Biomerieux, Inc.

Hospices Civils De Lyon

Maud Tournoud

Pierre Mahe

Guillaume Monneret

Alain Lepape

Fabienne Venet

Marie-Angelique Cazalis

Marie-Angélique Cazalis

Stéphane Schicklin

Ghislaine Guigon

Etienne Ruppe

A method for identifying a pathogen contained in a metagenomic sample and for identifying pathogenic markers in the genome of the pathogen includes: processing the sample to extract DNA from pathogens, sequencing the extracted DNA, thereby producing a set of reads, comparing the reads to a database of genomes of known pathogens to assign reads to the pathogens; producing a pool of reads and assembling them to produce contigs, comparing the contigs to a second database of markers to check whether they contain a marker. The method further includes the step of comparing the reads to the second database to assign reads to the markers, a read being assigned to a marker if it falls entirely into or is astride the marker, and the pool also includes the reads assigned to the markers, the contigs thereby being assembled from reads assigned to a pathogen and reads assigned to markers.

Identification and antibiotic characterization of pathogens in metagenomic sample

A method for determining a quantity Gquantifying the inhibitory capacity of a molecule on a type of microorganism includes: preparing a plurality of samples, including microorganisms of the type, a nutrient medium for the microorganism and an initial amount of the molecule per microorganism increasing in a range [Q,Q] as a function of a classification of the samples; measuring the growth of the microorganisms in the samples as a function of time; and determining the quantity Gas a function of the measurements of the growth. Determination of the quantity Gincludes: for each sample, calculating a value reflecting the growth of the microorganism of said type based on measurements of growth; classifying the values calculated for the samples as a function of the classification of the samples; and determining the quantity Gas a function of the variation of the classified values.

Method and device for characterizing the inhibitory capacity of a molecule on a microorganism

The subject of the invention is a method for making an in vitro prognosis of severity for a patient in septic shock, including the following steps: (i) the level of expression of the expression product of at least one gene chosen from the lilrb2 and lilrb1 genes is measured in vitro on the basis of a biological sample taken from the patient, (ii) the level of expression of the expression product of the at least one gene is compared with a control level of expression, of the expression product of the same gene, with a good prognosis of severity, in which a level of expression of the expression product of the at least one gene below the control level of expression indicates a poor prognosis of severity for the patient, and also a kit for implementing the method.

Method and kit for making an in vitro prognosis of severity for a patient in septic shock

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Grenoble, France

Maud Tournoud