The
Brazilian
Journal
of
INFECTIOUS
DISEASES
w w w . e l s e v i e r . c o m / l o c a t e / b j i d
Original
article
Expression
of
the
marA,
soxS,
acrB
and
ramA
genes
related
to
the
AcrAB/TolC
efflux
pump
in
Salmonella
enterica
strains
with
and
without
quinolone
resistance-determining
regions
gyrA
gene
mutations
Rafaela
Gomes
Ferrari
a,∗,
Antonio
Galiana
b,
Rosa
Cremades
b,
Juan
Carlos
Rodríguez
b,
Marciane
Magnani
a,
Maria
Cristina
Bronharo
Tognim
c,
Tereza
C.R.M.
Oliveira
a,
Gloria
Royo
baAgriculturalSciencesCenter,DepartmentofFoodScienceandTechnology,UniversidadeEstadualdeLondrina,Londrina,PR,Brazil bMicrobiologyDepartment,UniversityGeneralHospitalofElche,UniversidadMiguelHernándezdeElche,Elche,Spain
cDepartmentofBasicHealthScience,UniversidadeEstadualdeMaringá,Maringá,PR,Brazil
a
r
t
i
c
l
e
i
n
f
o
Articlehistory:
Received11April2012
Accepted13September2012
Availableonline28February2013
Keywords: Salmonellasp. Fluoroquinolone Effluxpump Antibioticresistance
a
b
s
t
r
a
c
t
Several studieshave been conducted in recentyears to elucidate the structure,
func-tionandsignificanceofAcrB,MarA,SoxSandRamAinSalmonellaenterica.Inthisstudy,
therelativequantificationofacrB,soxS,marAandramAgenesexpressionwasevaluated
in 14 strainsofS. enterica,with or without accompanying mutationsinthe quinolone
resistance-determiningregionsofthegyrAgene,thatwereexposedtociprofloxacin
dur-ingtheexponentialgrowthphase.Thepresenceofciprofloxacinduringthelogphaseof
bacterialgrowthactivatedthegenesmarA,soxS,ramAandacrBinallS.entericastrains
ana-lyzedinthisstudy.ThehighestexpressionlevelsforacrBwereobservedinstrainswith
gyrA mutation,andmarA showedthe highestexpressioninthe strainswithout
muta-tion.Considering onlythestrainswithciprofloxacinminimuminhibitoryconcentration
values<0.125g/mL (sensitivetociprofloxacin),themostexpressed geneinthestrains
both withandwithoutmutationswasacrB.Inthestrainswithciprofloxacin minimum
inhibitoryconcentrationvalues≥0.125g/mL(lowsusceptibility),withandwithout
muta-tionsingyrA,themostexpressedgenewasmarA.Inthisstudy,weobservedthatstrains
resistant tonalidixicacidmayexpressgenesassociatedwiththeeffluxpumpandthe
expressionoftheAcrAB-TolCpumpgenesseemstooccurindependentlyofmutationsin
gyrA.
©2013 ElsevierEditoraLtda.Allrightsreserved.
∗ Correspondingauthorat:CentrodeCiênciasAgrárias,DepartamentodeCiênciaeTecnologiadeAlimentos,UniversidadeEstadualde
Londrina,Av.CelsoGarciaCids/n,Londrina,PR,Brazil.
E-mailaddress:rafaelaferrari@yahoo.com.br(R.G.Ferrari).
1413-8670/$–seefrontmatter©2013 ElsevierEditoraLtda.Allrightsreserved.
Introduction
The resistance of Salmonella enterica to quinolones is
usu-allymediatedbymutationsintopoisomerasegenes.However,
the presence of plasmids and active efflux pumpscan be
determinantfactorsindecreasedantibioticsusceptibilityand
increasedresistance.1
Effluxpumpsactinresponsetobacterialstressandthe
expressionof pumps reducesthe accumulationof organic
compoundsorantimicrobialagentswithinthecellandcan
alsobecausedbychromosomalmutations,resultingin
mul-tiple antibiotic resistance (MAR).2 According to Baucheron
etal.,3effluxpumpsplayanimportantroleinresistance,
espe-ciallywhenfluoroquinolonesareinvolved.
The AcrB efflux pump belongs to the
resistance-nodulation-cell division (RND) superfamily and acts in
associationwithtwotypesofproteins:theoutermembrane
channel (TolC)and a periplasmic ‘adaptor’ protein(AcrA).4
Regulators belonging to the AraC/Xyls family of
transcrip-tional activators,5 i.e. marA,6 soxRS,7 rob,8 and ramA9 have
beenfoundtoactivateacrABtranscriptionbybindingtothe
marboxsequencecharacterizedinitspromoter.10
TheMarAand SoxS proteinscanactivate acrAB
expres-sion. The marRAB operon isresponsible for producing the
MarAtranscriptional activator protein,6 which canbe
syn-thesizedinresponsetothe presenceofantibioticsandcan
resultinthemulti-drugresistancephenotype(MDR).Inturn,
thesoxRSoperonisactivatedinresponsetooxidativestress,
withtheSoxSproteinsubsequentlyactingastranscriptional
activator.11 TheoverexpressionofsoxRSalsocontributesto
increasedantibioticresistanceinGram-negativebacteria.
TheproductoftheramRgeneregulatesthegeneramA,12
whichproducestheproteinRamA.RamAishomologous to
MarAandSoxS.13BacteriaoverexpressingramAmayexhibit
theMDRphenotypebyinducingexpressionofacrABandtolC.9
S.entericastrainswiththetolCgeneexperimentallydeleted
show anincreased susceptibility toantimicrobial agents.14
Similarly,strainsofS.entericashowedhighersusceptibilityto
ciprofloxacinwhenramAwasinactivated.15
Althoughseveralstudieshavebeen conductedinrecent
yearstoelucidatethestructure,functionandsignificanceof
AcrB,MarA,SoxSandRamA,16–18theirregulationinS.
enter-icaisnotfully understood.In thisstudy,the expressionof
acrB,soxS,marAandramAwasevaluatedinfourteenstrains ofS.enterica,withorwithoutaccompanyingmutationsinthe
quinoloneresistance-determiningregions(QRDR)ofthegyrA
gene,thatwereexposedtociprofloxacinduringthe
exponen-tialgrowthphase.
Materials
and
methods
Strains
We analyzed 14 strains of S. enterica that are resistant to
nalidixic acid (NAL). These strains were divided into two
groups:sevenstrainswithout mutationintheQRDRregion
ofthegenesgyrA,gyrB,parCandparEandsevenstrainswith
mutationsin the QRDRof gyrA,but withno mutations in
theQRDRofothergenes.Amongthestrainswithmutations
inthe gyrAQRDR,onewaspositive forthe qnrB19plasmid
gene. Theciprofloxacin minimum inhibitory concentration
(CipMIC)ofeachstrainwasdeterminedusingE-testgradient
strips(ABBiodisk,Solna,Sweden).OncetheCipMIChadbeen
determined, each strainwas cultivated induplicatefor2h
inMueller-Hintonbroth(MHB)andciprofloxacinwasadded
tooneofthetwoculturesataconcentrationcorresponding
tohalfofthecorrespondentlyCipMICofeachstrain.19After
30minofexposuretotheantibioticat37◦C,theculturewas
centrifugedforsubsequentRNAextraction.
RNAisolation
RNAisolationwasperformedaccordingtoChomczynskiand
Sacchi20bytheguanidinium-thiocyanate–phenol–chloroform
method, with some modifications. After centrifugation at
14,000×gfor10min,thesupernatantwasdiscarded,200L
of lysis solution was added and the samples were
incu-batedfor1hat37◦C.Afterthistime, 50Lof1%SDS was
added. Aftervortex agitation,25Lof2MNaCl and200L
phenol:chloroformweremixedintothematerial;whichwas
placedonicefor10min.Thematerialwasthencentrifuged
at 14,000×g for 20min at 4◦C, and the supernatant was
recovered.Anequalvolumeofisopropanolwasaddedtothe
supernatant;mixturewasincubatedat−70◦Cfor2handthen
centrifuged at14,000×g for11minat4◦C.Afterthe
super-natantwasdiscarded,thepelletwasdriedunderairfluxand
thenvortexedin750Lof75%ethanol.Anewcentrifugation
wasconductedat14,000×gfor11minat4◦C;thesupernatant
wasdiscarded;thepelletwasdriedfor1handresuspendedin
30Lofnuclease-freewater(InvitrogenTM).TheRNAsamples
were treatedwithRQ1 DNase(AmbionAM 1906),following
themanufacturer’s instructions.RNApurityand
concentra-tionwasmeasuredusingtheNanodropND-1000.
Reversetranscriptase(RT)
RT reactionswereconductedasdescribedbyChicoetal.,21
using1goftotalRNA,90ngofrandomhexamers(QIAGEN®)
and 0.5mMdNTPs (InvitrogenTM).Prior tocDNA synthesis,
denaturationwasperformedfor5minat65◦C.Afterthisstep,
200UofMMLVreversetranscriptase(InvitrogenTM),10mMof
DTT (InvitrogenTM),and 20unitsofRNaseinhibitor (RNase
OUT,Invitrogen)wereaddedtoeachreactiontoafinal
vol-ume of20L.Thereactionconditionswere 10minat25◦C,
15minat42◦Cand5minat99◦C.
Relativequantificationofgeneexpression
After obtaining the cDNA, quantitative real-time reverse
transcriptase PCR(qRT-PCR) wasperformed using the7500
Real-Time PCR System, SDS software version 1.4 (Applied
Biosystems). The reactions were performed in a final
vol-ume of20L,containing300nM ofeach primer,100nMof
each probe (Table 1), 2L ofcDNA and 1× TaqMan®
uni-versal master mix (Applied Biosystems). Standard curves
wereconstructedtocalculatethegene-specificPCRefficiency
from10-foldseriesdilutionofthemixedcDNAtemplatefor
Table1–TaqMan®primersandprobes.Sequencesof
primersandprobesusedforqRT-PCR(quantitative real-timereversetranscriptasePCR)reactions,designed withthehelpofthePrimerExpressTM2.0software
(AppliedBiosystems).
Primersandprobesa Primerssequences5→3
16s-F CGTGTTGTGAAATGTTGGGTTAA
16s-R CCGCTGGCAACAAAGGATAA
probe16s TCCCGCAACGAGCGCAACC
acrB-F TGAAGACCAGGGCGTATTCCT acrB-R TTTTTGCGTGCGCTCTTG
probeacrB ACAATGGTCCAGCTCCCCGCG
soxS-F CGGAATACACGCGAGAAGGT soxS-R GAGCGCCCGATTTTTGATATC
probesoxS TGCTGCGATACATAGCCCAGGTCCA
marA-F GACCCGGACGTTCAAAAACTAT marA-R TCGCCATGCATATTGGTGAT
probemarA TGATGTGCCGCCACACAAATACCG
ramA-F CCAGAAGGTGTATGATATTTGTCTCAAG ramA-R GGTTGAACGTGCGGGTAAA
proberamA TTGATTCGCAGCAAACCTTTACGCG
a Probe used: 6-carboxyfluorescein (FAM); quencher used: 6-carboxytetramethylrhodamine(TAMRA).
calculated using the formula E=[10(−1/S)]−1, where E
rep-resentsthe calculated efficiency, and Sis the slope ofthe
standardcurve.22 Tocheckallprimers specificity,real-time
PCRwas performed on cDNA and productswere analyzed
byelectrophoresison2%agarosegelandethidiumbromide
staining.NegativeqRT-PCRcontrolwithnotemplateswas
per-formedforeachprimerpair.22
Statisticalanalysis
TheresultswereanalyzedusingSPSS18.0software.The
geo-metric means (GM) of the CipMICs were calculated using
thefollowing
n y1y2y2···ynformula:whereyrepresentstheindividualCipMICofeachstrain,andnrepresentsthetotal
numberofCipMICvalues.23
Results
Thepresenceofciprofloxacinduringthelogphaseof
bacte-rialgrowthactivatedatleastoneofthefourgenestestedin
allS.entericastrainsanalyzedinthis study.Theexpression
levelsofthegenesmarA,soxSandramAwerehigherinthe
strainswithoutamutationingyrA,gyrB,parAorparCthanfor
strainswithmutations.However,thehighestexpressionlevels
foracrBwereobservedinstrainswithgyrAmutation(Fig.1).
The GM value for the four pump genes evaluated in
Salmonellastrainswithoutmutationswas2.70,andforstrains
withamutationingyrAitwas2.13.Amongthestrainsmutated
ingyrA,strain209-2showedhigherexpressionofthegenes
analyzed,witha5.99GM.Incontrast,thestrainwithout
muta-tioningyrAwiththehighestlevelsofgeneexpressionwas
238-2,witha15.38GM(Table2).
Afterassessingthelevelofexpressionforeachgeneinthe
strainswithoutmutation,marAshowedthehighest
expres-sion(GM=6.93),followedbysoxS(GM=2.72),acrB(GM=2.38)
andramA(GM=1.16).InthestrainswithmutationsingyrA,
the gene marA also showed higher levels of gene
expres-sion (GM=3.41) but was followed by acrB (GM=3.25), soxS
(GM=1.77)andramA(GM=1.05).
Considering only the strains with CipMIC
val-ues<0.125g/mL (sensitive to ciprofloxacin), the most
expressedgeneinthestrainsbothwithandwithout
muta-tionswasacrB.Inthethreemutatedstrains,theGMforthis
genewas9.28,andinthestrainwithoutmutationthelevelof
expressionofacrBwas11.8(Table2).
InthestrainswithCipMICvalues≥0.125g/mL(low
sus-ceptibility), withand without mutationsin gyrA,the most
expressedgenewasmarA.Forthefourmutatedstrains,marA
expressionrangedfrom0.98to11.96,andtheGMwas3.36.
In contrast,forthesixstrains withoutmutation, themarA
expressionlevelrangedfrom1.29to122,withaGMof6.62.
AmongthefourstrainswithgyrAmutationsandreduced
susceptibility to ciprofloxacin,strain 288-2, serovar
Heidel-berg,andstrain300-2,serovarEnteritidis,scarcelyexpressed
thepumpgenestested.Ontheotherhand,S.Enteritidisstrain
209-2,despiteaGMof5.99,presentedaCipMICvaluefour
timeslowerthanS.Enteritidisstrain216-2,whichshoweda
GMof1.66(Table2).
Fourofthesixstrainswithoutmutationsandreduced
sus-ceptibilitytociprofloxacinshowedsignificant expressionof
theeffluxpumpgenesevaluated,withGMvaluesbetween4.25
and15.26.Incontrast,strain232-2,withnomutationingyrA
andthelowestlevelofgeneexpressionlinkedtothepump
(GM=0.23),presentedaCipMICvalueof0.5g/mL.Strain
297-2,serovarCorvallis,positivefortheqnrB19plasmidgene,also
presentednoexpressionofanyofthefourgenesstudiedthat
arelinkedtothepumpcomplex(GM=0.65).
Discussion
There are reports that AcrAB pump expression in
Escherichia coli can increase the MIC for ciprofloxacin and
norfloxacin uptofive times.24 In thisstudy,all the strains
evaluated showed expression of at least one gene related
to effluxpumpsinthe presenceofciprofloxacin.However,
the expression ofthese genes and their relationship with
reducedsusceptibilitytociprofloxacinwashighlydivergent,
independentofmutationsingyrA.TheS.Enteritidisstrains
250-2,229-2and213-2,withmutationsingyrAandexpression
of atleast 3 genes linked to the pump, presentedCipMIC
valuesoflessthan0.125g/mL.
However, other S. Enteritidis strains (209-2, 300-2 and
216-2),withgyrAmutationsandbothwithandwithout
expres-sionofthe genesstudied,showedreducedsusceptibilityto
ciprofloxacin.
Baucheronetal.3 havereportedareductionofupto
64-foldinCipMICvaluesafterinhibitionoftheAcrABoperonin
strainsofS.Typhimurium,withorwithoutmutationsingyrA.
Morgan-Linnelletal.25alsofailedtocorrelateAcrAB
expres-sionandthepresenceofmutationsintopoisomerasegenes
withtheMICforfluoroquinolones.Theincreaseinthelevels
ofAcrABexpressiondidnotalwaysincreasetheMICs,
Fig.1–DistributionoftheexpressionlevelsofthemarA,soxS,ramAandacrBgenesstudiedinrelationtoCipMIC(g/mL)
andgyrAgenemutations.WT,wild-typestrain;CIP,ciprofloxacin.
values.Furthermore,theexpressionoftheeffluxpumpwas
reportedasbeingresponsibleonlyforbaselineresistance.26
Inthisstudy,strainsofS.EnteritidiswithoutQRDR
muta-tionsinthe genesgyrA,gyrB,parCorparEshowedreduced
susceptibilitytociprofloxacin.Theexpressionofgenes
asso-ciatedwiththe effluxpumpseemstohaveinfluenced this
reduction.Strains121-1,135-2,91-1and238-2ofS.Enteritidis
showedaGMof4.94,4.25,5.25and15.26,respectively.Inthis
Table2–DistributionofthemutationsobservedinQRDRofthegyrAgeneinSalmonellastrainsofdifferentserovarswith thecorrespondingminimalinhibitoryconcentrationforciprofloxacin(CipMIC)andgeometricmean(GM)data.
Straina Serotype CipMIC(g/mL) Mutation Levelofexpressioninthepresenceofciprofloxacin
soxS db marA db acrB db ramA db GMc
250-2 Enteriditis 0.0156 Ser83-Tyr 1.39 0.11 7.26 0.51 7.67 0.38 2.46 0.26 3.71 229-2 Enteriditis 0.0156 Asp87-Asn 1.88 0.14 2.60 0.47 4.70 0.07 19.43 0.78 4.60 213-2 Enteriditis 0.0156 Asp87-Asn 0.40 0.30 2.26 0.20 22.16 0.16 9.78 0.33 3.74 209-2 Enteriditis 0.1250 Ser83-Tyr 9.65 0.13 11.96 0.30 37.27 0.54 0.30 0.85 5.99 300-2 Enteriditis 0.2500 Ser83-Phe 1.99 0.61 3.16 0.10 0.00 0.00 0.00 0.00 0.50 288-2 Heidelberg 0.5000 Ser83-Tyr 2.71 0.46 0.98 1.30 0.59 0.79 0.00 0.00 0.63 216-2 Enteriditis 0.5000 Ser83-Tyr 1.00 0.11 3.43 0.16 2.20 0.27 1.01 0.70 1.66 238-2 Enteriditis 0.2500 wt 42.2 0.29 9.65 0.40 3.43 0.22 38.85 0.19 15.26 121-1 Enteriditis 0.3800 wt 4.66 0.31 2.82 0.72 7.89 0.40 5.74 0.46 4.94 135-2 Enteriditis 0.3800 wt 2.90 0.45 122 0.20 9.19 0.24 0.00 0.00 4.25 91-1 Enteriditis 0.1250 wt 6.96 0.96 8.50 0.43 1.56 0.14 8.22 0.43 5.25 119-2 Enteriditis 0.0470 wt 2.27 0.18 9.19 0.38 11.80 0.36 1.25 0.30 4.19 232-2 Enteriditis 0.5000 wt 0.16 0.68 1.29 0.39 0.00 0.00 0.13 1.25 0.23 297-2d Corvallis 0.5000 wt 0.79 0.33 2.31 0.13 0.97 0.19 0.00 0.00 0.65
wt,strainwithoutmutationsingyrA,gyrB,parCandparE. a AllstrainswereresistanttoNAL.
b Typicaldeviation.
c Geometricmeanofthefourgenes. d StrainpositiveforqnrB19.
group,itisimportanttonotethatstrain135-2presentedmarA
expressionof122,andstrain238-2ofS.Enteritidisincreased
expressionofboththesoxSandramAgenesaswellasmarA
(Table2).
TheexpressionofmarAisinduced byanumberof
sub-stances,including quinolones.27 ThemarA gene isable to
mediatedrugresistancebydecreasingexpressionoftheOmpF
porinandcausingoverexpressionoftheAcrBeffluxpump.6,16
StudieswithE. colireportedMICvaluesforofloxacinup to
eightfoldhigherinstrainswithoverexpressionofthe marA
gene,in comparisontostrains that onlyhad mutationsin
gyrA.12,28,29Kernetal.30observedthattherateofsuccessful
treatmentofE. coliwithfluoroquinolones was significantly
lower in strains that expressed marA. In clinical isolates,
increasedlevels ofAcrABpumpgeneexpressionmayarise
duetochangesinmarAortobactericidalprotectiongenerated
bytheregulatorsofthisgene.ThefactthatthemarAgeneis
associatedwiththemarRABoperonactivatorsuggestsitsuse
(marA)asatargetforstudiesonstrategiesagainstmicrobial
resistance.25
ThesoxSgenewasthemostexpressed,aftermarA,inthe
non-mutatedstrainsanalyzedinthisstudy.Thisgeneisthe
transcription activatorthat positively regulatesthe
expres-sionofmorethan20genesrelatedtotheincreasedsynthesis
ofproteinsassociatedwiththeAcrAB-TolCeffluxpump.31–33
TheSoxRSregulatorysystemprotectscellsagainstoxidative
stressgeneratedbyvariousantimicrobials.32TheS.Enteritidis
strain238-2,withoutmutationsingyrA,showedexpression
ofthesoxSgeneandreducedsusceptibilitytociprofloxacin.
Kehrenbergetal.34observedaneightfoldincreaseinthe
Cip-MICvaluesofS.VirchowstrainswhensoxSwasexpressedbut
norelationshipwiththepresenceofgyrAmutations.
Theexpressionofeffluxpumpgeneswaspracticallyzero
fortheHeidelbergserovarstrain(GM=0.63),whichshowedthe
highestCipMICamongallthestrainsanalyzedinthisstudy.
Itsuggeststhatthisreductioninsusceptibilityisduetothe
intrinsicresistancecommonlyobservedinthisserovar.35
TheCorvallisserovarpresentedaCipMICof0.5g/mL,but
nomutationintheQRDRregionofthetopoisomerasegenes
thatcorrelateswiththelowexpressionlevelsforthestudied
genesrelatedtoeffluxpumps.However,thereduced
suscep-tibilitytociprofloxacinobservedmayrelatetothepresence
oftheqnrB19plasmidgene. AccordingtoLi,36 theqnrgene
facilitatestheselectionofchromosomalmutationsrelatedto
quinoloneresistanceinS.entericabysignificantlyincreasing
thelevelsatwhichmutantscanbeselected.
The 232-2 S. Enteritidis strain presented a CipMIC of
0.5g/mLanddidnotexpressanyofthestudiedgeneslinked
totheeffluxpump.Itispossiblethatalternativemechanisms
ofgeneregulation,suchasacrR,thatareindependentof
mar-sox-robwereresponsibleforcontrollingtheexpressionofAcrB inS.enterica.37Mutationsingenescontrollingthe
transcrip-tionorexpressionofothergenes,suchasacrD,acrAortolC15
mayalsobeinvolved,inadditiontotheAcrEFeffluxpreviously
describedinS.enterica.38,39
Another possibility for the reduced susceptibility to
ciprofloxacin observed in strain 232-2 could be mutations
ingyrAoutside the QRDRregion.Capooret al.40 have
sug-gested anincreaseto the regionalboundariesthat include
theQRDRofthegyrAgenebecausemutationsassociatedwith
resistancetoquinoloneswere observedbeyondthe current
domain.
In this study,weobserved thatstrains resistant toNAL
may express genes associated with the efflux pump as a
formofprimaryresistancetothisdrug.Thismechanismmay
perform a pre-selectionfor less sensitive strains, with the
subsequentemergenceofmutatedandresistantstrains.One
possiblemechanism toincrease thelife ofquinolonesand
fluoroquinoloneswouldbethedevelopmentofinhibitorsof
theAcrAB-TolCsystem,whichcouldminimizetheselection
ofstrainsresistanttoNAL.TheexpressionoftheAcrAB-TolC
pumpgenesseemstooccurindependentlyofmutationsin
gyrA,becausestrainswithoutmutationsintheQRDRregions
ofthetopoisomerasegenesevaluatedinthisstudypresented
higher expression of the genes associated with the efflux
pumps.However,theresultsindicatetheneedforadditional
studiestobetterunderstandthecomplexinterplaybetween
theexpressionandregulationofeffluxpumpgenesandother
mechanismsofresistancetoquinolonesinS.enterica.
Conflict
of
interest
Allauthorsdeclaretohavenoconflictofinterest.
Acknowledgements
WewouldliketoacknowledgeCNPqandCapesforfinancial
supportintheformofPhDscholarshipsawardedtoRFand
MM.
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