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Diagnosis and molecular epidemiology of the African horsesickness virus by the polymerase chain reaction
and restriction patterns
Stephan Zientara, C Sailleau, S Moulay, E Plateau, C Crucière
To cite this version:
Stephan Zientara, C Sailleau, S Moulay, E Plateau, C Crucière. Diagnosis and molecular epidemiology
of the African horsesickness virus by the polymerase chain reaction and restriction patterns. Veterinary
Research, BioMed Central, 1993, 24 (5), pp.385-395. �hal-00902152�
Original article
Diagnosis and molecular epidemiology of the African horsesickness virus by the polymerase chain
reaction and restriction patterns
S Zientara C Sailleau S Moulay, E Plateau C Crucière
CNEVAlLaboratoire Central de Recherches Vétérinaires, 22, rue Pierre-Curie, 94703 Maisons-Alfort, France
(Received
1February
1993 ;accepted
29April 1993)
Summary ―
African horsesickness is a viral disease causedby
an orbivirusbelonging
to the Reo-viridae
family.
This paper describes apolymerase
chain reaction(PCR)
foramplifying
segments 7, which encode for VP 7, aprotein
common to the 9 known serotypes of this virus. A reverse tran-scription
step is necessary beforeamplification.
Noamplified product
could be observed in cell cul- tures infected with otherequine
viruses. Theamplified
DNAs weredigested
tocompletion by
8 differ-ent restriction enzymes. The restriction
fragment length polymorphisms
allowed the differentiation of the group of serotypes AHSV-1, 3, 6, 8 and the viruses AHSV-2, AHSV-4, AHSV-5, AHSV-7 and AHSV-9. Differences could also be described between vaccinal strains of the same serotype pro- duced in cell cultures or in brains ofsuckling
mice.African horsesickness virus I reverse
transcription
Ipolymerase
chain reaction Idiagnosis
Résumé ―
Diagnostic
etépidémiologie
moléculaire du virus de la pesteéquine
paramplifica-
tion
génique
et étude desprofils
de restriction. La pesteéquine
est une maladie virale, affectant lesÉquidés,
due à un orbivirus de la famille des Réoviridae. Cet article décritl’application
de la tech-nique d’amplification
dugène
7qui
code pour VP 7, uneprotéine
inteme decapside
commune aux 9sérotypes
connus de ce virus. Uneétape
detranscription
inverse est nécessaire avantamplification.
Aucun
produit d’amplification
n’est observé àpartir
de cultures de cellules inoculées avec d’autres viruspathogènes
pour les chevaux. Les ADNamplifiés
sonthydrolysés
par 8 endonucléases de res- triction. Lesprofils
de restrictionpermettent
de regrouper lessérotypes
1, 3, 6, et 8 et de différencier entre eux lessérotypes
2, 4, 5, 7 et 9. Des différencespeuvent
être observées entre lesprofils
dessouches vaccinales du même
sérotype
maisproduites
sur cellules ou sur cerveaux de souriceaux.peste
équine
1transcription
inverse 1amplification
degènes
1diagnostic
INTRODUCTION
African horsesickness is a viral disease of the
Equidae
causedby
an orbivirus be-longing
to the Reoviridaefamily (Verwoerd
et
al, 1979)
and very closegenetically
andstructurally
to thebluetongue
virus. The vi-rus is transmitted
by biting
insects(Culi- coides) (Du Toit, 1944)
which arebiologi-
cal vectors. Nine
serotypes
of the virus have been described(Me Intosh, 1958).
InJuly 1987, Spain
became infected after theimportation
of zebras(which
are less sen-sitive than horses to the
virus)
from Nami-bia. The disease has
subsequently spread
to
Portugal
and Morocco.The African horsesickness virus
(AHSV)
genome is
composed
of 10 double- stranded RNA molecules(Oellermann
etal, 1970; Bremer, 1976).
The virion con-sists of 7 structural
proteins,
and avariety
of non-structural
proteins
are alsosynthe-
sized in AHSV-infected cells.
Recent
analysis
of thecoding assign-
ment for AHSV-4 strain genes has re- vealed that
segments 1, 2,
3 and 4 respec-tively
encodeVP1, VP2,
VP3 andVP4, segment
5 encodesNS1, segment
6 en-codes VP5 and
VP6, segment
7 encodesVP7, segment
9 encodes NS3 and seg- ment 10 encodes NS4 and NS4a(Grub-
man and
Lewis, 1992;
Mizukoshi etal, 1992).
The outer
capsid
iscomposed
of the 2major proteins (VP2
andVP5)
which areresponsible
for the viral neutralization andantigenic variability,
whereas the innercapsid
iscomposed
of 2major (VP3
andVP7)
and 3 minor(VP1,
VP4 andVP6).
proteins.
VP7 is common for all 9 sero-types (Bremer
etal, 1990;
Chuma etal, 1992)
and is involved in thecomplement
fixation test. The classical methods of di- rectdiagnosis
of this infection are intra- cerebral inoculation insuckling
mice or in- fection of cell cultures(BHK21
or Verocells).
Theserological diagnosis
is basedon the
complement
fixation test which isthe official method for international trade of horses. But for all these
techniques
thetime between the awareness of a
suspect-
ed sickness and the response of the
(vete- rinary) laboratory
isalways
consideredby
the
veterinary
authorities asbeing
toolong (due
to the poor conditions of conservation of thesamples,
the time necessary to sero-type
thevirus, etc).
That iswhy
new meth-ods of
diagnosis
have beenstudied, partic- ularly
based on the molecularbiology
ofthe virus. We have
developed
apolymer-
ase chain reaction
(PCR) analysis
torapid- ly identify
andserotype
the African horse sickness disease virus.MATERIALS AND METHODS
Viruses and cells
African horsesickness strains
The vaccine strains of the 9 AHSV serotypes
were
kindly provided by
Dr Pearson(US Dept
ofAgriculture,
NationalVeterinary
Services Labor- atories, Ames,[A).
All strain serotypes were ob-tained from South Africa (Dr Erasmus, Onder- stepoort
Veterinary
Research Institute, South Africa) except the strain serotypes 8 and 9, which were isolated in Iran. Viruses had beenprepared
in 1968 and 1969by passaging
eachvirus 100 times in
suckling
mice via intracranial inoculation. Commercially available vaccinal strains AHSV-9 and AHSV-4 strains(Onderste-
poortVeterinary
Research Institute, South Afri-ca)
were also used in this study.All AHSV viruses were propagated on Vero
(ref
American type culture collection[ATCC]
CCI81)
cell lines in 175-cm2flasks ingrowth
medi-um RPMI 1640
supplemented
with 8% foetalcalf serum, streptomycin (100
J.1g/ml)
and peni- cillin(100 Ul/mi).
The infectedmonolayers
showed
cytopathic
effects from 48 h to 96 h lat- erdepending
on the strains. The titres, as deter- minedby
the Reed and Muench(1938)
methodof
estimating
50%end-points,
varied from10 5
to 107
TCID 50 / M l-
Other
equine
viral strainsThe
equine
arteritis virus(EAV),
and reovirus serotype 1 werepropagated
on Vero cell lines, theequine
abortion virus(EHV1) Kentucky
strain on RK13 cells
(ATCC
CCI106),
the inflen-za
A/equi
2/Brentwood 79 virus on MDCK cells(ATCC
CCI34),
and theequine
adenovirus 1 onequine
dermis cells(ATTC
CCI57).
All infected and non infected cell cultures were treatedby
the same
procedure.
Nucleic acid
sample preparation
Extractions of total RNA were
performed
on in-fected and uninfected cell cultures. Cell debris was removed
by low-speed centrifugation:
10min at 500 g. The supernatants were ultracentri-
fuged
at 100 000 g for 3 h at 4°C in a SW28- rotor(Beckmann
rotor). Asalready
describedby Spaan
et al(1981),
thepellets
wereresuspend-
ed in
200 pl
TNE(Tris
10 mM,pH
7.5, NaCI 100mM, EDTA 1
mM)
for each serotype and weretreated with proteinase K (0.2
mg/ml)
for 30 minat 37°C, solubilized by the addition of 180 pl
TNE 2X and 20
N I sodium-dodecyl
sulfate(SDS 20%) (50
min at 50°C and 30 min at25°C),
andsequentially
extractedby phenol-chloroform
asdescribed for
large-scale
DNApreparation (Sambrook
et al, 1989). The nucleic acids wereprecipitated from the aqueous phase in the pres- ence of sodium acetate and ethanol, dried (un- der vacuum) and resuspended in 10 ftl diethyl- pyrocarbonate
(DEPC)-treated
water. The sameprotocol was used for all nucleic acid extrac- tions.
Primers
Sequence
data and cross-hybridization experi-ments have indicated that all orbiviruses have common and characteristic 5’ and 3’RNA seg- ment terminal sequences,
namely
5’ GTTAAA 3’and 5’ ACTTAC 3’
(Rao
et al, 1983; Mertens andSangar, 1985).
The selection of
oligonucleotide primer
se-quences used in the PCR
protocol
was deter-mined from sequence data
published
on AHSV-4 segment 7 gene (a strain isolated in Spain in
1987),
which codes for AHSVpeptide
VP 7(Roy
et al,
1991 This
segment is 1179bp long
andthe
M,
value of the ds RNA is calculated to be 7.7 x 105 Da. Nucleotides 1 to 20 and 1159 to 1179 were chosen as upstream and down-stream
respectively.
The sequences of the 2primers
were as follows: 5’G T T A A A A T T C G G T T A G G A T G 3’ for the upstreamprimer
and5’GTAAGTGTATTCGGTATTG A 3’ for the downstream
primer.
Theoligonu-
cleotides were
synthesized
at 0.2pmol
in aGene Assembler Plus
(Eurogentec, Seraing, Belgium).
Reverse
transcription
andpolymerase
chain reactionOne Ng total nucleic acids resuspended in 2.5
pl
sterile DEPC-treated water
(as previously
de- scribed) was denatured with an equal volume of0.02 M methyl mercuric hydroxide (Wade-Evans
et al,
1990) prior
to use as atemplate
for cDNAsynthesis (10
min at roomtemperature).
Theprotocol
used for theamplification
of RNA tem-plate
was anadaptation
ofpreviously published
protocols(Doherty
et al, 1989; Wade-Evans et al, 1990).After reduction of the
methyl
mercurichy-
droxide
by
addition of 1pl
0.7 M-f3-mercaptoethanol,
2pl
RNAsin(40 units/pl;
Boehringer-Mannheim, Meylan, France)
wereadded (5 min at room
temperature).
Fourul
ofthe mix were diluted to 20
f il
in 50 mM TrispH
8.3, 40 mM KCI, 1 mM DTT, 1 mM of each dNTP, 6 mMMgC’ 2 containing
10pmol
of thepair
ofprimers. Twenty
units of avianmyeloblas-
tosis virus reverse
transcriptase (AMV-RT ; Ap-
pligene, lllkrich, France) were added to the reac- tion mix which was incubated at 37°C for 1 h.One gl cDNA reaction mix was diluted to 100
pl
for a final concentration of 10 mM Tris, pH 8.8, 1.5 mM
MgC’ 2 ,
50 mM KCI, 200pM
of eachdNTP. Five pmol of each
primer
and 2.5 unitsTaq DNA polymerase
(Boehringer-Mannheim)
were added
prior
to incubation on athermocy-
cler PTC 100/60
(Prolabo).
A200-pl
mineral oiloverlay
wasapplied
to each reaction mixtureprior
toamplification.
The mix was heated to95°C for 5 min, and incubated on the
heating
block for 40
cycles
of 55°C for 1 min, 70°C for 2 min and 95°C for 1 min followed by a terminalextension step at 70°C for 8 min (Saiki et al,
1985, 1988).
Tenfxl amplified sample
from eachreaction mixture were
analysed
in 2% agarosegel (1%
Nu-sieve/1%Sea-Kem) (Nalgene, Tebu)
in Tris-borate-EDTA buffer 1X, run at100 V for 2 h, stained with ethidium bromide for 10 min, and visualized
by
ultraviolet transillumi- nation. Viralamplified
AHSV bands were com-pared
to themigration
of apBR328
/Bgfl
+pBR328/Hinfl
molecular weight standard (Boeh-ringer-Mannheim -
cat No1062590).
Analysis by
restriction endonucleasesAll the restriction enzymes used to
analyse
theamplified
cDNAproducts
of the 9 serotypeswere selected
according
to the restriction sites of AHSV-4 segment 7 cDNA(Roy
et al,1991) (table I). Ten-ul aliquots
of theamplified
PCRmixtures from each AHSV serotype 1 to 9 were
digested by
the restriction enzymes(10
unitsper reaction) Asnl, BamHl, Hinfl, Pvull, Sacl,
Sphl,
Cfol(Boerhinger-Mannheim)
andHphl (Ozyme)
in a total volume of 20pl (with
the buf-fers recommended
by
themanufacturer)
at37°C for 2 h.
Pvull is the
single
enzyme for which no re- striction site could be detected in thegenomic
sequence of the AHSV-4
Spanish
isolate. Theresulting cleavage fragments along
withpBR 328/Bgll
+pBR328/HinA-DNA
standards wereseparated
byelectrophoresis through
a 2% aga-rose horizontal slab
gel (100
V for 1h)
and visu-alized as
previously
described.RESULTS
Amplification
of total extracted RNA from infected and non infected cell culturesWith AHSV viruses
For AHSV
serotype
4(USDA)
anamplified product
was obtained with a size of 1 179bp (fig 1,
lane4). Amplified products
alsoappeared
asfragments
of similar molecu- larweight
for the other AHSVserotypes (fig 1,
lanes 1 to 3 and 5 to9). Figures
2Eand 2K show 2
fragments
with the samemolecular
weight
for AHSV-4(South
Afri-ca) (fig 2E,
lane9)
and AHSV-9 strains(South Africa) (fig 2K,
lane9).
Noamplifi-
cation
products
werepresent
insamples containing only
sterile water(fig 1,
lane19),
or insamples prepared
from mock- infected cell cultures(fig 1,
lane12).
Noamplified fragments
could be detected from the non-infectedequine
dermis cellcultures, indicating
that there was no am-plification
of anyequine
cellulargenomic
DNA
fragment (fig 1,
lane18).
With other
equine
virusesAs seen in
figure 1,
noamplified fragments
were noted in lanes
containing amplifica-
tion reactions of total nucleic acid extract-
ed from infected Vero cells with
respective- ly equine
arteritisvirus,
reovirusserotype
1(lanes 10, 11),
EHV-1-infected RK13 cells(lane 13),
MDCK cells infected with the in- fluenza virusA/equi
2/Brentwood 79 andequine
dermis cells infected withequine
adenovirus 1
(lanes 15, 17).
No cDNAfragment
could be detected in the non-infected cell cultures.
Restriction endonuclease DNA
fingerprints
of the differeniAHSV
fragments
7 cDNAFigure
2presents
theelectrophoresis
ofthe
cleavage fragments
7 with the 8 restric-tion enzymes. Table II summarizes the re-
striction
patterns
of thesegments
7 cDNAof the 9 serotypes.
As
predicted,
the 8 restrictionpatterns
of AHSV-4(South Africa)
strain are identi-cal to those
theoretically expected by
thepublished
nucleotide sequence of the seg- ment 7 of the AHSV-4Spanish
isolate(Roy
etal, 1991). For
each enzyme, theability
ofdigestion
has been checked si-multaneously
with standard DNA which have known restriction sequences(data
not
shown).
The cDNAfragments
7 of the9
serotypes
have the samepattern by
BamHl and Sad. These 2 enzymes re-spectively generate
2 and 3cleavage frag-
ments.
Only
AHSV-9 strains cDNA are not cleavedby Sphl.
For the other 8serotypes (AHSV-1
to-8),
thepatterns
are similar.Asnl
generates
2 bands with the cDNAfragments
7 of theserotypes 1, 3,
6 and8,
2 other bands with the 2
serotypes
AHSV -4
(USDA)
and -9(USDA)
and 3 bands with theserotypes
5 and 2. Asnlgives
differentpatterns
for AHSV-7 and AHSV-4(South Africa)
strains.Hphl
does not cut thecDNA of AHSV-
2, -
4(USDA)
or - 5strains,
but itgives
the samepatterns
forAHSV-1, -3,
-4(South Africa), -6,
-8 and -9(for
both USDA and South Africastrains).
Pvull
gives
2 similar DNAfragments
when
digesting
thesegments
7 ofAHSV-2,
- 5 and -9
(USDA
and SouthAfrica) strains,
but this enzyme does not cleave the cDNA
segment
7 of the otherserotypes.
Cfol
generates
the same restrictionpat-
terns for AHSV
-1, -3, -6, -7, -8,
-9(USDA),
for AHSV -4
(USDA),
-5 strains but differ-ent
profiles
for theserotypes 2,
4(South Africa)
and 9(South Africa).
The restrictionfragment length polymorphisms (RFLP)
are identical
(but
different from those of the otherserotypes)
for AHSV-4(USDA)
and 5strains.
Cfol
gives
acleavage fragment
of 550bp
with AHSV-9(USDA) segment
7 cDNA(fig 2J,
lane8),
which is notpresent
in seg- ment 7 AHSV-9(South Africa) pattern
(fig 2K,
lane8).
DISCUSSION
Using
the 2primers
selected from the se-quence data on AHSV-4
segment
7 gene, it ispossible by
PCR toamplify
thefrag-
ment 7
C DNA,
notonly
of AHSVserotype 4,
but also of the 8 otherserotypes.
Theidentity
of theamplified product
was checkedby studying
the RFLPusing
8 dif-ferent restriction enzymes.
When
comparing
theprimer
sequences with all the gene sequencespresent
in the gene &dquo;EMBL database&dquo;by computer analy- sis,
and aftertesting
thespecificity
of theprimers by using
otherequine
virus- infected cellcultures,
nohomology
wasfound between the 2
primer
sequences and viral genes(especially
the most fre-quently
isolated viruses fromequine
sam-ples)
or between theprimers
and cellular genes(including equine
DNA extracted from cellcultures).
This method could be useful for a
rapid diagnosis
of the disease whensuspected,
and for
orientating
theepidemiological
stud-ies. Even when no
cytopathic
effect wasseen in a cell
culture,
it waspossible
to am-plify by
PCR agenomic fragment (data
notshown)
and confirm thesuspicion.
When
comparing
all the RFLP obtained from thehomologous segments
7C DNA,
we were able to constitute groups of virus-
es
according
to the restriction enzymes.Table II summarizes our data and indi- cates viral strain groups for which seg- ments 7 cDNA have the same
pattern.
BamHl and Sacl confirm the
amplifica-
tion of
segment 7,
butthey
are not usefulfor differentiation because all the strains have the same
profiles
with these 2 en-zymes.
Using Sphl,
similarsegments
7 RFLPcan be obtained with all AHSV
serotypes except
with the 2 AHSV-9strains,
of whichsegments
7 are not cleavedby
this en-zyme.
When the
patterns
of thefragments
7cDNA of the different viral strains are ana-
lysed together (table I),
it ispossible
to dif-ferentiate the group of viruses
AHSV-1, 3, 6,
8 and the virusesAHSV-2, AHSV-4, AHSV-5, AHSV-7,
and AHSV-9. The 4serotypes AHSV-1, -3,
-6 and -8 have the same RFLP with 6 enzymes(Asnl,
Hin-fl, Hphl, Pvull, Sphl
andCfol).
The strainswe
analysed
can begrouped according
totheir identical
patterns,
but further data have to be obtained with other field iso- lates before a definitive conclusionregard- ing
RFLP differentiation can be made.AHSV-2 and -5 strains have the same
pattern except
with the Cfol enzyme: sero-type
2 has aunique profile,
whileserotype
5 has the same
profile
as that of the AHSV - 4(USDA)
strain. WithoutCfol,
the 2 sero-types (-2
and-5)
can bedistinguished
from the other
serotypes
and with the Cfolpattern,
the 2serotypes
can be differentiat- ed from each other.The AHSV-7
segment
7 cDNA has aunique pattern:
the combination of the Asnl andHphl patterns
which are each differentfrom those of the other
viruses,
allow thisserotype
to be identified(according
to thestrains studied in this
paper).
AHSV-9
(USDA)
strain can be differen- tiated from the otherserotypes by using
the
Sphl
restriction enzyme which does not cleave its CDNA. Both strains(the
USDAand the South Africa
strain)
have the sameprofiles
withAsnl, BamHl, Hpf l ,
Pvull andSad. AHSV-9
(USDA
and SouthAfrica) fragments
7 cDNA have no restriction site for HinR andSphl,
but their RFLP showone difference with the Cfol enzyme
pat-
tern. This difference could be
explained by
the
genetic
variation of the South Africa strain inducedby
serial passages to semi-permissive
nonequine
cell lines(as
BHK21
cells)
andby
serial intracerebral pas- sages of the USDA strain in mice.Concerning
AHSV-4,
thesegment
7cDNA of its South Africa vaccine strain
produced
on BHK 21 cellshas,
for each enzyme, apattern
similar to thatpredicted by
thefragment
7 sequence of theSpanish
isolate.
However,
the vaccine AHSV-4 strainprovided by
the USDA has different restrictionpatterns
for 4 enzymes(Asnl, Hinfl, Hphl
andCfol)
whencompared
withthe vaccine AHSV-4
(South Africa)
strain.AHSV-4
(South Africa)
has the samepat-
tern as the
expected profile
of theSpanish
AHSV―4 isolate determined from the se-
quencing
data. The differences between the vaccine strain(USDA) pattern
and thesequenced
strain(Spanish isolate) RFLP,
and the
homology
between the latter strainprofile
and the vaccine AHSV-4(South Africa)
strainpattern
could be causedby
the
propagation
of the AHSV-4(USDA)
inmice.
In
shortening
thedelay
of response in thediagnosis
of an AHSV infection and inproviding partial
information on the involvedserotype,
the PCR method associated with RFLPanalysis
is aninteresting
methodolo- gy which has to be morecompletely
stud-ied. In
addition,
further information could be obtainedby comparing
the restrictionpat-
terns of a
greater
number of different iso-lates for each
serotype,
in order to evaluatemore
precisely
theintra-serotype genetic variability. Facing
thedifficulty
inobtaining
field
isolates,
we arestudying
the conse-quences on the cDNA
fragment
7 restrictionpattern
inducedby
numerous passages on BHK 21 and Vero cells of AHSV-4 vaccine strainproduced
in mice.Experiments
arealso in progress to
apply
the PCR method to the detection of the AHSV nucleic acidsdirectly
in clinicalsamples.
ACKNOWLEDGMENTS
The authors wish to thank JL Guesdon, Institut Pasteur
(Paris)
for his advice. This work wassupported by
a grant from theEuropean
Com-munity (No 8001-CT91-0211 ).
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