of DNA and RNA (total nucleic acids, or TNA) from various soil sediment samples. was designed based on two protocols published by Henckel et al. (1999) Griffiths (2000), with several critical modifications. Recently, we have added option to include an ammonium aluminium sulfate salt soils high humic content (Braid al., 2003). result a highly flexible streamlined protocol, which delivers yields acids quality suitable all...
The following protocol is intended for the simultaneous extraction of DNA and RNA (total nucleic acids, or TNA) from various soil sediment samples. was designed based on two protocols published by Henckel et al. (1999) Griffiths (2000), with several critical modifications. Recently, we have added option to include an ammonium aluminium sulfate salt soils high humic content (Braid al., 2003). result a highly flexible streamlined protocol, which delivers yields acids quality suitable all...
The following protocol describes how to perform an RNA-Stable Isotope Probing experiment. scope of this only covers the parts involving separating labelled RNA from unlabelled using ultracentrifugation in a caesium trifluoroacetate density gradient and downstream quantification evaluate whether labelling separation were successful. Total should be extracted environmental sample or enrichment culture that was incubated with isotopically-labelled substrate. Labelling can carbon, oxygen...
Universal 16S rRNA probe-based-qPCR assay for bacteria. The primers and probe are taken from Yu et al. (2005).
The following protocol is intended for the quantification of RNA using Quant-iT™ RiboGreen™ Assay Kit (ThermoFisher). This a simplified and condensed version full from manufacturer. procedure described here 96 reactions. If samples are run in duplicates, then this should allow quantifying 40 samples.
Universal 16S rRNA probe-based-qPCR assay for bacteria. The primers and probe are taken from Yu et al. (2005).
The following protocol describes how to perform an RNA-Stable Isotope Probing experiment. scope of this only covers the parts involving separating labelled RNA from unlabelled using ultracentrifugation in a caesium trifluoroacetate density gradient and downstream quantification evaluate whether labelling separation were successful. Total should be extracted environmental sample or enrichment culture that was incubated with isotopically-labelled substrate. Labelling can carbon, oxygen...
The following protocol describes how to perform an RNA-Stable Isotope Probing experiment. scope of this only covers the parts involving separating labelled RNA from unlabelled using ultracentrifugation in a caesium trifluoroacetate density gradient and downstream quantification evaluate whether labelling separation were successful. Total should be extracted environmental sample or enrichment culture that was incubated with isotopically-labelled substrate. Labelling can carbon, oxygen...