LfNG DUNG PHAN MEM TIN SINH HOC BIONUMERICS TRONG PHAN TICH<br />
GENOTYP VIRUS RUBELLA H«<br />
<br />
Nguyen Hanh Phiic, Nguyen Thanh Long*, Tran Thi Nguyet Lan, Nguyen Thj Thu Thuy**,<br />
Nguyen Thai Bing, Nguyen Quoc Anh, Nguyen My Ha, Nguyen Manh Ha, Valeri Caro***,<br />
Sylvan Briss***, Vabret Asrid****, Francois Freymuth****<br />
Vien Ve sinh Dich te Trung wffng, Hd Npi<br />
* Vien Pasteur thdnh pho Ho Chi Minh<br />
** VNBIOLAB, Hd Npi.<br />
*** Vien Pasteur, Paris, Phdp<br />
CHU Caen, Phdp<br />
•K-KffK I<br />
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<br />
<br />
<br />
TOM TAT<br />
Phin mem BioNumerlcs hien dugc cong nhan la phin mim tin sinh hpc hien dai vdi nhilu tinh<br />
nang noi bat. BioNumerlcs lln diu tien dugc ap dung trong phan tich dac dilm di truyin cua chung<br />
virus Rubella phan lap tir cac vu dich tai miln Nam VN trong nam 2007. Cay phat sinh loai cua virus<br />
Rubella dugc dung bdi phin mim BioNumerlcs dua tren chuli ADN genom El. So sanh vdi cac<br />
genotyp chung Rubella luu hanh tai cac nudc khac cho thiy chung Rubella hoang da luu hanh tai<br />
Viet Nam dugc xac dinh thupc nhom RGII - 2B. Genotyp Rubella Viet Nam co su tuong ding cao<br />
nhat dat 97-98% so vdi cac genotyp da cong b l . Dilu nay cho thay genotyp virus Rubella Viet Nam<br />
CO su thay doi va khac biet vdi cac kiiu gen hien luu hanh tren thi gidi.<br />
Tie khoa: Rubella, ADN genom El, genotyp RGII 2B, cay pha he, tin sinh hoc.<br />
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I. DATVANDE phap nghien cuu ve xir ly cac thdng tin sinh<br />
hpc. Chuong trinh cho kha nang nhap, xir ly,<br />
Tin sinh hgc la mgt nganh khoa hgc mdi<br />
truy van, tham do, khai thac, tfch hgp mang va<br />
phat trien dua tren su ket ndi giua Cdng nghe<br />
trao ddi nhieu loai du lieu khac nhau. [2],<br />
tin hpc va Sinh hpc. Nhung thanh tuu eiia Tin<br />
Trong nghien cuu nay, phan mem<br />
sinh hpc da hd trg manh me trong viec dua Sinh<br />
BioNumerlcs lan dau tien dugc ung dung trong<br />
hpc, Y hpc vao giai quyet nhung cdng viec thuc<br />
lien... Tin sinh hpc cdn la cdng cu huu fch trong phan tfch trinh tu ADN doan genom El eiia 10<br />
viec xir ly cac dir lieu thdng tin ve trinh tu ADN chiing virus Rubella phan lap tii' cac vu dich<br />
ciia cac bd gen, lap ban do phat sinh va phan bd tai mgt sd dia phuong mien Nam nam 2007.<br />
cac genotyp ciia cac loai vi sinh luu hanh theo Ket qua phan tfch nham muc dfch xac djnh dac<br />
viing dja ly va theo thai gian. [1]. tfnh di truyen eua cac genotyp chiing Rubella<br />
Phan mem ban quyen BioNumerlcs ciia hien dang luu hanh tai VN. Cac ky thuat phan<br />
Hang Applied Maths (Bi) la tdng hgp cac giai loai phan tir nhanh chdng va tu ddng uu viet<br />
<br />
Tac gia: Nguyin Hanh Phiic<br />
Dja chi: Vien ve sinh djch te trung uong. So 1 Yersin, Ha npi<br />
Dien thoai: 043.8683801 >;;>.„;•:,,:.<br />
Email: vnbiQlab(S)gmail.com „,.• .,,;;.,•.,;...<br />
<br />
Tap chi Y hpc du phdng. Tap XX, sd 7 (115) 95<br />
ciia phan mem BioNumerlcs giup de dang tao nhupm vdi edithium bromide.<br />
ra mpt lugng Idn du' lieu tii' cac ky thuat thu - Gidi trinh tu ADN San phim ADN vi-<br />
nghiein khac nhau, hd trg chfnh xac cho viec rus Rubella sau RT-PCR dugc linh sach theo<br />
phan tfch ket qua ihii'nghiem. phuong phap enzyme ExoSAP-IP ciia phdng<br />
Thf nghiem Sinh hgc phan tir CHU Caen<br />
II. PHU'ONG P H A P N G H I E N C U t J (Phap). Giai trinh tu ADN gen El virus Rubel-<br />
la dugc tien hanh vdi thi tfch 1-2 pi mau ADN<br />
2.L Vat lieu<br />
tinh sach, sir dung CEQ DTCS Quick start kit<br />
10 mlu benh pham djch ngoay hgng<br />
theo thudng quy cua Phdng thi nghiem Chuan<br />
do Phdng thf nghiem Hd hap Vien Pasteur TP.<br />
thuc Qudc gia Sdi Caen (Phap). Cap mdi xudi<br />
HCM thu thap tii' cac vu djch Rubella d mgt<br />
va mdi ngugc sii' dung cho RT-PCR dugc sii'<br />
sd dja phu'ong mien Nam VN nam 2007. ARN<br />
dung lam khudn mau cho giai trinh lu. Trinh<br />
virus tach chiet tir nudi cay te bao Vero SLAM<br />
tu doan gen ADN 380 bp virus Rubella dugc<br />
gay nhiem benh pham dugc sii' dung lam vat<br />
phan tfch va xac djnh bang cac chuong trinh<br />
lieu cho nghien eiru.<br />
tin hgc.<br />
2.2. Phuo'ng phap<br />
- Phan tich genotyp chiing virus Ru-<br />
- Nhdn doan ADN genom Rubella bang<br />
bella bdng phdn mem Tin sinh hgc BioNu-<br />
RT-PCR. Genom virus Rubella la mgt chudi<br />
merlcs<br />
ARN don am. Phan ung RT-PCR gdm hai<br />
Trinh tir nucleotit thd ban dau la do<br />
giai doan chinh la phien ma ARN virus thanh<br />
thj cac sdng sac ky vdi 4 mau tuong ung vdi<br />
ADNc nhd enzym phien ma ngugc va tdng hgp<br />
tirng ddNTP (A,C,T,G) thu dugc sau giai trinh<br />
ADN. Doan ADN genom El dac hieu virus<br />
tu dugc XU' ly va xac djnh bang phan mem<br />
Rubella dupe khuech dai, sii' dung Kit Super- "BioNumerlcs sequence". Dieu can thiet quyet<br />
script One-step RT-PCR vdi enzym platinum djnh cho viec xac djnh diing trinh tu doan ADN<br />
Taq polymerase (Invitrogen). Cac cap mdi dac la viec chinh sua bang tay nhirng dinh sdng Idi<br />
hieu cho phan irng RT-PCR gdm: hoac chdng len nhau. Chuong trinh se tu dpng<br />
Moi xudi (Ru ITR): 5' CGT ATG TGG chuyen cac ky hieu dang dinh sdng sang trinh<br />
AGTCCGCACTT3' tu nucleotit tuong irng. Trinh tu cac nucleotit<br />
Mdi ngugc (Rube IF): 5' CGT CTG virus Rubella hoan chinh dugc tir dgng nap vao<br />
GCAACTCTCCGT3' CO' sd dir lieu cua thu muc chu.<br />
RT-PCR dugc thuc hien vdi tdng the tfch DiJ lieu cho viec so sanh su tuong ddng<br />
la 25pl. Trong do, 2,5 pi mau ARN virus Ru- giira cac genotyp gdm cac trinh tu ADN mau<br />
bella dugc trdn trong dem phan ung cd chiia virus xet nghiem va trinh tu ADN'chuan. Cac<br />
cac thanh phan: 1,2 pi moi RulTR (lOpM), trinh tir nucleotit chuan chgn lua tir Ngan hang<br />
1,2 pi mdi RubelF(10^M), 5pl dung dich dem gen NCBI dugc nhap vao thu muc chu dudi<br />
5X, 3 pi Q solution (5X), 1 pi dNTPm (10 juM), djnh dang GenBank hoac FASTA. Cac budc<br />
Ipl enzym polymerase (1 unit/pi) va \0,\[i\ nhap dir lieu thuc hien theo quy trinh hudng<br />
H,0. Chu ky phan irng nhiet dugc thirc hien d dan vdi sir hd trg cua cac cdng cu phan mem.<br />
50°C/30 phut cho RT, 94°C /15 phut, [94°C/30 Trinh tu chuan dugc nap tir ddng vao ca sd du<br />
giay, 60°C/30 giay, 72°C /I phut] x 40 chu ky, lieu cua thu muc chu .<br />
72°C/10 phut. San pham ADN khuech dai sau - Dung cay pha he phat sinh chung loai<br />
RT-PCR dugc kiem tra tren gel Agarose 2%i virus Rubella bang Phan mem BioNnmerics.<br />
<br />
96 Tap chi Y hgc du phdng. Tap XX, sd7 (115)<br />
Cay pha he phat sinh chung loai virus tu chuan. Ti le tuang ddng giira cac trinh lu<br />
Rubella dugc dung bang phan mim BioNu- dugc chuang trinh phan mem tinh loan. Ca_\<br />
merlcs Tree and Network Inference. Chpn lua pha he dirge dung dua tren viec sap xep cac<br />
cac du lieu trinh tir nucleotit virus Rubella<br />
nhanh theo ti le ddng thuan giua cac irinh lu<br />
xet nghiein va trinh tu chuSn da dugc nap san<br />
cap nhdm. Mdi giao diem trong cay pha he dai<br />
trong thu mue ehu. Sir dung cac thuat loan de<br />
thuc hien qua trinh sap xep cae nucleotit. Toan dien cho Irinh lu luong irng ciia nhom dd. Giao<br />
bp trinh tu virus Rubella can phan tfch dugc diem gdc dai dien eho Irinh lu luang irng eua<br />
so sanh, gidng cdt thang hang vdi eae trinh loan bd cay pha he.<br />
III. KETQUA<br />
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3.1. Kit (pia nhan doan ADN genom Rul)ella biing lil-PC R.<br />
1 2 3 4 5 ' 6 7 8<br />
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380bp- —400bp<br />
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Hinh 1. Kit qua dien di san pham ADN genom virus Rubella sau RT-PCR<br />
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1.2..vl.5, .\luLi.\l)N Rubella pluiii li^li<br />
6. Chuan Rubella duong tinh<br />
7. Chuan am tinh<br />
8. Thang ADN chuan lOObp<br />
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RT-PCR la mdt trong cae ky thuat sinh Quy trinh giai trinh tu chudi ADN genom<br />
hpc phan tir dugc sir dung trong chan doan benh El virus Rubella dugc xay dung va chuan hoa.<br />
Rubella. Cae nghien cuu deu tap trung xac djnh Sir dung may giai trinh lu lir dgng Beckman<br />
doan ADN genom virus Rubella tren trinh tu Counter de xac djnh trinh lu chudi nueleolil<br />
glycoprotein El tir nucleotit 8251 din 9693. gen El virus Rubella. Kcl qua giai trinh tu dai<br />
Irong nghien cuu nay, 10 mau ADN virus Ru- chat lugng cao qua hinh anh trai deu va lach<br />
bella dupc khuech dai bang RT-PCR. San pham biel rd rang eiia eae dinh cudng dp anh sang.<br />
sail Rf-PCR dugc kiem tra tren gel agarose 2%. Bang phuong phap giai trinh tu, cac doan ADN<br />
Anh dien di dd tren Hinh 1 cho thay xuat hien cd kfch thudc tii' khoang 370 bp-385 bp cua<br />
mdt bang ADN duy nhat cd kich thudc khoang ADN genom EI virus Rubella phan lap lir cac<br />
380 bp, phii hgp vdi cap nidi dac hieu. vu djch lai mpt sd dja phuong mien Nam VN<br />
3.2. Kit qua giai trinh tu ADN chung virus nam 2007 da duoc xac dinh.<br />
Rubella<br />
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Tap chi Y hpc du phdng. Tap XX, sd 7(115) 97<br />
Mien Nam VN Ruo11 20Q7 CTG^CAACTCTCCGTAGCCGGCGTGTCGTGCAACGTCACGACCGAACATCCATTCTGTAACACGCCGCACGGCCAACTCG<br />
Mien Nam VN Rub2754 2007 CTGC :AACTCTCCGTAGCCGGCGTGTCGTGCAACGTCACGACCGAACATCCATTCTGTAACACGCCGCACGGCCAACTCG<br />
Mien Nam VN Rub2781 2007 CTGGCAACTCTCCGTAGCCGGCGTGTCGTGCAACGTCACGACCGAACATCC.ATTCTGTAACACGCCGCACGGCCAACTCG<br />
Mien Nam VN Rub29 2007 CTGGCAACTCTCCGTAGCCGGCGTGTCGTGCAACGTCACGACCGAACACCCATTCTGTAACACGCCGCACGGCCAACTCG<br />
<br />
Mien Nam VN Rub11 2007 AAGTCCAGGTCCCGCCTGACCCCGGTGACTTGGTTGAGTACATCATGAATTACACCGGCAATCAACAGTCCCGGTGGGGC<br />
Mien Nam VN Rub2754 2007 AAGTCCAGGTCCCGCCCGACCCCGGTGACTTGGTTGAGTACATCATGAATTACACCGGCAATCAACAGTCCCGGTGGGGC<br />
Mien Nam VN RUD2781 2007 AAGTCCAGGTCCCGCCCGACCCCGGTGACTTGGTTGAGTACATCATGAATTACACCGGCAATCAACAGTCCCGGTGGGGQ<br />
Mien Nam VN Rub29 2007 AAGTCCAGGTCCCGCCCGACCCCGGTGACTTGGTTGAGTACATCATGAATTACACCGGCAATCAACAGTCCCGGTGGGGC<br />
<br />
Mien Nam VN Rubl1 2007 CTCGGGAGTCCGAACTGTCACGGCCCCGACTGGGCCTCCCCGGTTTGCCAGCGCCATTCTCCGGACTGCTCGCGGCTCGT<br />
Mien N i n VN RUD2754 2007 CTCGGGAGTCCGAACTGTCACGGCCCCGACTGGGCCTCCCCGGTTTGCCAGCGCCATTCTCCCGACTGCTCGCGGCTCGT<br />
Mien Nan VN Rub2781 2007 CTCGGGAGTCCGAACTGTCACGGCCCCGATTGGGCCTCCCCGGTTTGCCAGCGCCATTCTCCCGACTGCTCGCGGCTCGT<br />
Mien Nam VN Rub29 2007 CTCGGGAGTCCGAACTGTCACGGCCCCGACTGGGCCTCCCCGGTTTGCCAGCGCCATTCTCCCGACTGCTCGCGGCTCGT<br />
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Mien Nam VN Rub11 2007 GGGGGCTACGCCAGAGCGCCCCCGGCTGCGCCTCGTCGATGCCGACGACCCCCTTCTACGCACCGCTCCGGGGCCGGGCG<br />
Mien Nam VN Rub2754 200" GGGGGCTACGCCAGAGCGCCCCCGGCTGCGCCTCGTCGATGCCGACGACCCCCTrCTACGCACTGCTCCGGGGCCGGGCG<br />
Mien Nam VN Rub27El 200"" GGGGGCTACGCCAGAGCGCCCCCGGCTGCGCCTCGTCGATGCCGACGACCCCCTrCTACGCACTGCTCCGGGGCCGGGCG<br />
Mien Nam VN Rub29 2007 GGGGGCTACGCCAGAGCGCCCCCGGCTGCGCCTCGTCGATGCCGACGACCCCCTTCTACGCACTGCTCCGGGGCCGGGCG<br />
<br />
Mie.n Nam VN Rub11 2307 AGGTGTGGGTCACGCCTGTCATAGGCTCTCAGGCGCGCAAGTGCGGACATCCACATAC<br />
Mien Nam VN RI;D2754 2007 AGGTGTGGGTCACGCCTGTCATAGGCTCTCAGGCGCGCAAGTGCGGACATCCACATAC<br />
Mien Nam VN Rub2761 2007 AG&TGTGGGTCACGCCTGTCATAGGCTCTCAGGCGCGCAAGTGCGGACATCCACATAC .!•••:•. ' . •-'•<br />
Mien Nam VN Rub29 2007 AGGTGTGGGTCACGCCTGTCATAGGCTCTCAGGCGCGCAAGTGCGGACATMCACATT-<br />
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Hi'ih 2. Trinh t u ADN genom E1 virus Rubella m i l n Nam Viet Nam 2007<br />
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3.3. Phan tich trinh tu ADN genom virus he Hinh 3 cho thay, toan bd 40 trinh tu phan<br />
Rubella bing phan mem BioNumeris tfch dugc chia thanh 2 nhdm RGI va RGII vdi<br />
Phil- ir.em BioNuinerics (version 6.0) cae nhanh tach biet. Chiing virus Rubella mien<br />
(Applied ! ialhs, Bi) dirge irng dung trong thiet Nam VN (2007) cd ti le tuang ddng eao nhat<br />
ke cay phi. he phat sinh loai ciia eae genotyp khoang 96.5% khi so sanh vd'i trinh tir chiing<br />
virus Rubella. Cac trinh lu ADN genom El RVs/Kenl.GBR/21.03 va RVi/Chendu.Sichuan.<br />
Rubella dugc sir dung trong nghien ciru nay CHN/18.06/1. Tren .sa do cay pha he, chiing<br />
bao gdin 36 trinh lir nucleotit dai dien eho 09 virus Rubella VN dugc xep thanh mgt nhanh<br />
kiiu genotyp RGI (IA, IB, IC, ID, IE, IG, rieng biel. Phan lich rieng 04 chiing Rubella<br />
IH, li, Ij) va 03 kiiu genotyp RGII (2A. 2B. VN cdn nhan thay sir khac biet giua cac geno-<br />
2C) dugc chpn lira tir ca sd du lieu tren Ngan typ vdi ty' le gidi han 0.4% - 2.4%.<br />
hang gen NCBI. Kcl qua quan sal tren cay pha<br />
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nifim<br />
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<br />
98 Tap chf Y hpc du phdng. Tap XX, sd 7 (115)<br />
E1 ^ r e<br />
9 a ^ . y. .f.<br />
' • I 11 • I 11 I 11 • I I I<br />
.fl.Y326343 MTS,'-INDOO (India •2CO0) [2B]<br />
A'Y96822i:i RVI,iWA.US.W16.i:i:i [2B]<br />
(51.1288729 R''./i''H o n g Kem g. C H H.'\ U.UU [2 B]<br />
.A.Fi:i39134B.A.S,'-IND95 (Indii -VadG) [2B]<br />
ABiJCi3:340 itrain:379l'HK-CHNS0 (H.:.n!3Ki:.ngChin3 198.<br />
A'r'326;t4.5 AHI/'SO-KORS (Seoul, Ki:.fea1995) [26]<br />
AY326;>47 ANS.'SO-KOR'.a:. i Seoul, t- oiea !9y6i [28]<br />
Af'!36821S Rv'VANHUI C H ((jno PB]<br />
<br />
A'i-968219_^R%'I,'TELA >•' IV 18 R « : [281<br />
• R ub27'54 Mier. MJITI VN 2007 ,<br />
-c • Rub27ft1 Mi^n MJITI vN 2007<br />
I RubM Mien Nam VN 2C07<br />
POil ' Rub29 t'llien Nam VN 2C07<br />
<br />
0 EF2100e6.1RV2.'kent C-BR.CI.OS [2B]<br />
0 FJK75057 1RVi''Ch*ndu Siohuan CHN,'18 u6.i [2BJ<br />
ttY25SS2 R,.i,'eei|ingC HN;79 i:BR[) t) [2"]<br />
AY25S323 RnuBeiiing CHN.'SOVAi: (BR['2i pA]<br />
AY247i:il6 CIQ.'MO- RU868 (h.lo;- o*v. R ufjia ISCo i (2C;<br />
M';/1,I !> rC D 0388279 R»I'Mc-i jcom' RU8,67(141 [21:]<br />
A-('247D19 C74,''MO- R U 897 (M f.e occi', R uf / la 1997 i [2 C<br />
i::'Q08534i:i Rwi'Mccs-coi'.i RU8.S7 i'C74i pC)<br />
EFei49768 LSf.«.Rerm-20i35RU [2cl<br />
Al"1253945 R Vi'Mi re k B LF: ..'29 04,' 1 [ 16]<br />
EF53397S RVunOtt/20,01 (1>>]<br />
ivM25S'953 RVi'Mirefc BLfi.C« 05.''2 [ 1H]<br />
DQ454161 Eoiate Tom9-61 RUS.'D5 [IH]<br />
AVieir,-!52 RvL'Pawia ITA'4e. 92(:-e88-ITA91 i [li]<br />
A^-161;60 Rvi/Mil3n.lT«;4692(4ci5&ITa92i [li]<br />
6,Y968337 RVI.'Jenjjaiem I3R,'75 [18]<br />
RGI<br />
.AY96S208 RVI,'l8R.'7y [IB]<br />
>iF 188704 R .'i'SEU83VAC (iI endeh\\h [1 A]<br />
M30776 Rvi,iJJ.US.AMi1V.Ai:: [1.A]<br />
F .1775000 RVi'D ewe im. S D H /24.05[1 E]<br />
0 U353i:i77 R Vi^'B a rH ar b or. ME. U S A/43 D8 [1E]<br />
.AB23S919 R'Ui/Tochigi.JPN,'D4; [1]<br />
E F e02117 R Vs,''Mia m i. F L. U 8A/32.02 [1 j]<br />
E F 210053 R Vs.'Lo n d o n. G B R /"C .04[1 D ]<br />
.AYg68216 RVl/SAl TAMA.J P H S4 [10]<br />
.AY968211 RVI/SLV,02 [1C]<br />
.AY968217 RVi.'PAN;?I9 [1C ]<br />
<br />
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<br />
Hinh 3. Cay pha he phat sinh chung loai virus Rubella<br />
<br />
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Tap chi Y hpc du phdng. Tap XX, sd 7(115) 99<br />
Ket qua ciia chiing ldi dugc danh gia la The gidi. trong cdng trinh nghien eiru na\. liin<br />
chfnh .\ac va phii hgp vd'i cac nghien ciru phan dau tien quy trinh giai Irinh lu doan gen bl<br />
tfch genotyp chiing Rubella Iren The gidi. Viec virus Rubella dugc xay dung va thir nghiem<br />
xac dinh sir khac biet ve genotyp chimg Rubella thanh cdng. Theo dinh danh eiia WHO ve phan<br />
VN dugc danh gia la thdng tin nidi, cd gia tri loai trinh tu glycoprotein t^l virus Rubella,<br />
Irong ITnh vuc nghien ciru Djch le hgc phan lir. trinh tu nucleotit genom El chiing Rubella ho-<br />
ang da luu hanh tai miln Nam VN thu dugc tir<br />
IV. BAN LUAN cdng trinh nghien ciru ed diem nidi, dat chat<br />
lugng cho viec dang ky bd sung vao danh muc<br />
Theo cac cdng bo khoa hgc cac geno-<br />
dir lieu gen virus Rubella ciia Ngan hang gen<br />
typ Rubella hien dang luu hanh tren The gidi<br />
The gidi.<br />
dugc phan bd thanh 2 nhdm chfnh vdi 09 kieu<br />
genotyp RGI (1 A. IB, IC, ID. IE, IG, IH, li,<br />
V. KET LUAN<br />
Ij) vii 03 kieu genotyp RGII (2A, 2B, 2C) [31.<br />
Trinh lu doan ADN 380 bp genom El virus Chuong trinh phan mem tin hgc BioNu-<br />
Rubella VN thu dugc sau giai trinh lu dugc inerics da dap irng dugc yeu cau phan tfch eae<br />
nhap vaoca sd dCr lieu ehii eiia phan mem Bi- sd lieu dang giai Irinh tir di truyen. Tat ca cac<br />
oNuinerics. Cay pha he phat sinh loai ciia cac dang sd lieu nay khi dugc phan tieh ciing vdi<br />
genotyp virus Rubella ehi rd sir da dang ve cae sd lieu chuan cd the ve dugc cay pha he ciia<br />
tinh di lru\cn giiia cac chiing virus, ly le tuang cac chiing. mdi quan he di truyen vdi ehiing<br />
ddng giua 2 nhdm mau RGI va RGII la 91%. chuan va cac chimg khac nhau.<br />
dp chenh lech >8%. Chiing Rubella VN dugc Phan mem Tin sinh hgc BioNuinerics<br />
xep cimg nhanh vdi cac ehiing mau RGII 2B. dugc irng dung trong phan tfch trinh tu ADN<br />
Ty lc tuang ddng eua trinh lu ADN chimg virus genom El Rubella VN. Cay pha he phat sinh<br />
Rubella phan lich dugc so sanh vdi cac chung ehiing loai virus Rubella cho thay chiing Ru-<br />
mau trong danh muc nucleotit eiia Ngan hang bella luu hanh tai mien Nam VN nam 2007<br />
gen NCBI. Theo chuo'ng trinh BLAST, genot- dugc xac djnh thupc nhanh RGII 2B.<br />
yp chiing \'irus Rubella VN cd ty le tuang dong<br />
TAI LIEU T H A M KIIAO<br />
cao nhat khoang 97% so vdi chimg RVs/Kenl.<br />
GBR/21.03 vii 98% so vdi ehiing RVi/Chendu, 1. Agbiolech Vietnam. Tin sinh hpc: nipt trong<br />
Sichuan.CIlN/18.06/1 dugc cdng bd gan day nhung cdng nghe sinh hpc hang dau can cho<br />
nhai (31/12/2009) [4]. [5]. [6]. Kit qua phan cac nen kinh le dang phat trien. htlp://ww'w.<br />
tich eua chiing ldi nhan thay su khae biel giira agbiolech.com.vn<br />
genotyp Rubella VN vdi hai chiing tren khoang 2. BioNumerlcs. Manual. Version 6.0. Copy-<br />
3%. Theo tieu chuan phan nhdm ciia WHO. ly right ©2009. Applied Maths NV Belgium.<br />
le sai lech giua eae nhanh genotyp RGII cd Ihl 3. Du-Ping Zheng, Teryl K. Frey, Joseph Ice-<br />
Icn ldi 5,5%. Tren cay pha he, genotyp virus nogle, Shigelaka Katow, Gisela Enders,<br />
Rubella VN dugc xlp thanh nidi nhanh RGII Margaret Croxso. Global distribution of ru-<br />
2B rieng biel. bella virus genotypes. Emerging Infectious<br />
Tir cac ket qua thu dugc cho phep nhan Diseases. 2003. Vol.9, No. 12: 1523-1530.<br />
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ddi va khac biel so vdi cac chiing Rubella tren maguchi Y. Molecular epidemiology of ru-<br />
<br />
100 Tap chi Y hoc du phdng. Tap XX, sd 7(115)<br />
bclla by nucleotide sequences of the rubella from 2004 to 2005. J Clin Microbiol. 2009.<br />
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APPLICATION OF BIONUMERICS SOFTWARE TO ANALYSE RUBELLA<br />
VIRUS GENOTYPE<br />
<br />
Nguyen Hanh Phuc, Nguyen Thanh Long*, Tran Thi Nguyet Lan, Nguyen Thi Thu Thuy-*,<br />
Nguyen Thai Bang, Nguyen Quoc Anh, Nguyen My Ha, Nguyen Manh Ha, Valeri Caro***,<br />
Sylvan Briss***, Vabret Asrid****, Francois Freymuth****.<br />
The National Institute of Hygiene and Epidemiology, Hanoi, Vietnam.<br />
*Pasteiir Institute Ho Chi Minh city.<br />
**VNBIOLAB Co.,Ltd<br />
. ***Department PF8, Institute Pasteur, Paris, France<br />
****Laboratory of Human Virus and Molecular, CIIU Caen, France<br />
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BioNuinerics software is recognized as circulating in other countries shows that wild<br />
a modern bioinformalics software with many Rubella strains circulated in Vietnam were de-<br />
outstanding features. BioNuinerics was first termined heading group RGII - 2B. Rubella<br />
applied in analyzing genetic characteristics of genotype Vietnam has the highest average sim-<br />
Rubella virus strains isolated from outbreaks ilarity of97-98% compared with the published<br />
in Southern VN in 2007. Phylogenelic tree of genotypes. This suggests that Rubella virus<br />
Rubella virus was constructed by BioNuinerics genotype Vietnam is changing and different<br />
software based on Rubella El genome DNA genotypes circulating in the world.<br />
sequences. Compared with Rubella genotypes<br />
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Tap chi Y hpc dir phdng. Tap XX, sd 7(115) 101<br />