• WGS and AMR gene detection from resistant Listeria monocytogenes strains

Summary table

Key	Value
category	assembly-based
platform	illumina
open source	true
reproducible	true

Database

ResFinder v2.1,ARG-ANNOT v4 and CARD v2.0.3 databases in ABRicate

Protocol

• Step 1

Genomic DNA was sequenced using the HiSeq (Illumina)

• Step 2

SOAP de novo v2.04, and SPAdes were used for de novo assembly

• Step 3

Antimicrobial resistance genes were searched through the database using thresholds of ≥ 90.0% for both nucleotide identity and sequence coverage.

Citation

The paper(s) documenting this protocol: Yan S et al. 2019

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