Contentslistsavailableat SciVerseScienceDirect
Molecular
&
Biochemical
Parasitology
DNA
polymerase
beta
from
Trypanosoma
cruzi
is
involved
in
kinetoplast
DNA
replication
and
repair
of
oxidative
lesions
Bruno
Luiz
Fonseca
Schamber-Reis
a,d,
Sheila
Nardelli
b,
Carlos
Gustavo
Régis-Silva
a,
Priscila
Carneiro
Campos
a,
Paula
Gonc¸
alves
Cerqueira
a,
Sabrina
Almeida
Lima
a,
Glória
Regina
Franco
a,
Andrea
Mara
Macedo
a,
Sergio
Danilo
Junho
Pena
a,
Christophe
Cazaux
e,
Jean-Sébastien
Hoffmann
e,
Maria
Cristina
Machado
Motta
c,
Sergio
Schenkman
b,
Santuza
Maria
Ribeiro
Teixeira
a,
Carlos
Renato
Machado
a,∗ aDepartmentofBiochemistryandImmunology,InstituteofBiologicalSciences,FederalUniversityofMinasGerais,BeloHorizonte,Brazil bMicrobiology,ImmunologyandParasitologyDepartment,FederalUniversityofSãoPaulo,SãoPaulo,BrazilcHerthaMeyerCellularUltrastructureLaboratory,InstituteofBiophysicsCarlosChagasFilho,FederalUniversityofRiodeJaneiro,Brazil
dSchoolofMedicalSciences,SuperiorLearningandDevelopmentCenter(CESED),CampinaGrande,Paraíba,Brazil
eInstituteofPharmacologyandStructuralBiology,UMR5089CNRSandUniversityofToulouse,Toulouse,France
a
r
t
i
c
l
e
i
n
f
o
Articlehistory: Received19April2011
Receivedinrevisedform9February2012 Accepted14February2012
Available online 24 February 2012
Keywords: DNArepair Trypanosomacruzi Oxidativestress Oxoguanine Kinetoplast
a
b
s
t
r
a
c
t
SpecificDNArepairpathwaysfromTrypanosomacruziarebelievedtoprotectgenomicDNAand
kine-toplastDNA(kDNA)frommutations.Particularpathwaysaresupposedtooperateinordertorepair
nucleotidesoxidizedbyreactiveoxygenspecies(ROS)duringparasiteinfection,being
7,8-dihydro-8-oxoguanine(8oxoG)afrequentandhighlymutagenicbasealteration.Ifunrepaired,8oxoGcanleadto
cytotoxicbasetransversionsduringDNAreplication.Inmammals,DNApolymerasebeta(Pol)ismainly
involvedinbaseexcisionrepair(BER)ofoxidativedamage.HoweveritsbiologicalroleinT.cruziisstill
unknown.Weshow,byimmunofluorescencelocalization,thatT.cruziDNApolymerasebeta(Tcpol)
isrestrictedtotheantipodalsitesofkDNAinreplicativeepimastigoteandamastigotedevelopmental
stages,beingstrictlylocalizedtokDNAantipodalsitesbetweenG1/SandearlyG2phaseinreplicative
epimastigotes.Nevertheless,thispolymerasewasdetectedinsidethemitochondrialmatrixof
trypo-mastigoteforms,whicharenotabletoreplicateinculture.ParasitesoverexpressingTcpolshowed
reducedlevelsof8oxoGinkDNAandanincreasedsurvivalaftertreatmentwithhydrogenperoxide
whencomparedtocontrolcells.However,thisresistancewaslostaftertreatingTcpoloverexpressors
withmethoxiamine,apotentBERinhibitor.Curiously,apresumedDNArepairfocuscontainingTcpol
wasidentifiedinthevicinityofkDNAofculturedwildtypeepimastigotesaftertreatmentwithhydrogen
peroxide.TakentogetherourdatasuggestparticipationofTcpolduringkDNAreplicationandrepairof
oxidativeDNAdamageinducedbygenotoxicstressinthisorganelle.
© 2012 Elsevier B.V.
1. Introduction
Knowledgeregarding mitochondrialDNA repairpathwaysin
protozoanparasitesofmedicalrelevancelikeTrypanosomacruzi,
thecausativeagentof ChagasDisease,isscarceand stillpoorly
understood.T. cruzipossesses onesinglemitochondrion witha
condensedgenomeinacatenatednetworkoftopologically
inter-locked minicircles and maxicircles, known as kinetoplast DNA
(kDNA)[1,2].Whilethousandsofminicircles,comprising90%ofthe
∗Corresponding author at: ICB/UFMG, Department of Biochemistry and Immunology,Av.AntonioCarlos,6627Pampulha,31270-901BeloHorizonte,MG, Brazil.Tel.:+553134092643.
E-mailaddress:crmachad@icb.ufmg.br(C.R.Machado).
network,encodesmallguideRNAsusedinRNAediting[3],dozens
of maxicirclesencoderibosomal RNAsand proteinsinvolved in
mitochondrialenergytransductionascytochromeb,subunitsof
cytochromeoxidaseandsubunitsofNADHdehydrogenase[4].The
maintenanceofkDNAintegrityisvitalforparasitesurvival
dur-ingitslifecycleinsidemammaliancells,wheretheyhavetodeal
withcellulardefenseresponsesthatusuallyinvolveoxygenburst.
Therefore,understandinghowkDNAintegrityismaintainedduring
theparasitelifecycleiscrucialtoidentifypotentialtherapeutical
targetsagainstthisdisease.
Inmammaliancells,reactiveoxygenspecies(ROS)aremostly
producedendogenouslybynormalcellrespiration,andthe
mito-chondrion is believed to be the main intracellular site of ROS
generation[5].Mitochondrialelectrontransportchainactivityis
responsible forthe generationof more than95% of superoxide
0166-6851© 2012 Elsevier B.V. doi:10.1016/j.molbiopara.2012.02.007
Open access under the Elsevier OA license.
183 (2012) 122–131 123
anionsproducedinsidecells, beingconsideredanabundantand
highly reactive intracellular ROS in mammals [6]. In order to
reducepotentialdownstreamdamage,superoxidesareconverted
tohydrogenperoxide(H2O2)bysuperoxidedismutase.Hydrogen
peroxideis freelydiffusibleacrossmembranes and canoxidize
nucleosidesanddamagebasesinnuclearandmitochondrialDNA
[7].Acommonsite ofoxidativedamageiscarbon8ofguanine,
whichleadstoformationof7,8-dihidro-8-oxoguanine(8oxoG).If
unrepaired,8oxoGcanleadtopotentiallymutagenicandcytotoxic
GC-TAtransversionsduringcellreplication[8].Studiesin
mam-malshaveshownthatthefrequencyof8oxoGonmitochondrial
DNA is 20-fold higher than that observed onnuclear DNA [9],
witha8oxoG/dGrelationbetween0.5to4.24×10−6[10–12].In
addition,themajorityofmutationsintroducedinmitochondrial
DNAcanbedirectlycorrelatedwithquantified8oxoGinmtDNA
[13].Itisreasonabletoconsiderthatmitochondrialoxidative
bur-denmayalsotargetkDNAintrypanosomes.Inordertominimize
the deleterious action of ROS, trypanosomes evolved a unique
biochemicalsystemtodealwithredoxmetabolism.Althoughthey
lackcatalaseandglutathioneperoxidase[14],athioldependent
antioxidantsystemisactivetoeliminatehydrogenperoxideand
associatedbyproducts[15,16].Anti-oxidativeprotectionprovided
bypeculiardetoxifying enzymesistheprimarydefense against
oxidativestressintrypanosomes.Cytosolicandmitochondrial
try-paredoxinperoxidases,involvedprimarilyinmetabolizingH2O2
and short-chain organichydroperoxides by using tryparedoxin
asanelectrondonorviatrypanothione,havebeendescribedinT.
cruzi[17]andT.brucei[18].However,thesesystemsareproneto
saturationandresidualoxidativemoleculescandamagenuclear
andkinetoplastDNA.DNArepairmechanismsprobablyevolvedto
specificallycircumventpre-mutagenicalterationsinthegenome.
SeveralDNA repairputativegeneswerepredictedin T.cruzi
genome[19],includingthoseencodingelementsinvolvedinbase
excision repair (BER) pathway. BER is one of the most
impor-tantpathwaysimplicatedincorrectingoxidativedamageinDNA
[20,21],andcanbereproducedinvitrowithfewpurifiedproteins
fromhumanandEscherichiacoliorigin[22–24].DNArepair
oper-atedbyBERcanoccurviatwosub-pathways.Inshort-patchBER,a
monofunctionalglycosilasecatalyzestheremovalofthedamaged
base,leavinganapurinic/apyrimidinicsite(APsite).Thissubstrate
isrecognizedbyanAP-endonuclease,thatcleavesthe
phosphodi-esterbond5′totheAPsite[22].Thisstepisfollowedbyinsertion
ofthecorrectnucleotidetothe3′-OHendoftheincisedAPsiteand
posteriorexcisionoftheremainingsugar-phosphatemoiety(lyase
activity),beingbothprocessescatalyzedbyDNApolymerasebeta.
DNApolymerasebeta(Pol)belongstotheXfamilyofDNA
poly-merasesandactsasthemaindRPlyaseeffectorinvolvedinrepair
ofoxidativebaselesions[25–27].
Ontheotherhand,long-patch BERis initiatedwiththe
dis-placementofashortsingle-strandDNA segmentcontainingthe
lesion(usuallyintherangeof2–6nucleotides)carriedoneither
byPolorPol␦[28].This“flap”oligonucleotideisthenreleasedby
FEN1endonuclease[29–31].Inbothshort-andlong-patchBER,the
remainingnickissealedbyaDNAligase.Catalyticmeasurements
usingreconstitutedenzymaticsystemsinvitrosuggestedthatthe
rate-limitingstepduringBERistheremovalofdRPcatalyzedbythe
8kDadomainofPol[32].Thisway,Polplaysanessentialrole
inorientingthelesiontoberepairedthroughshort-orlong-patch
BER,dependingonthetypeofthelesioninvolved.
It is generally accepted that Pol is implicated during the
repairof8oxoGandotheroxidizedpyrimidinesinnuclearDNA
[27,33,34].T.cruzigenomecodesfor twoDNApolymerasebeta
genes(Tcpoland Tcpol-PAK) that showidentity with
mam-malian Pol [35–38].Previous findingspublished byourgroup
havelocalizedbothpolymerases inside themitochondrionof T.
cruzi[38].Wehaveshownpolymeraseandlyaseactivityforboth
proteinsinvitro[38].However,onlyTcpolwasunableto
per-formtranslesionsynthesis(TLS)across8oxoG[38].Forthisreason,
wedecidedtoinvestigateifTcpolwasthemainDNApolymerase
operatingduring BER.In thiswork weprovidestrongevidence
that supporta role of Tcpolin repairing DNA oxidative
dam-agevia BER and kDNA replication. We reportthat clones over
expressingTcpolaremoresensitivetothechain-terminator3′
-azido-3′-deoxythymidine(AZT),whichcanbeincorporatedinthe
courseofDNAreplication.Atthesametime,overexpressingcells
aremoreresistanttooxidativestressandcanrepair8oxoGinkDNA
withahigherefficiencywhencomparedtocontrolcells.Inaddition,
epimastigotestreatedwithhydrogenperoxidepresentedaTcpol
focuslocalizedatthekinetoflagellarzone.Furthermore,weshow
thatTcpolisassociatedwithkDNAantipodalsitesonlyinthose
developmentalstagesfoundinT.cruzilifecyclethatarecapableto
replicate.
2. Materialsandmethods
2.1. Plasmidconstructions
ThevectorusedtogenerateTcpoloverexpressingparasites
wasconstructedasfollows.First,thecompleteDNApolymerase
betaORFwasretrieved(http://www.genedb.org,accessionnumber
Tc00.1047053503955.20)and PCR-amplifiedfromgenomicDNA
extractedfromT.cruziCLBrenerstrainusingprimerscontaining
XbaI(forward5-TCTAGAATGTTTCGTCGCACA)andEcoRI(reverse
5′-GAA TTC GGG GTC GCG GTTTTC CGG)linkers. The product
wasclonedinpGEM-TVector(Promega)followingmanufacturer’s
instructions.Thisconstructwasdigestedandthefragment
liber-atedwasclonedinplasmidpROCK[39]betweenXbaIandXhoIsites.
Twooligonucleotides(5′AATTCGGCCAAAAAGGCCand5′TCGAGG
CCTTTTTGGCCG)wereannealedtogethertoformaDNAadaptor
thatallowedligationof3′endofpolampliconwithpROCKXhoI
restrictionsite.TocloneatruncatedversionofTcpolcontaining
onlythe8kDadomain,ampliconswereobtainedbyPCR(primers
forward5′AAGCTTATGTTTCGTCGCACGTandreverse5′TGAATT
CCTTCTCAAGTTCCTC)andclonedintopROCKplasmid
follow-ingthesamestrategydescribedabove.Allplasmidconstructswere
confirmedbyDNAsequencing.
2.2. ProductionofTcpolˇinvitro
Forexpressionand purificationofTcpolprotein,amplicons
containing5′-EcoRIand3′-HindIIIdigestedendswereclonedinto
pGEM®-TEasyvectorandsubclonedintopMAL-g2(NewEngland
Biolabs,USA) downstreamfrom themalE geneof E.coli,which
encodesmaltose-bindingprotein(MBP).Subsequentprotein
pro-ductioninE.coliandpurificationwasperformedasdescribed[38].
2.3. InvitroAZTincorporationbyrecombinantTcpolˇ
InhibitionofDNAsynthesisbyrecombinantTcpolby3′
-azido-2′,3′-dideoxythymidinetriphosphate(AZT)wasevaluatedbyusing
a plasmid treated with DNase as substrate in a reaction that
contained 50mM Tris–HCl, pH7.5, 100mM NaCl, 5M dNTPs
and[3H}-dTTP(100Ci)and0.2–4.0gofrecombinantpurified
Tcpol.After2hat37◦C,theDNAwasspottedontoamembrane
thatwasthenwashedwith0.5%trichloroaceticacid.The
incorpo-ratedradioactivitywasmeasureinaBeckmanLS6500scintillation
counter.
2.4. Parasitegrowthandtransfection
EpimastigotesfromT.cruziCLBrenerstrainwereculturedat
124 183 (2012) 122–131
of fetal bovineserum (Cultilab,Brazil), 100U/mL penicillinand
100g/mLstreptomycin(Invitrogen,USA).Trypomastigoteswere
obtainedfromsupernatantofinfectedLLCMK2cells(ATCC-CCL7)
and maintainedin Dulbecco modified Eagle’s medium
supple-mentedwith10%fetalbovineserumat37◦Cand5%CO2.
Amastig-oteswereobtainedbyincubatingtrypomastigotesinLITmediumat
28◦Cfor48h.Parasiteswerecollectedandcentrifugedat2000×g
for10minandtheresultingpelletwaswashedwith
phosphate-bufferedsaline(PBS) and immediatelyused.Hydroxyurea (HU)
synchronizationwasperformedasdescribedpreviously[41].
Forstabletransfections,atotalof1×108cellsinexponential
growthwerewashedandresuspendedin5mLofbuffercomposed
of75%EPB(137mMNaCl,5mMKCl,0.7mMNa2HPO4,6mM
gli-coseand21mMHEPESpH7.5)and25%cytomix[42]containing
50gofplasmid thathad beenlinearized withNotI (Promega)
fortargetingto-tubulinlocipresentintheparasitegenome.A
plasmidwithouttheresistancecassettewasusedasnegative
con-trolforselection.Afterincubationatroomtemperaturefor15min,
transfections were carried out in 2-mm cuvettes usinga Gene
PulserSystem(Bio-Rad)submittedtotwopulses(10sapart)with
peakdischargeof0.3kVand500F. Afterelectroporation, cells
weretransferredinto5mLofLITmediumsupplementedwith10%
fetalbovineserum.Selectionwasappliedafter24hbyaddition
ofG418(200g/mL)(Gibco).Selectionoftransfectantswas
con-firmedwhennolivingparasiteswereseeninnegativetransfection
control.Parasiteswereseededinagar-bloodplatescontainingG418
andcloneswereisolated30daysafterincubationat28◦C.
2.5. NorthernandWesternblots
ToperformNorthernblots,totalRNA(10g)wasfractionated
in1.2%agarosegelscontaining5%formaldehyde,blottedontoa
Hybond-N+membrane(GEHealthcare)bycapillarytransfer,and
cross-linkedbyUVirradiation.ADNAprobeof184pbwas
ampli-fiedfromTcpolgenebyPCRusingprimersforward5′GGCTCA
CCTCCGATTATGAAandreverse5′GTTGCCTCGAGGTAGTTTCG.
Thisprobewasgelpurified,andlabeledwith[a-32P]-dCTPusing
theMegaprimeTMDNAlabelingprotocolfromGEHealthcare.The
membranewashybridizedina50%formamidebufferfor18hat
42◦C and washed with2%SSC/0.1%SDS at60◦C, aspreviously
described[43].T.cruzichromosomalbandswereseparatedbypulse
fieldgelelectrophoresis(PFGE)accordingtoprotocolpreviously
described[44]followedbytransfertoaHybond-N+membrane.
For Western blots, total cellular lysates from 1×109
exponential-phaseepimastigotecellswerepreparedbywashing
cellpelletinphosphate salinebuffer(PBS),and thendissolving
washedpelletsinonevolumeof1×SDSgel-loadingbuffer(50mM
Tris–HClpH6.8,100mMDTT,2%SDS,0.1%bromophenolblueand
10%glycerol)andonevolumeofwater.Cellsweremechanically
lysedbypassagethroughasyringeneedleandboiledfor10min.
Proteins were separated in 8% polyacrylamide gels containing
0.1%SDS usingstandard methods forSDS–PAGE, transferredto
nitrocellulose membranes and incubated with primary (rabbit
polyclonalanti-Tcpolb)diluted1:2000andsecondaryperoxidase
conjugatedantibodies(anti-rabbitIgGdiluted1:2000,Amersham
Biosciences) as described elsewhere. Proteins were detected
using ECL-Plus reagents (Amersham Biosciences) according to
manufacturerinstructionsanddevelopedwithNBT-BCIP.
2.6. Survivalcurves
EpimastigotetransfectedcellsoverexpressingTcpoland
con-trolweremaintainedinlogarithmicphase(5×106cells/mL)during
5days.Afterthis period,cellsweretreatedwiththreedifferent
doses of 3′-azido-3′-deoxythymidine monophosphate (AZT-MP)
(50, 100 and 150M) and hydrogen peroxide (200, 300 and
400M).Adualtreatmentwasrealizedwith200MofH2O2and
10mMofmethoxyaminehydrochloride(MX,Sigma–Aldrich).Cells
wereappropriatelydilutedinPBS1×+erythrosine0.4%and
sur-viving cells werecountedin a Neubauer chamberafter 48hof
incubationat37◦C.
2.7. Assessmentof8oxoGaccumulationinkinetoplastand nuclearDNA
Tomeasure8oxoGaccumulationinT.cruziDNAcells,weused
aprotocoladaptedfromStruthersetal.[45].Epimastigoteswere
incubatedinthepresenceof200Mhydrogenperoxidefor20min
at28◦C,washedtwicewithPBSandfixedwith4%
paraformalde-hyde.Aliquots(20L)ofthecellsuspensionweredistributedinto
wellsof8-wellchambered-slides.After1hofincubationat4◦C,
cells were permeabilized with0.2% Triton X-100,treated with
100g/mLRNase A and incubatedwithFITC-conjugated avidin
(5g/mL final concentration)for 1hat roomtemperature
pro-tectedfromlight.AfterwashingwithPBS1×andmountedwitha
solutionof9:1glycerol:Tris–HCl,pH9.0,theslideswerevisualized
under a fluorescencemicroscopein a 100x oilimmersion.
Pre-incubationofFITC-conjugatedavidinwith0.5mMof8oxoGresults
in80%decreaseinthefluorescencesignal,whereaspre-incubation
withdGTPhasnosignificanteffectonparasitelabeling.
Fluores-cenceintensitiesfrommanuallydelimitedkinetoplastandnuclear
DNAwereaveragedwiththeImageJprogramandplottedas
fluo-rescencearbitraryunits(averagefluorescenceintensitymeasured
in100cells aftersubtractingtheaveragebackgroundintensity).
Backgroundsignalsweremeasuredin100fields,randomlychosen
ontheslides.
2.8. Immunofluorescenceassays
Indirectimmunofluorescenceexperimentswereperformedby
attaching2×106 pre-washedparasites toglassslides,following
fixation with2% p-formaldehyde in PBS for 20min.Fixed cells
werewashedthreetimeswithPBS,treatedwith0.1%Triton
X-100inPBSfor5min,blocked30minwithPBScontaining1%BSA
andincubatedwiththedifferentaffinitypurifiedanti-Tcpol[38]
diluted1:2000inPBScontaining1%BSA.Anti-dihydrolipoamide
dehydrogenase (anti-LipDH),which ispresent inthe
mitochon-drionmatrix,wasraisedinrabbit[46]andwasagiftofDr.Kevin
Tylerandusedat1:1000dilution.Themonoclonalantibody2F6
(mAb2F6)wasusedat1:2dilutionandisspecificforT.cruzi
fla-gellarcalcium-bindingprotein[47].After1h,slideswerewashed
threetimeswithPBSandboundantibodiesrevealedwithanti-IgG
fluorescentconjugatesinthepresenceof0.01mM4′
,6-diamidino-2-phenylindole(DAPI)tostainthenuclearandkinetoplastDNA.
SlidesweremountedwithVectashield(VectorLaboratories)and
observedinNikonE600microscopeormountedinN-propyl
gal-lateandvisualizedbyconfocallaserscanningmicroscope(Zeiss
LSM510META).Alternatively, imageswerecollectedbyusinga
BX61Olympusmicroscope,100×1.4NAobjectivewiththeCell ˆM
software,andprocessedblinddeconvolutionusingtheAutoquant
2.1(MediaCybernetics).Pre-immuneserumorsamplesincubated
withouttheprimaryantibodywasusedasacontrol.
2.9. Transmissionelectronmicroscopy
Protozoawere fixedin 2.5% glutaraldehyde diluted in 0.1M
cacodylatebuffer,pH7.2,for2hatroomtemperatureand
post-fixedin0.1Mcacodylatebuffercontaining1%OsO4,5mMcalcium
chlorideand0.8%potassiumferricyanidefor1h.Then,cellswere
dehydratedinagradedseriesofacetone(30%,50%,70%,90%and
183 (2012) 122–131 125
Fig.1.OverexpressionofTcpol.CellsweretransfectedwithpROCKpolandstabletransfectantsselectedinpresenceofG418after30days.(A)Northernblotanalysisusing totalRNAextractedfromepimastigotesinlogarithmicphasederivedfromtwoclones(indicatedby1and2)andnon-transfectedcellsfromCLBrenerstrain(WT).Thelower partshowsthecorrespondingRNAgelstainedwithethidiumbromideasloadingcontrol.(B)Growthcurvesforcontrolcells(WT)andcellsoverexpressingTcpolclone1 (C1).Parasitegrowthwasfollowedduring11daysinLITmediumandcellswerecountedinacytometricchamber.Dataarerepresentativeoftwoindependentexperiments. (C)Kinetoplastultrastructuralanalysisofculturedepimastigotecells(day2fromacultureinitiallysetat5×106cells/mLLITmedium)overexpressingTcpol(left)and controlcells(right).ArrowspointtopositionofkDNAantipodalsites.(K)Kinetoplast;(Bb)Basalbodies;(Mm)mitochondrialmembranewithcristae.Bars=0.5m.
stainedwithuranylacetateandleadcitrateandobservedinaZeiss
900transmissionelectronmicroscope.
3. Results
3.1. Tcpolˇoverexpression
Duetotheimpossibilitytoobtainfunctionalcellswithgenes
knocked-downbyRNAiinT.cruzi,wedecidedtoestablish
epi-mastigotesoverexpressingTcpol.Wetransfectedepimastigotes
fromCL Brener strain witha plasmid derived from pROCKNeo
thatcarriedtheentirepolgene undercontrolofTcP25′UTR
andgGAPDHII3′UTRflankingsequencesandaconstitutiverRNA
promoter[39].Afterselectionofstabletransfectantclones
resis-tant to G418, we randomly chose two clones for subsequent
experimentation. Northern blot analysis showed an increased
mRNAlevelin theseover expressingcells compared tocontrol
parasites transfected withan empty plasmid (Fig. 1A). To
fur-therevaluateT. cruziDNA polymerasebetaprotein levelsafter
transfection,proteinexpressionwasassessedbyWesternblotin
whole-celllysatesfromcellstransfectedwithemptyvectorand
supposedlyTcpoloverexpressingparasites(clone1).Ourresults
showthatTcpollevelswereelevatedinclone1cellscompared
tothose cells transfected with empty plasmid (Supplementary
Fig.S1).
Similargrowthcurveswereseenbetweencontrolandclone1
cells(Fig.1B). In addition,wecompared kinetoplast
ultrastruc-tural organization of non-treated Tcpol over expressing and
controlcellsbytransmissionelectron microscopy.Our
observa-tionsshowedthatthekinetoplastofover expressingcellswere
similartothoseobservedforcontrolprotozoa,withnodetectable
alterations in kDNA orientation or condensation. Alterations of
mitochondrialmembranesorrepositioningofantipodalsiteswere
notobserved(Fig.1C),indicatingthatTcpoloverexpressiondid
notmodifymitochondrialDNAorganizationduringthecellcycle
oftransfectedcells.
3.2. TcpolˇoverexpressiondecreasesurvivalinpresenceofAZT
Several purine (e.g. allopurinol) and pyrimidine (e.g. 2′,3′
-dideoxyinosine and 2′,3′-dideoxyadenosine) analogs can inhibit
T.cruzi replication[48].Thisis particularlytrueforAZT, which
stronglyinhibitedT.cruziamastigote proliferationcells [48].By
performingcellularsurvival experiments withcontroland over
expressingcellstreatedwithincreasingconcentrationsofAZT,we
foundthatexcessTcpolsensitizedthecellsathighdosesofAZT
(Fig.2A),suggesting thatTcpolcouldbethemainpolymerase
involvedinincorporationofAZTinvivo,asitwasreportedforthe
humanpol[49,50].TodemonstratetheimportanceofTcpolin
thisprocess,wedesignedinvitroexperimentwithpurified
pro-tein. We showed that AZT can indeed inhibit incorporation of
radioactivethymineinanickedplasmidbyrecombinantTcpol
inadose-dependentmanner(Fig.2B).Interestingly,theAZTdose
thatblockedtheactivityofTcpolinvitro(100M)issimilarto
thedosethatislethaltoT.cruziinvivo.Collectively,theseresults
indicatethatTcpolcanefficientlyincorporateAZTduringkDNA
replication.
3.3. SubcellularlocalizationofTcpolˇisrestricttoantipodalsites inreplicatingcells
TworeplicatingcellularformscanbefoundinT.cruzilifecycle.
Epimastigotesreplicateinsidethegutofthereduviidaebug,while
amastigotesmultiplyintracellularlyinmammalianhost[51].
Try-pomastigotesareinfective,non-replicativeformsthatarereleased
inthebloodstreamofinfectedhostafteramastigotedifferentiation
andcellrupture[51].WeperformedimmunolocalizationofTcpol
inculture-derivedCLBrenerwildtypecellsepimastigotes,
intracel-lularamastigotesandtrypomastigotesusingpolyclonalantibodies
againstthepurifiedrecombinantprotein.WefoundthatTcpol
ismainlylocalizedinantipodalsitesofreplicativeepimastigotes
(Fig.3I–L)andinextracellularamastigotes(Fig.3E–H)whilein
non-replicativecultured trypomastigotes Tcpol is dispersed inside
126 183 (2012) 122–131
Fig.2. DNAelongationbyTcpolisinhibitedbyAZT.(A)T.cruzisurvivalaftertreatmentwithAZT.CellstransfectedwithemptyplasmidandTcpoloverexpressing epimastigotes(clone1andclone2)weretreatedwith50,100and150g/mLofAZT.Cellswerecountedinacytometricchamberafter72h.Datarepresentthemean±SDof threeindependentexperiments.SignificancewasassessedusingANOVAwithBonferroni’sposttest.*P<0.01.(B)PurifiedrecombinantTcpolwasincubatedwithadigested plasmidinthepresenceof5MdNTPscontaining3H-dTTPanddifferentdosesofAZT.Radioactivitylevelsweremeasuredandcomparedwithcontrolreactions.Blackbars indicatecontrolreactionswithTcpolorMBPintheabsenceofAZT.WhitebarsarereactionsperformedbyTcpolwiththeindicateddosesofAZT.
cytoplasm(Fig.3A–D).Tcpolmitochondriallocalizationin
try-pomastigotes was furtherevidenced as it colocalized withthe
lipoamidedehydrogenase(LipDH)protein(SupplementaryFig.S2),
amitochondrialmatrixmarker[52].Cellularlocalizationpatterns
forTcpolinthethreeparasiteformswereconsistentinmorethan
95%ofthecellsineachexperiment.Theseresultssuggest
partici-pationofTcpolduringkDNAreplication,duetoitsassociationto
antipodalsitesinreplicativeformsofT.cruzi,asitwaspreviously
observedforT.bruceiandC.fasciculata[35,53].
3.4. SubcellularlocalizationofTcpolˇfollowsparasitecellcycle
SpecificmorphologicalchangesthatoccurduringT.cruzicell
cycleinvolveashortflagellumthatemergesfromaflagellarpocket
inG2phase,followedbykinetoplastredistributionpriortomitosis
andnucleardivision.Growingoftheemergingflagellumcontinues
untiltwo newdaughtercells areformed[41].Information
con-cerninglocalizationofanyDNApolymeraseenzymethroughout
thecellcycleofkinetoplastidamembersisstilllimited.Inorderto
understandhowDNAreplicationoperatesinT.cruzi,wefollowed
theTcpollocalizationbyimmunofluorescentapproachduringcell
cycleprogression.WetrackedTcpolinthemitochondrionof
epi-mastigoteCLBrenerwildtypecellsbyconfocalmicroscopyusinga
polyclonalantibodyraisedagainstrecombinantTcpol.Wewere
abletodetectcellswithmainmorphologicalpatternsthatallowed
ustofollowtheepimastigotecellcycle(Fig.4).CellsinG1/Sphaseof
nuclearcellcyclearecharacterizedbyhavingoneflagellum,
visual-izedwithamonoclonalantibody(mAb25)thatrecognizesa24kDa
flagellarcalcium-bindingprotein,onekinetoplastandonenucleus,
labeledbyDNAstainingby4′,6-diamidino-2-phenylindole(DAPI).
OncecellsbegintoproceedthoughG1/S,Tcpolredistributestothe
antipodalsites(Fig.4A).InearlyG2phase(Fig.4B)whenthenew
183 (2012) 122–131 127
Fig.4.CellularmorphologicalalterationsandTcpolredistributionduringT.cruziepimastigotecellcycle.Thestagesofepimastigotenuclearcellcyclewereidentified basedonthelengthandnumberofflagellae(F),numberofkinetoplasts(K)andnucleus(N)indicatedaboveeachrepresentativeimage.Thenewflagellumemergesfrom cellularpocketwhencellsareinG2stage.Duringmitosistheflagellarpocketsegregatesleadingtocytokinesis,whichgeneratestwoidenticaldaughtercells.Whitearrows indicatethepositionofantipodalsites.WhitearrowheadsindicatethepositionofkinetoflagellarzonewhereTcpolseemstoaccumulateinaring-shapedstructureduring cytokinesisandG1phases.Positive(+)andnegative(−)symbolsindicatepresenceorabsenceofTcpolinantipodalsites,respectively.SeeSection3.4fordetails.Bar=5m.
flagellumhasjuststartedtogrow,muchofTcpolwasstillfound
locatedinantipodalsites.Curiously,cellsinlateG2phase(Fig.4C)
inadditiontohavealongergrowingflagellumcomparedtoearly
G2,showedadispersedstainingforTcpol,thatwasnomorefound
associatedwithbothantipodalsites.Thispatternpersisteduntil
theendofmitosis,whenkinetoplastandnuclearDNAare
com-pletelyduplicated(Fig.4D).Cellswithtwokinetoplastsandone
nucleuswerenotfoundconsideringthatbothstructuressegregate
almostsimultaneously [41]. Strikingly, duringand immediately
aftercytokinesis,Tcpolmigratestoaspecificpointbetweenthe
kinetoplastDNAandbasalbodyformingadoughnut-likestructure
(Fig.4E–G).Webelievethatthissitecorrespondstothe
kinetoflag-ellarzone.Aftercytokinesis,Tcpolseemstoredistributeagainto
antipodalsitesforasubsequentlyroundofcellreplication.
3.5. Tcpolˇoverexpressionimprovesepimastigotesurvivalin presenceofH2O2
Arole of Pol inDNA repair was extensively demonstrated
in mammals extracts [54], mainly in oxidative damage repair
[21,27,55].ToinvestigatewhetherTcpolcouldalsoparticipate
inrepairofoxidativedamageinT.cruzi,wemeasuredthesurvival
ofT.cruziepimastigotesoverexpressingTcpolthatweregrown
inliquidLITmediumsupplementedwithincreasingconcentration
ofhydrogenperoxide(H2O2),knowntogeneratemultipleoxidized
basesinDNA,including8oxoG,astrongmutagenifnotcorrected
byBER[56].WefoundthatoverexpressingTcpolcloneswere
moreresistanttoallconcentrations ofH2O2 tested when
com-paredtocontrol(Fig.5A),supportingthatTcpolcontributesto
theprocessof DNArepair of oxidativelesionsin epimastigotes
andsuggestingthatexcessTcpolcouldenhanceBERefficiency.
TobetterclarifytheroleofTcpolduringkDNArepair,we
gener-atedparasitesoverexpressingitslyasedomain(8kDa)withoutthe
DNApolymerasedomain.Wetreatedthisculture,aswellasempty
plasmid-transfectedcontrolparasitesandTcpoloverexpressing
clone1,withhydrogenperoxide(100,200and300M).We
veri-fiedthat8kDaoverexpressingparasitesshowedanintermediate
survivalcurvebetweencontrolandTcpoloverexpressing
para-sites(Fig.5B).Thisdatashowsthatthelyaseactivityisimportant
butnot enoughforcomplete oxidativeDNA lesionrepair. Fully
functionalTcpolactivityseemstobecrucialinpromotingahigh
efficiencyBERinT.cruziparasitessubmittedtooxidativestress.
We next tested survival of Tcpol over expressing cells in
the presence of H2O2 and methoxyamine hydrochloride (MX).
MX can react with the C’1 of the deoxyribose moieties of
apurinic/apyrimidinicsitespreventingcleavageofthe
phosphodi-esterbondadjacenttotheAP sitebyAPendoribonuclease and,
consequently, inhibiting BER [57,58]. Control and Tcpol over
expressingcellsweresimultaneouslytreatedwith200MofH2O2
and10mMofMX,andcellsurvivalwasthenevaluatedafter48h.
WefoundthatinthepresenceofMX,excessofTcpolwasnot
ben-eficialforsurvival(Fig.5C).ThisresultsuggeststhatTcpolover
expressioncanstimulateBERregardingrepairofoxidativedamage
inkDNAafterH2O2treatment,althoughtheprecisemechanismis
unclear.
Finally, cells were treated with methyl methanesulfonate
(MMS). MMS is a methylating agent that transfers alkylating
adductstoDNA, mainly3-methyladenineand 7-methylguanine
[59,60].Weobservednosignificantdifferencesinsurvivalbetween
Tcpol over expressing and control cells (Fig. 5D). This result
suggeststhatTcpoloverexpressionis related toresistanceto
oxidativestressandisnotinvolvedinrepairofmethylatingdamage
inT.cruzi.
3.6. 8oxoGisbetterrepairedinkDNAofTcpolˇoverexpressing cell
ConsideringthepossibleroleofTcpolinprocessing
mitochon-drialoxidizedbases,wemonitored8oxoGlevelsinthekinetoplast
and nuclear DNA of over expressingPol cells after treatment
withH2O2. Over expressingand control cells wereexposed to
H2O2 andwere thentreated witha FITCconjugateof avidin, a
knownbiomarkerofoxidativeDNAdamage[45].Twohoursafter
treatmentwithH2O2,thefluorescentsignalofFITCinkDNAwas
lowerforTcpoloverexpressingcell(clone1)comparedtocontrol
(Fig.6AandC).Thisdifferencepersistedatlast24haftertreatment.
Incontrast,measurement ofFITCsignalinnuclearDNAshowed
similarlevelsofoxidativedamagebothincontrolandTcpolover
expressingclone2hand24hafterH2O2treatment(Fig.6BandC).
ThesedatasupportthatexcessTcpolfavorstherepairof8oxoG
inkDNA.
3.7. Tcpolˇtriplefociformationaftertreatmentofcultured epimastigoteswithH2O2
SeveralmammalianDNArepairproteinslikePolandOGG1can
associateindiscretefociaftergenotoxicstress,includingoxidative
stress[61,62].Inthesecases,thefocipersistforadefinedperiod
oftimeandthenaredismantled,whichsuggestsformationofa
repairosomethatremainsactiveonlyduringDNArepairprocesses.
Therefore,wedecidedtoimmunolocalizethenativePolfromT.
cruziaftertreating wildtypeepimastigotecells fromCLBrener
strainwithH2O2.Sixhoursafterexposuretooxidativestress,we
wereabletodetectformationofathirdfocusofTcpol
addition-allytothattwopreviouslyseenadjacenttokDNAantipodalsitesin
128 183 (2012) 122–131
Fig.5. TcpolisinvolvedinoxidativestressresponseinT.cruzi.(A)CellstransfectedwithemptypROCKplasmidandTcpoloverexpressingclones(clone1andclone2) weretreatedwith200,300and400MofH2O2.Cellswerecountedinacytometricchamberafter48h.(B)Emptyplasmid-transfectedcells(pROCK),8kDaandTcpol (clone1)overexpressingparasitesweretreatedwith100,200and300MofH2O2.Cellswerecountedinacytometricchamberafter48h.(C)Simultaneoustreatmentof Tcpoloverexpressingandcontrolcellswith200MH2O2and10mMmethoxyamine(MX).Cellswerecountedafter48hinacytometricchamber.(D)T.cruzisurvival aftertreatmentwithMMS.Cellstransfectedwithemptyplasmid(pROCK)andTcpoloverexpressingclonesweretreatedwithMMSrangingfrom0.001to0.003%.Cells werecountedinacytometricchamberafter72h.Experimentaldatarepresentthemean±SDofthreeindependentexperiments.SignificancewasassessedusingANOVA withBonferroni’sposttest.*P<0.01.
183 (2012) 122–131 129
Fig.7.AccumulationofTcpolinepimastigotecellstreatedwithhydrogenperoxide.FixedcellsimmunostainedforendogenousTcpolinepimastigoteformsofT.cruzi aftertreatmentwith100mMH2O2.Representativeimageswereselectedfromatotalof100cellsanalyzedineachtimepoint.Localizationpatternsofuntreatedcells(A–D), andofcells1h(E–H),6h(I–L)and24h(M–P)aftertreatmentareshown.MergeshowsbothnuclearandkinetoplastDNAinblueandTcPolinred.Thewhitearrowindicates aTcpolfocusformationobservedafteroxidativetreatment.Bar=5m.
clearlypositionedoutsidethekDNAregion,andwebelievethatit
isprobablylocatedinkinetoflagellarzone(KFZ).Thisfocuswasnot
detectedinnon-treatedcells(Fig.7AandB)anditsdetectionwas
notpossibleat1hand24hafterH2O2treatment(Fig.7E–Hand
M–P,respectively).Thisextrafocuswasnotobservedaftertreating
cellswithmonofunctionalalkylatingagentmethoxyamine(MMS)
(datanotshown).
4. Discussion
Maintenance of kDNA integrity relies on a complex process
involving a large collection of enzymatic factors and an
intri-catedynamicsof minicircleand maxicirclenetworkreplication.
Althoughourknowledgeabouttheseprocesseshasbeenimproved
considerable,littleisknownabouthowoxidizedbasesinkDNAof
trypanosomesarerecognizedandrepaired.UsingT.cruziasmodel,
wefocusedontheroleofTcpol,akeycomponentofBERrepair
pathwayinpreventingthedeleteriouseffectsof8oxoGinthe
mito-chondrialgenomeofthisparasite.
ParasitesoverexpressingTcpolwerefoundmoresensibleto
AZTregimencomparedtocontrolcells.Thisdiminishedsurvival
couldbeattributedtoanincreasedincorporationofAZTbyexcess
ofTcpolintokDNAduringmitochondrionreplication,asitwas
previouslyshowninmammaliancells.
By immunolocalization assays we showed that Tcpol is
directedtothekinetoplast antipodalsites inepimastigotes and
amastigotes,whileintrypomastigotesitisspreadthroughoutthe
cellbody,mostlikelyinsideitssinglebranchedmitochondrion.The
biochemicalprocessessupposedtooccuratantipodalsites,mainly
fromstudiesinT.brucei,includedegradationofRNAprimersstill
annealedtothenewlyreplicatedminicirclesbySSE1(after
migra-tionofminicirclesfromthekinetoflagelarzone)andgaplinking
byDNApolymerasebeta[35].Althoughourworkdonotformally
demonstratetheroleofDNApolymerasebetainT.cruzi,theclear
associationbetweenreplicativestatusandpatternofsubcellular
localizationissuggestiveofaroleofthispolymeraseinkDNA
dupli-cation,whenTcpolcouldfillthegapsbetweenOkasakifragments
afterreplicatingtheminicircles. Similarpatternsof localization
intheantipodalsitesofkDNAwereobservedinT.bruceiandC.
fasciculata[35,53].ThisresultisdifferentforL.infantum,which
possessanuclearPol[37].Intriguingly,noTcpolsignalcould
bedetectedinthenucleusofT.cruzi.Webelievethatother
poly-merases,likePolandPol␦,couldpromotefunctionalredundancy
inshortand long-patchnuclearBER,as demonstratedin
mam-maliancellextractsdeficientinPol[34,63].
InordertoelucidatetheroleofTcpolinkDNArepair,
hydro-genperoxidewasusedasgenotoxicagentinsurvivalcurvesbyits
capabilitytoinduceoxidativeDNAdamage[64,65].Using
differ-entdosesofH2O2weverifiedthatepimastigotesoverexpressing
Tcpolshowedincreasedsurvivalwhencomparedtocontrolcells.
However,parasites over expressingatruncated formofTcpol
(8kDadomainonly)presentedanintermediateresistant
pheno-typebetweencellstransfectedwithemptyplasmidandclone1
parasites.Theresultssuggestthatthe8kDadomainalonecould
participateinBERremovingthedRPandotherpolymerases,such
pol,couldsubstituteTcpoltoinsertnucleotides,butwithlower
efficiency.Inthissense,fullyfunctionalTcpolenzymeis
manda-torytoallowBERtoefficientlyremoveoxidativelesionsinT.cruzi
kDNA.
WebelievethatBER couldbethemain DNArepairpathway
actingondetoxificationofperoxidesinthiscondition,considering
thatinitialsanitizationofH2O2bytryparedoxinperoxidaseis
effi-cientinlowdosesrangingfrom2.5to20MofH2O2andweused
higherdoses(200–400MH2O2)insurvivalcurves[66].Theability
ofMX,aspecificshort-patchBERblockingagent,tosensitizeover
expressingcellstoH2O2suggestsspecificparticipationofTcpol
inimprovementofsurvivalwhenitisoverexpressedinsidecell.In
addition,survivalexperimentsperformedwithMMSdidnotshow
anysignificantdifferencebetweenTcpoloverexpressingand
con-trolcells.MammalianBERisinvolvedinrepairofalkylatingdamage
causedbyMMS,includingthecytotoxicadducts3-methyladenine
and7-methylguanine[59,60,67,68].PurinesdamagedbyMMSare
recognizedby3-methyladenineDNAglycosylase(AAG)inhumans
[69].TheobservedinsensitivityofT.cruzitoMMScanbedueto
inexistenceofafunctionalhomologueofAAGinT.cruzi
mitochon-driatoinitiateBER.MMSalsoinducehomologousrecombination
bygeneratingsingleand double-strand breaks[70,71]. Another
possibleinterpretation is that MMS is incapable tosensitize T.
130 183 (2012) 122–131
processinthisorganism[44].ItisalsopossiblethatMMSdamage
is mainly repaired by long-patch BER in T. cruzi, considering
thatMMSwasadministratedtologarithmicgrowthphase cells,
where short-patch BER predominates. Additional experiments
are beingperformedto elucidate resistanceof T. cruzitoMMS
treatment.
WebelievethatTcpoloverexpressingcellsresistancetoH2O2
isprobablyduetoenhancedDNArepairofoxidizednucleotidesin
kinetoplast,aswesawdepletedlevelsofoxoguanineinthis
struc-turecomparedtocontrolcells.Depletedoxoguaninelevelsinover
expressingclone1after2hcanindicatehigheractivityofBERin
thesecells,probablystimulatedbyanexcessofTcpol.After24h,
8oxoGlevelsincreasedinbothcontrolandoverexpressingcells,
althoughlesspronunciatedinoverexpressingcells.Thisisprobably
duetoincorporationofoxodGderivingfromoxidizednucleotide
poolduringcellreplication.Wewerenotabletodetectdifferences
inaccumulationof8oxoGinnuclearDNAfrombothcells,which
couldindicatestrictlystimulationofmitochondrialBERbyTcpol
overexpression.TheseresultssuggestthatotherDNArepair
path-waysinT.cruzithatcanrecognizeoxidativedamageareactiveinthe
nucleus.TakentogethertheseevidencessupportaroleofTcpol
inrepairof8oxoGinkDNAofT.cruzi.
Astrikingfindingisthatgenotoxictreatmentofepimastigotes
withhydrogenperoxideinducesmobilizationofTcpoltoadefined
focus,inadditiontothetwofocipreviouslyseenintheantipodal
sitesintheabsenceoftreatment.ItwasshowninHeLacellsthat
BERproteinslikePol,OGG1andXRCC1canbedirectedtorepair
fociafterinducinglocaloxidativestress[61,62].Wespeculatethat
thisnewfocusislocatedinthekinetoflagelarzonewhereminicircle
replicationtakesplace,consideringtheunavailabilityof
mitochon-drial markersthat couldbeused torefinethis localization. We
hypothesizethatwiththehigherlevelofoxidativestressimposed
byH2O2treatment,Tcpolcouldbedirectedwithinthisareato
participateofextratemporalBEReventsinaspecializedfocus
out-sidethekinetoplastduringpossibleasynchronicDNArepairevents
thatnotoccurduringG1/S.
ThisisthefirsttimethatamemberofXfamilyofDNA
poly-merases is immunolocalizedin trypomastigotes of T. cruzi.The
diffuselocalization of Tcpolseen intrypomastigote cells gave
uspreciousinsightsabouthowaBERpolymerasecouldpromote
protectionagainstgenotoxicstressinthisstage.Thisisconsistent
withthefactthattrypomastigotesdo notreplicateDNA,
releas-ingTcpoltobedirectedtoantipodalsitesinthisstage.Probably
thestoichiometryofTcpolinsidemitochondrionistightly
reg-ulated.ArapidsupplyofTcpoltoantipodalproteincomplexes
duringdifferentiationfromtrypomastigotestoepimastigotesand
amastigotes couldbe efficiently achieved byinternal
mobiliza-tioninsteadofbeingdegradedandproducedwhenitisneeded.
ThehypothesisofTcpoldegradationcanbealsoconsideredand
additionalexperimentsarerequiredtobetterunderstandofthis
process.
PreviousstudiesinvolvinglocalizationofDNArepairproteins
intrypanosomatidspresentedstaticmodelsofsubcellular
kineto-plastorganizationofthereplicationmachinery[1].Inthesemodels,
polisclearlylocalizedinantipodalsites[35,38,72].Inthis
arti-clewealsoshowedthatduringepimastigotecellcycleTcpolis
mobilizedinsidemitochondrion,anditseemsthatthepolymerase
isonlyrequiredinantipodal sitesin G1toSphasewhen
mito-chondrial DNAis beingsimultaneouslyreplicated and repaired.
Thisis thefirsttimethatredistribution ofaDNArepairprotein
alongcellcycleisshownforakinetoplastidamember.Itis
pos-siblethat this relocation todifferent subcellulardomains must
beanadditionalenzymatic controlfor Tcpolthattheparasite
usestoimproveitsBERrepairefficiencyduringgenome
replica-tion.Additionalapproachesmustbetakentobetterelucidatethis
phenomenon.
In summary, our experimental data points toward a role
of Tcpol from T. cruzi in conferring resistance to genotoxic
oxidative stress. Acquisitionof a deeper understanding
regard-ing involvement of this DNA polymerase and BER pathway in
repairofoxidativelesionswillcertainlyallowbetterexperimental
approachesandinterventionduringtreatmentofChagasDisease.
Acknowledgments
This study was supported by CNPq-Brazil
(MCT/CNPq/MS-SCTIE-DECIT25/2006-EstudodeDoenc¸asNegligenciadas),PRONEX
andFAPEMIG.TheresearchfromS.M.TeixeiraandC.R.Machado
wassupported,inpart,byanInternationalResearchScholarsGrant
fromtheHowardHughesMedicalInstitute.WearegratefultoKátia
BarrosoGonc¸alvesandNeuzaAntunesRodriguesfortechnical
sup-port.
AppendixA. Supplementarydata
Supplementarydataassociatedwiththisarticlecanbefound,in
theonlineversion,atdoi:10.1016/j.molbiopara.2012.02.007.
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