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Table 2 A-C All statistically significant ARGs that are enriched after oral treatment with Ampicillin (A), Ciprofloxacin (B), or Fosfomycin (C)

From: The effect of antibiotics on the gut microbiome: a metagenomics analysis of microbial shift and gut antibiotic resistance in antibiotic treated mice

ARG

Increase/Decrease

24 h

48 h

72 h

A. Ampicillin

 efrB

–

+

–

 LlmA 23S ribosomal RNA methyltransferase

–

+

–

 macB

–

–

+

 mupA

–

+

–

 mupB

–

+

–

 patB

–

+

–

 Streptomyces rishiriensis parY mutant conferring resistance to aminocoumarin

–

+

–

 tetB(46)

–

+

–

 tetB(60)

+

+

–

B. Ciprofloxacin

 ANT(6)-Ib

+

–

–

 arlR

+

–

+

 Bifidobacterium adolescentis rpoB conferring resistance to rifampicin

+

+

–

 cepA beta-lactamase

+

–

+

 cmeB

+

–

–

 efrA

+

–

–

 efrB

+

–

+

 lsaB

–

+

–

 macB

+

–

–

 mupA

–

+

+

 Nocardia rifampin resistant beta-subunit of RNA polymerase (rpoB2)

+

+

+

 Streptomyces rishiriensis parY mutant conferring resistance to aminocoumarin

+

–

–

 TaeA

–

+

–

 tet(W/N/W)

+

–

–

 tetA(60)

+

–

+

 tetB(P)

+

–

–

 tetM

+

–

–

 tetW

+

–

–

 ugd

+

–

–

 vanRC

+

–

+

 vanRG

–

+

–

 vanRI

–

+

–

 vanSC

+

–

–

 vanWG

+

–

–

 vanYG1

–

+

–

C. Fosfomycin

 ANT(6)-Ib

+

–

+

 Bifidobacteria intrinsic ileS conferring resistance to mupirocin

–

+

–

 catB10

+

–

–

 cepA beta-lactamase

+

+

+

 cmeB

+

+

+

 macB

+

–

–

 msbA

+

+

+

 mupB

+

+

+

 Nocardia rifampin resistant beta-subunit of RNA polymerase (rpoB2)

+

+

–

 TaeA

+

+

–

 tet37

+

+

+

 ugd

+

+

+

  1. For each antibiotic cohort, all bacterial ARGs with a statistically significant increase in relative abundance at any timepoints are listed in tabular form. Plus sign in the column for a timepoint indicates that the ARG count increased after administering treatment at that timepoint and a minus sign indicates a decrease in the count