Methods for the comprehensive identification of antimicrobial resistance markers by sequencing
OwnerAndreas Posch, Jonas Ramoni +2inventors
InventorsAndreas Posch, Jonas Ramoni, Stephan Beisken, Achim Plum
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Abstract
The present invention relates to the systematic identification of antimicrobial resistance markers (biomarkers) in a microorganism for a particular compound and the use of such identified markers for the screening of microorganisms for antimicrobial resistance, as well as for screening/predicting antimicrobial compounds that can overcome the resistance provided by one or more of the antimicrobial resistance marker(s).
Claims17
A method for providing a panel of nucleic acid-encoded antimicrobial resistance (AMR) biomarkers of a microorganism, wherein the panel of AMR biomarkers relates to a compound having antimicrobial activity, the method comprising:
- I (a) culturing the microorganism in the presence of the compound, wherein the compound is present in an amount that does not substantially inhibit wild type growth of the microorganism under the same culture conditions absent the compound, and
- (b) determining the genetic profile of the cultured microorganism obtained in step (a);
- II (c)(i) culturing the microorganism in the presence of the compound, wherein the compound is present in an amount that substantially inhibits wild type growth of the microorganism under the same culture conditions absent the compound, and (ii) selecting a cultured microorganism whose growth in the presence of the compound is substantially the same as in the absence of the compound, and
- (d) determining the genetic profile of the selected microorganism obtained in step (c);
- and
- III (e)(i) culturing the microorganism in the presence of the compound, wherein the compound is present in an amount that substantially inhibits wild type growth of the microorganism under the same culture conditions absent the compound, and (ii) selecting a cultured microorganism whose growth in the presence of the compound is substantially the same as in the absence of the compound, wherein the microorganism is a recombinant microorganism, and
- (f) determining the genetic profile of the selected microorganism obtained in step (e);
- wherein the genetic profiles determined in steps (b), (d), and (f) are each compared to a reference genetic profile of the microorganism to identify a panel of nucleic acid-encoded antimicrobial resistance (AMR) biomarkers relating to the compound.
Dependencies are inferred from the claim text.