Table 2 Median time in hours(h) for the expected AMR genes detected in the 24 h of sequencing.

From: Evaluation of DNA extraction kits for long-read shotgun metagenomics using Oxford Nanopore sequencing for rapid taxonomic and antimicrobial resistance detection

DNA extraction kits

AMR genes

Median time (h)

Inter quartile range (h)

BS

ctx-m-65

1.8

0.5

kpc-2

1.0

0.3

oxa-66

2.1

8.1

pdc-167

2.0

1.2

oxa-486

0.4

0.5

vanA

0

0

mecA

0

0

CC

ctx-m-65

2.4

0.9

kpc-2

0.7

0.4

oxa-66

4.8

2.7

pdc-167

0.9

0.4

oxa-486

0.8

0.3

vanA

2.8

1.6

mecA

0

7.4

DM

ctx-m-65

1.9

4.6

kpc-2

2.0

1.6

oxa-66

0

0

pdc-167

3.5

4.8

oxa-486

2.0

0.5

vanA

1.2

0.8

mecA

0

0

PF

ctx-m-65

0.7

0.2

kpc-2

1.2

0.4

oxa-66

0.8

1.7

pdc-167

0.4

0.1

oxa-486

0.6

0.5

vanA

1.8

1.4

mecA

1.9

1.8

  1. The median time for the first occurrence of the read with the expected AMR gene is reported. BS Buccal Swab; CC Culture Cells Kit; DM QIAamp DNA Mini; PF QIAamp PowerFecal Pro DNA.
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