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Table 2 Effect of robAYp overexpression on the transcript levels of efflux pump genes in Y. pestis

From: A multicopy suppressor screening approach as a means to identify antibiotic resistance determinant candidates in Yersinia pestis

Gene namea University of Wisconsinb TIGR SANGER Pump family or protein functionc FCd
(floR) y2173 NT02YP2579 YPO2148 MFS 12.7 ± 2.5
(yieO) y0010 NT02YP0010 YPO0009 MFS 8.6 ± 1.1
(acrA*-acrB) y3392*-y3393 NT02YP4041 YPO1000 RND 6.9 ± 0.4
acrA*-acrB y1050*-y1049 NT02YP1227 YPO3132 RND 5.0 ± 0.4
(acrA*-acrB) y3760*-y3759 NT02YP4463 YPO0420 RND 2.7 ± 0.1
- y4041 NT02YP4789 YPO4020 DMT 1.7 ± 0.9
yegM*-yegN-yegO-yegB y1386*-y1385-y1384-y1383 NT02YP1646 YPO2847 RND 1.4 ± 0.5
(ybjY*-ybjZ) y2814*-y2813 NT02YP3366 YPO1364 ABC 1.4 ± 0.4
(acrA*-acrB) y0702*-y0703 NT02YP0804 YPO3483 RND 1.3 ± 0.3
emrA*-emrB y0922*-y0921 NT02YP1066 YPO3267 MFS 1.3 ± 0.4
(macA*-macB) y1481*-y1480 NT02YP1756 YPO2999 RND 1.3 ± 0.5
ygeD y3180 NT02YP3786 YPO0792 MFS 1.3 ± 0.2
fieF y0060 NT02YP0067 YPO0077 CDF 1.2 ± 0.1
(abgT) y3402 NT02YP4052 YPO1008 IT 1.1 ± 0.2
acrD y1439 NT02YP1705 YPO3043 RND 1.1 ± 0.1
sugE y0613 NT02YP0702 YPO0355 SMR 1.1 ± 0.4
(ynfM) y2108 NT02YP2497 YPO2266 MFS 1.1 ± 0.4
bcr y2916 NT02YP3488 YPO1267 MFS 1.1 ± 0.3
aaeA*-aaeB y0178*-y0177 NT02YP0192 YPO3685 ArAE 1.1 ± 0.0
(yjcR*-Q) y3558*-y3559 NT02YP4231 YPO0619 RND 1.0 ± 0.2
yajR y1017 NT02YP1187 YPO3169 MFS 1.0 ± 0.1
arsB y0844 NT02YP0968 YPO3347 IT 1.0 ± 0.4
corC y1191 NT02YP1397 YPO2617 HCC 0.9 ± 0.1
mdtJ*-mdtI y2242*-y2241 NT02YP2670 YPO2068 SMR 0.8 ± 0.2
rosA y1087 NT02YP1268 YPO3093 MFS 0.8 ± 0.1
ydhC y1948 NT02YP2306 YPO2389 MFS 0.8 ± 0.2
  y3186 NT02YP3792 YPO0798 MFS 0.7 ± 0.1
(ydhE) y1945 NT02YP2302 YPO2392 MATE 0.7 ± 0.1
(ybeQ) y1874 NT02YP2220 YPO1712 MFS 0.7 ± 0.0
mdlA*-mdlB y1039*-y1040 NT02YP1213 YPO3145 ABC 0.7 ± 0.0
ydeF y2653 NT02YP3168 YPO1515 MFS 0.5 ± 0.1
emrE, gacE y2000 NT02YP2368 YPO2333 SMR 0.5 ± 0.0
mdfA, cmr y4067 NT02YP4824 YPO4048 MFS 0.2 ± 0.0
(ydjV) y2272 NT02YP2703 YPO2040 MFS nd
  1. a Gene name as annotated for Y. pestis strain KIM and/or CO92 or gene names (in parentheses) given herein based on the name of their E. coli homologs. Multiple names for the same gene are separated by commas. Genes of multi-component pumps are separated by dashes. The star (*) marks genes from multi-component pump gene clusters whose transcripts were analyzed by qRT-PCR. b Gene designations in the University of Wisconsin, TIGR, and SANGER Y. pestis genome databases. The Wisconsin column shows designations for all the genes in each predicted multi-component pump. TIGR and SANGER columns show only genes targeted in qRT-PCR. c Pump families assigned based on homology to known (super)family members from other organisms. MFS, major facilitator superfamily; SMR, small multidrug resistance family; ABC, ATP-binding cassette superfamily; RND, resistance-nodulation-cell division superfamily; MATE, multidrug and toxic compound extrusion family; DMT, drug/metabolite transporter superfamily; CDF, cation diffusion facilitator family; ArAE, aromatic acid exporter family; IT, Ion transporter superfamily; HCC, HlyC/CorC family. d Fold change values (FC) are means of triplicates ± standard errors and are presented in decreasing order. For polycistronic transcripts, qRT-PCR was conducted with primers targeting the first pump component-encoding gene of the operon. These genes are marked with a star. nd, transcript not detected in any of the three Y. pestis strains examined (wild-type, Yp pGEM-4Z, and Yp pGEM-RobYp).