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Strain-level characterization without culture enrichment? Easing and accelerating outbreak investigation using shotgun metagenomics facilitated with nanopore adaptive sampling
adaptive sampling, following whole genome amplification to increase the amount of genetic material to meet sequencing standards. The strain-level data analysis was performed as previously described (Buytaers ...
Introduction of WGS in food microbiology: advantages and challenges
the field of bacterial food safety investigation, due to its high discriminatory power and the general use at the international level. Therefore, the Scientific Committee advises the FASFC to gradually ...
Shotgun metagenomics for strain-level food-borne outbreak investigation
Publication Type: Scientific poster, presentation or proceeding Authors: Florence E Buytaers Source: FoodMicro (2022) Service: Activités transversales en génomique appliquée Transversale activiteiten in toegepaste genomica Transversal activities in appli ...
Shotgun metagenomics as a ONE Health tool for better protecting human health
laboratories, however without isolation and in a shorter time-frame. This could be achieved to the strain level even in samples with several E. coli strains. The method was also used to solve a Salmonella ...
RNA-based drug susceptibility testing of Mycobacterium tuberculosis
v and clinical Mtb strains on ten anti- TB drugs including Bedaquiline, Pyrazinamide and Delamanid was determined, to identify RNA Biomarkers. In a next phase, the RNA-based DST was developed in 96 well ...
Global transcriptional analyses of Mycobacterium tuberculosis using old and new drugs
(480 000 new cases), impeding the treatment of infected patients. Current TB drug resistance research is mainly focused on the genomic level, using WGS to search for resistance-causing mutations. ...
Global transcriptional analyses of Mycobacterium tuberculosis using old and new drugs
treatment of infected patients. Current TB drug resistance research is mainly focused on the genomic level, using WGS to search for resistance-causing mutations. However, transcriptional analyses can be ...
WIV-ISP's experiences in the use of MALDI-TOF for the identification of Mycobacteria and their drug resistance profiles
Mycobacteria and their drug resistance profiles. By using an optimized extraction protocol, they successfully identified 88.14 % of 194 Mycobacterial strains at a species-level and 3.09 % at genus-level, using ...
A modern tool for a conservative purpose: the use of MALDI-TOF MS in a fungal culture collection
overall performance of the MALDI- TOF MS reached 84% of correct identifications at species level. Moreover, misidentification at entry in the collection could be corrected for 14 strains by mass ...
RNA-based drug susceptibility testing of Mycobacterium tuberculosis
Fisher) technology. The normalized expression levels are combined to one numeric value which determines the drug susceptibility of the investigated strain. Results We successfully developed 8 primary sets ...