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Egyptian Journal <strong>of</strong> Medical Microbiology, January 2007 Vol. 16, No. 1<br />

<strong>Detection</strong> <strong>of</strong> <strong>group</strong> A <strong>Rota</strong> <strong>virus</strong> <strong>and</strong> <strong>characterization</strong> <strong>of</strong> G <strong>type</strong> among<br />

Egyptian children with diarrhea<br />

Maysa A Amer 1 , Shwikar M Abdel Salam 2 , Hoda A H Ibrahim 2 , Mona A Farag 2<br />

Department <strong>of</strong> pediatrics 1 ,Department <strong>of</strong> Medical Microbiology <strong>and</strong> Immunology 2 , , Faculty <strong>of</strong> Medicine,<br />

Alex<strong>and</strong>ria University<br />

Group A rota<strong>virus</strong>es are the most important cause <strong>of</strong> acute diarrhea in children throughout the<br />

world. It is the cause <strong>of</strong> more than 450,000 deaths per year. There are few data available about<br />

rota<strong>virus</strong> <strong>type</strong> circulating in Egypt. Serotyping by ELISA with anti-VP7 sero<strong>type</strong>-specific<br />

monoclonal antibodies <strong>and</strong> genotyping by reverse transcription-PCR (RT-PCR) have been widely<br />

used for typing . The materials <strong>of</strong> this study comprised 100 stool specimens collected from children<br />

less than 5 years old suffering from acute diarrhea, attending Alex<strong>and</strong>ria University Children's<br />

Hospital at El-Shatby during the period from January to December 2006. These specimens were<br />

subjected to RT-PCR. <strong>Rota</strong><strong>virus</strong> was detected by RT PCR in 33 (33%) <strong>of</strong> patients. In the present<br />

study, a total <strong>of</strong> 30 (90.9%) <strong>of</strong> the 33 rota<strong>virus</strong> positive samples were found to be G typable <strong>and</strong> the<br />

remaining 3 (9.1%) were untypable. Out <strong>of</strong> the 33 rota<strong>virus</strong> positive cases, G4 was the main<br />

geno<strong>type</strong> detected being responsible for 12 cases (36.4%) <strong>of</strong> rota<strong>virus</strong> infections. G1 was the second<br />

most common cause <strong>and</strong> was responsible for 9 cases (27.3%) <strong>of</strong> the infections. Our study identified<br />

G9 in 6 (18.1%) <strong>of</strong> the positive cases. Mixed G <strong>type</strong>s reflecting dual infections G1+G9 were detected<br />

in 3 (3%) <strong>of</strong> the samples. G2, G3, <strong>and</strong> G8 were not detected among our cases. These results<br />

underline the importance <strong>of</strong> continued detailed epidemiological <strong>and</strong> virological studies to identify<br />

rota<strong>virus</strong> sero<strong>type</strong>s responsible for severe diarrhea, including <strong>characterization</strong> <strong>of</strong> less common <strong>and</strong><br />

or unusual strains. Knowledge <strong>of</strong> rota<strong>virus</strong> prevalence <strong>and</strong> strains circulating in the Egyptian<br />

community will add in assessing the suitability <strong>of</strong> c<strong>and</strong>idate vaccines, in order to protect against all<br />

currently circulating rota<strong>virus</strong> strains.<br />

INTRODUCTION<br />

Group A rota<strong>virus</strong>es are the most<br />

important cause <strong>of</strong> acute diarrhea in children<br />

throughout the world. It is the cause <strong>of</strong> more<br />

than 450,000 deaths per year (1). In Egypt,<br />

during the past decade, numerous studies<br />

evaluating diarrheal diseases among children<br />

living in the Nile River Delta, northern Egypt<br />

revealed that rota<strong>virus</strong> is the most commonly<br />

identified cause <strong>of</strong> diarrhea among children<br />

seeking medical care for severe illness<br />

(2,3,4,5). Development <strong>of</strong> vaccines against<br />

rota<strong>virus</strong> infection is considered a high<br />

priority in developing countries (6). However,<br />

the vaccine efficacy is being challenged by<br />

the extensive diversity <strong>of</strong> the rota<strong>virus</strong>es (7-<br />

9).<br />

The genome <strong>of</strong> rota<strong>virus</strong>es consists <strong>of</strong><br />

11 segments <strong>of</strong> double str<strong>and</strong>ed RNA (10,11).<br />

The rota<strong>virus</strong>es are distinguished by the<br />

layered proteins forming the capsid, which<br />

can be used to differentiate <strong>and</strong> classify<br />

strains, <strong>and</strong> which are important to the<br />

antigenic response. Based on the antigenic<br />

properties <strong>of</strong> the VP6 protein in the inner<br />

layer <strong>of</strong> the capsid, the rota<strong>virus</strong> genus is<br />

divided into different sero<strong>group</strong>s (labeled A<br />

through to E with two possible additional<br />

species F <strong>and</strong> G) (8,9). The clinically<br />

significant rota<strong>virus</strong>es belong to <strong>group</strong> A<br />

(12). Further classification <strong>of</strong> rota<strong>virus</strong>es is<br />

based on the genetic characteristics or<br />

seroreactivity <strong>of</strong> the VP4 <strong>and</strong> VP7 viral<br />

proteins in the outer layer <strong>of</strong> the capsid. Each<br />

<strong>of</strong> these proteins induces neutralizing<br />

antibodies independently (13). So far, 23 P<br />

geno<strong>type</strong>s <strong>and</strong> 15 G geno<strong>type</strong>s (7) have been<br />

identified. Ten <strong>of</strong> the G geno<strong>type</strong>s <strong>and</strong> 11 <strong>of</strong><br />

the P geno<strong>type</strong>s have been detected in<br />

humans ( 14 ), but most rota<strong>virus</strong>-induced<br />

diarrhea in children is caused by a small<br />

number <strong>of</strong> the G geno<strong>type</strong>s, primarily G1, G2,<br />

G3, G4, <strong>and</strong> the newly emerging strain G9<br />

(15,16,17). However, dominant strains vary<br />

between <strong>and</strong> within geographic regions. Since<br />

the rota<strong>virus</strong> sero<strong>type</strong>s (geno<strong>type</strong>s) circulating<br />

in a given region have a direct influence on<br />

the predicted efficiency <strong>of</strong> a potential vaccine<br />

for the region, an examination <strong>of</strong> the G <strong>and</strong> P<br />

<strong>type</strong> distribution is necessary (18,19).<br />

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Egyptian Journal <strong>of</strong> Medical Microbiology, January 2007 Vol. 16, No. 1<br />

There are few data available about<br />

rota<strong>virus</strong> <strong>type</strong>s circulating in Egypt. In spite<br />

<strong>of</strong> the variety <strong>of</strong> methods used, many<br />

untypable strains remained, raising the<br />

possibility that additional sero<strong>type</strong>s may be<br />

prevalent in Egypt. This demonstrate the need<br />

to incorporate a wider variety <strong>of</strong> reagents <strong>and</strong><br />

detection methods in an attempt to identify<br />

the full variety <strong>of</strong> strains in circulation (3,6).<br />

Serotyping by ELISA with anti-VP7<br />

sero<strong>type</strong>-specific monoclonal antibodies <strong>and</strong><br />

genotyping by reverse transcription-PCR<br />

(RT-PCR) have been widely used for typing (<br />

20,21,22).<br />

MATERIAL AND METHODS<br />

The materials <strong>of</strong> this study comprised<br />

100 stool specimens collected from children<br />

less than 5 years old suffering from acute<br />

diarrhea, attending Alex<strong>and</strong>ria University<br />

Children's Hospital at El-Shatby during the<br />

period from January to December 2006. This<br />

study was approved by ″Alex<strong>and</strong>ria<br />

University Ethical Committee″, <strong>and</strong> an<br />

informed consent was obtained from all<br />

parents.<br />

All patients were subjected to<br />

thorough history taking <strong>and</strong> clinical<br />

examination at the time <strong>of</strong> specimen<br />

collection. An interview questionnaire was<br />

designed to obtain data regarding the age, sex,<br />

residence, duration <strong>of</strong> diarrhea <strong>and</strong> frequency<br />

<strong>of</strong> motions per day, the presence or absence<br />

<strong>of</strong> fever, vomiting <strong>and</strong> flu –like symptoms,<br />

the stool consistency, <strong>and</strong> the breast feeding.<br />

Sample collection.The stool specimens were<br />

obtained in a sterile container. About 30 mg<br />

<strong>of</strong> each stool sample were added to 175 ul<br />

lysis buffer containing RNase inhibitors<br />

supplied in the RNA extraction kit (Promega).<br />

The samples were transported the same day to<br />

the laboratory as they were stored at - 70 º C.<br />

RNA extraction: RNA was extracted from<br />

stool by the guanidinium isothiocyanate<br />

(GTC) <strong>and</strong> spin column extraction method<br />

using SV total RNA isolation system<br />

(Promega, Madison US), according to the<br />

manufacturer ' s instruction<br />

RT-PCR In the present study, we used the<br />

PCR assay <strong>and</strong> primers described by Gouvea<br />

et al (23) for the detection <strong>and</strong> typing <strong>of</strong><br />

<strong>group</strong> A rota<strong>virus</strong>. The primers specific for<br />

gene segment 9, (8, or 7), which encode for<br />

the VP7 glycoprotein, are used for the<br />

detection <strong>of</strong> rota<strong>virus</strong>. [Beg 9 – End 9] <strong>and</strong><br />

primers for G typing <strong>of</strong> rota<strong>virus</strong> are<br />

displayed in figure 1, <strong>and</strong> table 1.<br />

Reverse transcription. Reverse transcription<br />

was performed using Omniscript Reverse<br />

Transcriptase kit (Qiagen). The<br />

complementary DNA copies (cDNA) from<br />

both rota<strong>virus</strong> RNA str<strong>and</strong>s were synthesized<br />

in 20 ul solutions containing; 2 ul <strong>of</strong> 10 X<br />

enzyme buffer, 0.5 mM <strong>of</strong> each<br />

deoxynucleotide triphosphate, 5 picomoles <strong>of</strong><br />

each End 9 <strong>and</strong> Beg 9 primers, 10 ul <strong>of</strong> the<br />

RNA samples <strong>and</strong> 4 IU <strong>of</strong> omnireverse<br />

transcriptase enzyme. Before the addition <strong>of</strong><br />

the reverse transcriptase enzyme, the ds RNA<br />

<strong>of</strong> rota<strong>virus</strong>es were first denaturated by<br />

heating the mixture first at 97 º C for 5 minutes<br />

in the thermocycler (Techne). Then the tubes<br />

were transferred quickly to an ice-bath to<br />

prevent reannealing <strong>of</strong> the ds RNA, <strong>and</strong> the<br />

enzyme was added. The tubes were then<br />

transferred back to the thermocycler for<br />

incubation at 37 º C for one hour followed by<br />

94 º C for 5 minutes.<br />

PCR amplification. Initially, 1,062 bp (full<br />

length) gene segment 9, encoding the VP7<br />

glycoprotein in human <strong>group</strong> A rota<strong>virus</strong>, was<br />

amplified using primers Beg 9 in the forward<br />

direction <strong>and</strong> primer End 9 in the reverse<br />

direction (figure 2). Amplification was<br />

performed in a final volume <strong>of</strong> 50 µl <strong>of</strong> PCR<br />

mixture containing 1µM Of each primer, 10<br />

mΜ <strong>of</strong> each deoxynucleotide triphosphate<br />

(dATP, dGTP, d TTP, dCTP), 10 mΜ Tris<br />

HCL, 50 mΜ KCL, 0.1% Triton x-100, 1.5<br />

mΜ MgCl2, 2.5 units <strong>of</strong> Taq DNA<br />

polymerase (Qiagen), <strong>and</strong> 10 µl <strong>of</strong> cDNA.<br />

The amplification reaction was applied as<br />

follow: denaturation at 94 º C for 1 minute,<br />

annealing at 42<br />

º C for 2 minutes <strong>and</strong><br />

extension at 72 º C for 1 minute (for 25<br />

cycles), followed by a final 7 minutes<br />

extension at 72 º C.<br />

PCR typing. PCR typing was performed<br />

from dsDNA that was obtained from the first<br />

amplification <strong>of</strong> the entire gene 9. In this case,<br />

3ul <strong>of</strong> the dsDNA product served as the<br />

template for this second typing amplification.<br />

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Egyptian Journal <strong>of</strong> Medical Microbiology, January 2007 Vol. 16, No. 1<br />

The same reaction buffer containing all six<br />

sero<strong>type</strong> specific primers [a AT8, a BT1, a<br />

CT2, a DT4, a ET3, a FT9] <strong>and</strong> RVG9 primer<br />

was used but with reduced concentrations <strong>of</strong><br />

the primer mix 200 nM each primer. The<br />

same PCR program was used with only 15<br />

cycles followed by a final extension at 72 º C<br />

for seven minutes. The PCR products were<br />

resolved by 2% agarose gel electrophoresis<br />

<strong>and</strong> were visualized after ethidium bromide<br />

(0.5 ug / ml) staining, using an UV<br />

transilluminator <strong>and</strong> photographed by<br />

Polaroid camera..<br />

RESULTS<br />

The present study was carried out in the<br />

period from January to December 2006, on<br />

100 stool specimens obtained from children<br />

less than 5 years old, who attended the<br />

Alex<strong>and</strong>ria University Hospital at el Shatby,<br />

<strong>and</strong> were diagnosed clinically as acute<br />

gastroenteritis. The mean age distribution <strong>of</strong><br />

the patients was 9 ± 7.53 months, ranging<br />

from 1 - 35 months. Fifty six percent <strong>of</strong> the<br />

patients were males <strong>and</strong> 44% were females.<br />

<strong>Rota</strong><strong>virus</strong> detection by PCR<br />

<strong>Rota</strong><strong>virus</strong> was detected by RT PCR in 33<br />

(33%) <strong>of</strong> cases. As shown in figure 2, primers<br />

Beg9 <strong>and</strong> End9 amplified gene segment 9 <strong>of</strong><br />

rota<strong>virus</strong> yielding a PCR product <strong>of</strong> expected<br />

size (1,062 bp)<br />

<strong>Rota</strong><strong>virus</strong> G-<strong>type</strong> distribution<br />

In the present study, a total <strong>of</strong> 30 (90.9%) <strong>of</strong><br />

the 33 Egyptian rota<strong>virus</strong> positive samples<br />

were found to be G <strong>type</strong>d <strong>and</strong> the remaining 3<br />

(9.1%) were untypable. As shown in table II,<br />

out <strong>of</strong> the 33 rota<strong>virus</strong> positive cases, G4 was<br />

the main geno<strong>type</strong> detected being responsible<br />

for 12 cases (36.4%) <strong>of</strong> rota<strong>virus</strong> infections.<br />

G1 was the second most common cause <strong>and</strong><br />

was responsible for 9 cases (27.3%) <strong>of</strong> the<br />

infections. Our study identified G9 in 6<br />

(18.1%) <strong>of</strong> the positive cases. Mixed G <strong>type</strong>s<br />

reflecting dual infections G1+G9 were<br />

detected in 3 (3%) <strong>of</strong> the samples. G2, G3,<br />

<strong>and</strong> G8 were not detected among our cases.<br />

As shown in figure 2, the six sets <strong>of</strong> primers<br />

used for typing yielded b<strong>and</strong>s <strong>of</strong> distinct<br />

lengths; 749, 583 <strong>and</strong> 306 bp corresponding to<br />

sero<strong>type</strong> G1, G4 <strong>and</strong> G9 respectively.<br />

By RT PCR assay rota<strong>virus</strong> was detected in<br />

children ranging in age from 1 – 23 months,<br />

with the mean age value 9 ± 5.12 months.<br />

There was no statistical significant association<br />

between sex <strong>and</strong> rota<strong>virus</strong> infection, <strong>and</strong> no<br />

statistically significant association with<br />

residence (P = 0.322). In the present study, 27<br />

(81.1%) <strong>of</strong> the rota<strong>virus</strong> positive cases did not<br />

receive any breast milk during there life,<br />

while only 6 (18.2%) were breast fed, which<br />

was found to be statistically significant, P=<br />

0.000. As shown in table III, although<br />

rota<strong>virus</strong> was detected in every season all over<br />

the 12 months <strong>of</strong> the year, a strong significant<br />

association between the seasonal trend <strong>and</strong> the<br />

incidence rate <strong>of</strong> rota<strong>virus</strong> infection (P =<br />

0.000) was found as shown in table III. The<br />

highest ratio <strong>of</strong> rota<strong>virus</strong> infections was<br />

represented in winter (60%), followed by<br />

autumn where 50% <strong>of</strong> the diarrheal cases were<br />

due to rota<strong>virus</strong> infection. <strong>Rota</strong><strong>virus</strong> infections<br />

in summer represented 33%, <strong>and</strong> the lowest<br />

incidence <strong>of</strong> rota<strong>virus</strong> diarrhea was in spring<br />

(10.9%).<br />

Table I: Primers for detection <strong>and</strong> typing <strong>of</strong> <strong>Rota</strong><strong>virus</strong>.<br />

Primer Sequence (5′-3′) Position Region<br />

Beg 9 b GGTTTTAAAAGAGAGAATCGTTTCCTGG 1-28<br />

End 9 b GGTCACATCATACAATTCTAATCTAAG 1062-1036<br />

RVG9 GGTCACATCATACAATTCT 1062_1044<br />

aAT8 GTCACACCATTTGTAAATTCG 178_198 A<br />

aBT1 CAAGTACTCAAATCAATGATGG 314_335 B<br />

aCT2 CAATGATATTAACACATTTTCTGTG 411_435 C<br />

aDT4 CGTTTCTGGTGAGGAGTTG 480_498 D<br />

aET3 CGTTTGAAGAAGTTGCAACAG 689_709 E<br />

aFT9 CTAGATGTAACTACAACTAC 757_776 F<br />

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Egyptian Journal <strong>of</strong> Medical Microbiology, January 2007 Vol. 16, No. 1<br />

Fig. 1. <strong>Rota</strong><strong>virus</strong> gene 9 ( or gene 8) which encode the VP7 glycoprotein. Shown are locations <strong>of</strong><br />

the variable regions <strong>and</strong> PCR primers <strong>and</strong> excepted length <strong>of</strong> the amplified segment (23.) .<br />

Table II: Distribution <strong>of</strong> <strong>Rota</strong><strong>virus</strong> geno<strong>type</strong>s within the <strong>Rota</strong><strong>virus</strong> positive samples.<br />

Positive cases<br />

Geno<strong>type</strong> No. %<br />

G4<br />

G1<br />

G9<br />

Mixed<br />

Untypable<br />

12<br />

9<br />

6<br />

3<br />

3<br />

36.4<br />

27.3<br />

18.1<br />

9.1<br />

9.1<br />

Total 33 100<br />

Table III: Relation between season <strong>and</strong> <strong>Rota</strong><strong>virus</strong> infection.<br />

<strong>Rota</strong><strong>virus</strong> Winter<br />

(Dec., Jan.,<br />

Feb.,)<br />

Spring<br />

(Mar., Apr.,<br />

May)<br />

Summer<br />

(Jun., Jul.,<br />

Aug.)<br />

Autumn<br />

(Sep., Oct.,<br />

Nov.)<br />

No. % No. % No. % No. %<br />

Total<br />

Positive 18 60 5 10.9 4 33.3 6 50 33<br />

cases<br />

Negative 12 40 41 89.1 8 66.7 6 50 67<br />

cases<br />

Total 30 46 12 12 100<br />

P 0.001<br />

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Egyptian Journal <strong>of</strong> Medical Microbiology, January 2007 Vol. 16, No. 1<br />

Fig. 2: Agarose gel electrophoresis <strong>of</strong> PCR products. Lane 1;100 bp marker, Lane 2,4,6<br />

showing rota<strong>virus</strong> positive cases, Lane 8 rota<strong>virus</strong> negative cases, Lane 3, 5 <strong>and</strong> 7<br />

showing G4, G1 <strong>and</strong> G9 respectively.<br />

DISCUSSION<br />

Diarrhoeal disease remains one <strong>of</strong> the most<br />

important public health challenges<br />

worldwide, mainly in developing countries<br />

where mortality is still high. <strong>Rota</strong><strong>virus</strong>es are<br />

the leading cause <strong>of</strong> gastroenteritis in young<br />

children. They are responsible for a so-called<br />

¨ universal infection ¨ in young children, as<br />

virtually every child will be infected by the<br />

age <strong>of</strong> 5 years (24). Therefore, the huge<br />

burden <strong>of</strong> rota<strong>virus</strong> diarrhea has made<br />

rota<strong>virus</strong> a prime target for global estimation<br />

<strong>of</strong> the prevalence <strong>and</strong> <strong>type</strong> distribution <strong>of</strong> the<br />

<strong>virus</strong> strains all over the world (7,24,25).<br />

In a study done in Egypt by Wierzba et al in<br />

2006 to identify enteropathogens for vaccine<br />

development, rota<strong>virus</strong> was <strong>of</strong> principle<br />

concern, followed by ETEC, Shigella, <strong>and</strong><br />

Campylobacter (5). Therefore, the HRV<br />

sero<strong>type</strong>s circulating in the Egyptian<br />

community should be determined. The<br />

present study was an attempt to participate in<br />

the research efforts made in Egypt for the<br />

estimation <strong>of</strong> the frequency <strong>and</strong> <strong>type</strong><br />

distribution <strong>of</strong> rota<strong>virus</strong>es, using the<br />

molecular technique RT-PCR.<br />

Typically large amounts <strong>of</strong> <strong>virus</strong> particles are<br />

present in faeces during the peak <strong>of</strong> infection,<br />

thus facilitating the diagnosis <strong>of</strong> the viral<br />

infection. However as few as 10 <strong>virus</strong><br />

particles are sufficient for the infection <strong>of</strong><br />

small children. To minimize the risk <strong>of</strong><br />

<strong>Rota</strong><strong>virus</strong> infection, an increase in sensitivity<br />

<strong>of</strong> the rota<strong>virus</strong> detection assay is therefore<br />

desirable. Conventional ELISA detection <strong>of</strong><br />

rota<strong>virus</strong> antigen VP6, a well-proven specific<br />

antigen, for all known human <strong>Rota</strong><strong>virus</strong> goes<br />

along with typical limits <strong>of</strong> detection <strong>of</strong> ≈ 1x<br />

10 5 particles/ml. Several approaches to the<br />

establishment <strong>of</strong> RT-PCR assay <strong>of</strong> the viral<br />

RNA have been described, <strong>and</strong> the limit <strong>of</strong><br />

detection was found to be ≈ 100 particles/ml<br />

(22).<br />

RT-PCR has shown greater sensitivity than<br />

ELISA for determination <strong>of</strong> human rota<strong>virus</strong><br />

G-<strong>type</strong>s 1 to 4 <strong>and</strong> 9 in previous studies<br />

(26,27,28). It appears that degradation <strong>of</strong> VP7<br />

antigen by proteolytic enzymes during<br />

freezing <strong>and</strong> thawing was a major factor in<br />

the loss <strong>of</strong> typing ability by ELISA.<br />

In the present study, <strong>Rota</strong><strong>virus</strong>es were<br />

identified by RT-PCR assays in 33 (33%) <strong>of</strong><br />

the 100 stool specimens collected from<br />

children with acute gastroenteritis, who<br />

attended the outpatient clinic in EL-Shatby<br />

Hospital in Alex<strong>and</strong>ria, over a 12 months<br />

period from January to December 2006. Our<br />

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Egyptian Journal <strong>of</strong> Medical Microbiology, January 2007 Vol. 16, No. 1<br />

results were similar to findings from an active<br />

surveillance studies conducted in Egypt over<br />

the past decade. A five years study on the<br />

bacterial <strong>and</strong> viral etiology <strong>of</strong> infantile<br />

diarrhea in Alex<strong>and</strong>ria revealed that rota<strong>virus</strong><br />

was responsible for 15.8% <strong>of</strong> diarrheal<br />

illnesses in infants <strong>and</strong> children attended the<br />

outpatient clinic in EL-Shatby Children<br />

Hospital, during the period <strong>of</strong> 1982-1987<br />

(29). Shukry et al (1989) (30), Radwan et al<br />

(1997)(6) <strong>and</strong> El-Mougi et al (1998)(31),<br />

detected the antigen <strong>of</strong> rota<strong>virus</strong> in 33%,<br />

35.6% <strong>and</strong> 40%, <strong>of</strong> stool samples obtained<br />

from children with acute diarrhea<br />

respectively, using the ELISA technique.<br />

More recently , <strong>Rota</strong><strong>virus</strong> was detected in<br />

17% <strong>of</strong> diarrheal cases within 356 children<br />

aged ≤ 6 months, in children living in the<br />

Tamiya District <strong>of</strong> the Fayoum governorate<br />

located in Southern Egypt, between August<br />

<strong>and</strong> September 2003(32). Our results show<br />

remarkable agreement with the results <strong>of</strong><br />

other investigators in Venezuela, Spain <strong>and</strong><br />

Dhaka (33,34,35). However,in other settings<br />

(36,37), rota<strong>virus</strong> was detected with a higher<br />

percentage rates than found in our study<br />

which confirm the huge disease burden over<br />

the world, <strong>and</strong> the variability <strong>of</strong> its prevalence<br />

from a region to another.<br />

As mention before, <strong>Rota</strong><strong>virus</strong> diarrhea is<br />

widely distributed allover the world. The<br />

disease usually presents with similar<br />

epidemiological <strong>and</strong> clinical pattern within<br />

developed <strong>and</strong> developing countries. The age<br />

<strong>of</strong> the children with rota<strong>virus</strong> diarrhea<br />

detected in this study ranged between one <strong>and</strong><br />

twenty three months. The age <strong>group</strong> that<br />

experienced the highest incidence <strong>of</strong> rota<strong>virus</strong><br />

diarrhea ranged from six to twelve months,<br />

with the median age 9 months. These findings<br />

were in agreement with the previous studies<br />

done in Egypt (3, 7, 38). In addition, other<br />

investigators in different countries (39, 40)<br />

recorded that the highest rate <strong>of</strong> rota<strong>virus</strong><br />

isolation was found among children in their<br />

first year <strong>of</strong> life. These findings confirm the<br />

role <strong>of</strong> the immune system in prevention <strong>of</strong><br />

the disease, which helps decline <strong>of</strong> rota<strong>virus</strong><br />

diarrhea with age.<br />

In the present study, rota<strong>virus</strong> presented with<br />

a marked seasonal peak during the cold<br />

months <strong>of</strong> the year (December – February),<br />

similar to those observed in Engl<strong>and</strong> (41),<br />

Finl<strong>and</strong> (42), Spain (34) <strong>and</strong> Tunisia (39).<br />

Our results were similar to a previous cohort<br />

study conducted in Bilbeis (Egypt), in which<br />

the rate <strong>of</strong> rota<strong>virus</strong> isolation was<br />

predominant in the colder months (November<br />

– April). However, the seasonal peak <strong>of</strong><br />

rota<strong>virus</strong> infection in Egypt tends to shift over<br />

consecutive years (43).<br />

<strong>Rota</strong><strong>virus</strong> strain surveillance has proven to<br />

continue as a world wide effort, in order to<br />

determine the prevalent strains in each<br />

country <strong>and</strong> to apply a rota<strong>virus</strong> vaccination<br />

program that provide a sero<strong>type</strong> specific<br />

immunity to every child. Previous<br />

epidemiological studies conducted in many<br />

countries from different continents such as<br />

Tunisia (36), Nigeria (44) <strong>and</strong> Spain (34)<br />

reported that G1 rota<strong>virus</strong>es predominated as<br />

a cause <strong>of</strong> severe rota<strong>virus</strong> diarrhea, with G2,<br />

G3, <strong>and</strong> G4 strains responsible for the<br />

majority <strong>of</strong> the residual diarrhea. However,<br />

the results presented here reveal<br />

predominance <strong>of</strong> G4 (36.4%) as the most<br />

common cause <strong>of</strong> diarrhea followed by G1<br />

(27.3%) geno<strong>type</strong>.<br />

Reports <strong>of</strong> the distribution <strong>and</strong> epidemiology<br />

<strong>of</strong> human rota<strong>virus</strong> G <strong>type</strong>s in Egypt are<br />

limited in number. In a study done by<br />

Radwan et al (7), enzyme immunoassay<br />

(EIA) has been used to detect, for the first<br />

time in Egypt, the relative frequency <strong>and</strong><br />

temporal distribution <strong>of</strong> HRV G sero<strong>type</strong>s 1<br />

to 4 among the community <strong>of</strong> neonates <strong>and</strong><br />

infants with <strong>and</strong> without acute diarrhea.<br />

Sero<strong>type</strong>s G1 <strong>and</strong> G4 predominated in all age<br />

<strong>group</strong>s. Mixed (G1 plus G4) <strong>and</strong> non<strong>type</strong>able<br />

specimens represented 16.1 <strong>and</strong> 38.7% <strong>of</strong> the<br />

total number sero<strong>type</strong>d, respectively.<br />

Recently, a study in Cairo, Egypt was done on<br />

raw sewage samples taken from three sewage<br />

treatment plants based on G typing. The<br />

predominated <strong>type</strong> for rota<strong>virus</strong> identified in<br />

that study was found to be G1 (69.9%),<br />

followed by G3 (13.0%), G4 (8.7%), <strong>and</strong> G9<br />

(8.7%). The results presented in this study<br />

revealed the occurrence <strong>of</strong> G9 strains in<br />

clinical specimens in Egypt for the first time,<br />

although this does not necessarily imply<br />

emergence <strong>of</strong> new strains, since this sero<strong>type</strong><br />

was not investigated in previous studies (45).<br />

The absence <strong>of</strong> G2 <strong>and</strong> G3 geno<strong>type</strong>s in our<br />

study might reflect the absence <strong>of</strong> these<br />

strains in Egypt as have been published by<br />

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Egyptian Journal <strong>of</strong> Medical Microbiology, January 2007 Vol. 16, No. 1<br />

Villena et al 2003 (45), where no G2<br />

rota<strong>virus</strong> geno<strong>type</strong>s were detected within the<br />

sewage samples. A more reasonable<br />

explanation is the low level circulation <strong>of</strong><br />

such strains in our community, which has<br />

been reported by Radwan et al 1997 (7),<br />

where G2 was represented with 3.2% <strong>and</strong> G3<br />

6.5% <strong>of</strong> rota<strong>virus</strong> positive samples. These<br />

findings confirm the great diversity within<br />

rota<strong>virus</strong> strains circulating in humans which<br />

make the prevalence <strong>of</strong> rota<strong>virus</strong> geno<strong>type</strong>s<br />

varies according to location <strong>and</strong> time.<br />

In the present study, rota<strong>virus</strong> geno<strong>type</strong> G9<br />

was responsible for 18.1% <strong>of</strong> the rota<strong>virus</strong><br />

infections. This percentage confirm the need<br />

for continued surveillance to identify the<br />

persistence <strong>of</strong> G9 strain in our community, as<br />

the emergence <strong>of</strong> such pathogen necessitates<br />

the urgent consideration <strong>of</strong> G9 moiety in<br />

rota<strong>virus</strong> vaccines considered for use in<br />

Egypt. Since the introduction <strong>of</strong> RT–PCR for<br />

rota<strong>virus</strong> genotyping, many epidemiological<br />

surveillance studies have been conducted, <strong>and</strong><br />

new data has been collected to underst<strong>and</strong> this<br />

complex epidemiology(3,37,44). However,<br />

there is considerable number <strong>of</strong> strains all<br />

over the world that remain untypable by PCR<br />

using the current primers. In the present<br />

study, 9.1% <strong>of</strong> the rota<strong>virus</strong> positive samples<br />

could not be G geno<strong>type</strong>d. However, the<br />

percentage <strong>of</strong> the untypable rota<strong>virus</strong> stains<br />

detected in sewage in Cairo (30%) was higher<br />

than that found in the current study. In<br />

addition, 38.7% <strong>of</strong> rota<strong>virus</strong> positive<br />

specimens collected from infants in Cairo by<br />

Radwan et al (6), were untypable. In other<br />

settings all over the world, the proportion <strong>of</strong><br />

rota<strong>virus</strong> strains that remain untypable exists<br />

with different ratios (37,46,47). It was<br />

suggested that failure <strong>of</strong> the currently used<br />

RT-PCR assay to characterize all rota<strong>virus</strong><br />

geno<strong>type</strong>s may be due to either failure <strong>of</strong> the<br />

laboratory to use the full range <strong>of</strong> primers<br />

required to detect uncommon strains, or the<br />

strains are novel enough that they must be<br />

sequenced so that new <strong>and</strong> special primers<br />

can be applied (47).<br />

In recent years, it was reported that<br />

accumulation <strong>of</strong> point mutation in VP7 genes<br />

was the main cause <strong>of</strong> failure <strong>of</strong> rota<strong>virus</strong> G<br />

typing. It was suggested that the use <strong>of</strong><br />

modified or degenerated primers or changing<br />

the primer binding site allow strains that were<br />

previously untypable to be completely <strong>type</strong>d<br />

through avoiding the mismatch between the<br />

primers used <strong>and</strong> VP7 genes (48-49).<br />

Moreover, following new typing<br />

methodologies like microarray procedures<br />

could be successful in <strong>characterization</strong> <strong>of</strong> all<br />

the existing rota<strong>virus</strong> strains (50).<br />

Finally, our results underline the importance<br />

<strong>of</strong> continued detailed epidemiological <strong>and</strong><br />

virological studies to identify rota<strong>virus</strong><br />

sero<strong>type</strong>s responsible for sever gastroenteritis,<br />

including <strong>characterization</strong> <strong>of</strong> less common<br />

<strong>and</strong> or unusual strains. Knowledge <strong>of</strong><br />

rota<strong>virus</strong> prevalence <strong>and</strong> strains circulating in<br />

our community will help in assessing the<br />

suitability <strong>of</strong> c<strong>and</strong>idate vaccines, in order to<br />

protect against all currently circulating<br />

rota<strong>virus</strong> strains.<br />

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A rota<strong>virus</strong>es by oligonucleotide<br />

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132


لإبا<br />

Egyptian Journal <strong>of</strong> Medical Microbiology, January 2007 Vol. 16, No. 1<br />

الكشف عن فيروس الروتا المجموعه الاولي وتوصيف نوع G<br />

في حالات الاطفال المصريين المصابين بالاسهال<br />

ُ<br />

يعد فيروس روتا من أهم المسببا ت للنزلا ت أ لمعوية أ لحا دة فى ألأطفا ل على مستوى العالم.‏<br />

ويعتبر أ لتطعيم ضد هذا ا لفيروس أ لطريقة الفعالة للسيطرة عليه والحد من إنتشاره الواسع.‏ لهذا<br />

السبب آان المسح الشا مل لأنواع فيروس روتا من أهم الجهود المبذولة عالميًا لتحديد مدى إمكانية<br />

تطبيق النظام الخاص بالتطعيم ضد هذا ا لفيروس فى آل بلد<br />

بالمناعة الخاصة لكل نوع من أنواع ا لفيروس على حدى<br />

، حيث<br />

أن هذا أ لتطعيم يمد الطفل<br />

ُ<br />

‏.وقد أجريَ‏ هذا البحث على ١٠٠ من<br />

ألأطفا ل المصابين بالإسهال الحاد ، و المترددين على مستشفى الشاطبى الجامعى<br />

للأ طفال بمدينة<br />

الإسكندرية خلا ل مدة قدرها ١٢ شهرًا إعتبا ‏ًرا من يناير إلى ديسمبر . ٢٠٠٦ حيث قد تم فحص<br />

عينات البراز المأخوذة من هؤلاء أ لأطفا ل عن طريق التفاعل البوليميريزى المتسلسل بإستخدام<br />

إنزيم الإنتساخ الإنعكاسى للكشف عن الحمض النووي الخاص بفيروس روتا.‏ وقد وجد<br />

من العينات آانت إيجابية لهذا الفيروس ‏.وقد تم الكشف عن الجين الخاص بإظهار بروتين<br />

أن ٪ ٣٣<br />

VP7<br />

لتحديد أنواع فيروس روتا ضمن العينات ألإجابية ، وذلك عن طريق إستخدام التفاعل البوليميريزى<br />

. المتسلسل<br />

ووجد أن G4 هو النوع السائد للفيروس ضمن هذا البحث حيث يمثل نسبة تصل إلى<br />

. ٪ ٣٦٫٤<br />

يليه G1 الذي تصل نسبته<br />

إلى ٪ ٢٧٫٣ .<br />

و لم يتم الكشف عن<br />

أو G3 ٫ G2 من أي<br />

. G8<br />

وقد تم الكشف عن<br />

مستوى العالم<br />

G9 بنسبة ٪ ١٨٫١<br />

.<br />

، وهو من أنواع فيروس روتا المنتشرة حديثا على<br />

هذا بالإصافة إلى توصيف ٪ ٩٫١ من العينات ألإجابية بالإصابة المختلطة والتي<br />

تشمل نوعين من فيروس روتا هما<br />

G1+G9 معا.‏ أما النسبة المتبقية من العينات ألإجابية وهي<br />

٪ ٩٫١ فلم يمكن تحديد نوع الفيروس بها.‏ وقد وجد في هذا البحث أن أآثر الإصابات بفيروس<br />

روتا آانت في الشهور الباردة من العام ‏(ديسمبر إلى فبراير)،‏<br />

وأن معظم ألأطفا ل المصابين بلغ<br />

عمرهم من ٦<br />

إلى<br />

١٢ شهرًا . ضافة إلى ذلك ، فقد وجد أن حالات الإسهال الناتجة عن الإصابة<br />

بفيروس روتا مصطحبة بالقئ وإلرتفاع درجة الحرارة و البراز السائل.‏ هذ ه النتائج توضح أهمية<br />

استمرارية الدراسة المستفيضة من الناحية الوبائية و الفيرولوجية للتعرف على الأنواع<br />

السيرولوجية لفيروس روتا<br />

133

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