Abstract: A process of determining a phenotypic trait of a bacterial strain comprises sequencing part or all of the genome of the strain, and applying to the sequenced genome a predetermined model for predicting the trait, the model having groups of genome sequences as variables. According to the invention, the groups are chosen so that a co-occurrence rate in the genome of the bacterial species of the constituent genome sequences of the groups is above a predetermined threshold, and the groups are clusterings of the genome sequences according to their co-occurrence rates in the genome of the bacterial species.

Abstract: A computer-implemented method for detecting a genome sequence in digital form in a genome of a microorganism in digital form, including:—storing, in a computer memory, a set of digital genome sequences of constant length k, or ‘k-mers’, the set being obtained by sliding, at a constant pitch, a window of length k over the genome sequence;—for each k-mer, determining its absence or presence in the genome;—determining that the genome sequence is present in the genome if the percentage of k-mers detected as present in the genome is higher than a predetermined threshold.