METHOD FOR THE IDENTIFICATION OF ORGANISMS FROM SEQUENCING DATA FROM MICROBIAL GENOME COMPARISONS

• Main Authors: Chamarthi, Hareesh, Hoss, Andrew G
• Format: Patent
• Language: English
• Published: 15.07.2021
• Subjects: BEER; BIOCHEMISTRY; CHEMISTRY; COMPOSITIONS OR TEST PAPERS THEREFOR; CONDITION-RESPONSIVE CONTROL IN MICROBIOLOGICAL ORENZYMOLOGICAL PROCESSES; ENZYMOLOGY; INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTEDFOR SPECIFIC APPLICATION FIELDS; MEASURING OR TESTING PROCESSES INVOLVING ENZYMES, NUCLEICACIDS OR MICROORGANISMS; METALLURGY; MICROBIOLOGY; MUTATION OR GENETIC ENGINEERING; PHYSICS; PROCESSES OF PREPARING SUCH COMPOSITIONS; SPIRITS; VINEGAR; WINE

A method (100) for characterizing a sample using a sample characterization system (400), comprising: (i) obtaining (120) sequencing data from the sample; (ii) identifying (130) a genotype of an organism in the sample by comparing the sequencing data to a set of genetic features, comprising genetic features for each of a plurality of different organisms; (iii) selecting (140) which of a plurality of reference genome sets to compare the sequencing data to; (iv) comparing (150) the sequencing data to the selected set of reference genomes; (v) identifying (160) with which reference genome in the selected set of reference genomes the sequencing data most closely aligns, the identification comprising an identification of a species or substrain; and (vi) reporting (170) one or more of the identified genotype of the organism in the sample and the identification of the species or substrain of the organism in the sample.