Skip to main content

Table 1 Predictive performance measured as Spearman correlation for resistance genes commonly used for studies employing qPCR on the richness and abundance of all Resqu and FARME genes

From: The diversity of uncharacterized antibiotic resistance genes can be predicted from known gene variants—but not always

   Abundance prediction Richness prediction Average correlation
Gene name   Resqu FARME Resqu FARME
tet(Q)   0.80 0.65 0.73 0.04 0.56
tet(O)   0.75 0.63 0.70 0.08 0.54
tet(W)   0.78 0.62 0.72 0.04 0.54
erm(F) * 0.57 0.44 0.60 0.08 0.42
erm(B) * 0.52 0.38 0.52 0.02 0.36
tet(M) * 0.56 0.23 0.53 − 0.11 0.30
sul2 * 0.30 0.24 0.39 0.22 0.29
aph(6)-Id ** 0.27 0.17 0.36 0.16 0.24
sul1 * 0.21 0.16 0.30 0.21 0.22
tet(G)   0.20 0.14 0.32 0.21 0.22
tet(A)   0.21 0.16 0.29 0.18 0.21
aac(6′)-Ib ** 0.14 0.13 0.23 0.26 0.19
tet(C)   0.18 0.10 0.25 0.20 0.18
tet(S)   0.15 0.11 0.23 0.15 0.16
sul3   0.13 0.11 0.16 0.08 0.12
qnrS * 0.12 0.10 0.13 0.07 0.10
tet(B)   0.19 0.11 0.19 − 0.06 0.10
bla TEM * 0.10 0.01 0.11 0.14 0.09
tet(E)   0.08 0.06 0.11 0.10 0.09
erm(C)   0.11 −0.05 0.19 − 0.05 0.05
bla CTX-M * 0.00 0.00 0.00 0.00 0.00
bla KPC ** 0.00 0.00 0.00 0.00 0.00
bla NDM ** 0.00 0.00 0.00 0.00 0.00
bla VIM ** 0.00 0.00 0.00 0.00 0.00
  1. Genes with an asterisk were suggested by Berendonk et al. (2015) [25]. Genes with two asterisks were suggested by Berendonk et al. but are not commonly employed in qPCR studies