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Hiroyuki Shimizu - One of the best experts on this subject based on the ideXlab platform.
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in vitro recombinAtion of polioVirus with CoxsAckie A Virus serotype 18 At downstreAm nonstructurAl protein coding regions
Microbiology Indonesia, 2007Co-Authors: Andi Utama, Hiroyuki ShimizuAbstract:MAny genetic recombinAtions of polioVirus (PV) Are to be found in excreted Viruses, including Viruses from vAccineAssociAted pArAlytic poliomyelitis (VAPP) As well As heAlthy vAccine recipients. Most recombinAtions were Among different serotypes of PVs. However, recombinAtion cAn Also occur between PV And other enteroViruses. It wAs predicted thAt the hot spot of the recombinAtion is in the nonstructurAl protein-coding regions, but the exAct site is mAy be different in eAch recombinAtion. We hAve demonstrAted thAt the construct recombinAnt Virus between PV And CoxsAckie A Virus serotype 11 (CAV-11), or with CAV-17 with recombinAtion site in the N-term of 2C-coding region, were viAble. However, the recombinAtion of PV with CAV-18 At this site wAs not viAble. To determine if the recombinAtion between PV And CAV-18 cAn occur At other sites, eight chimeric cDNAs (between PV [isolAte PJ156] And CAV-18 [PJ156/CAV-18]), All hAving different recombinAtion sites (2C-8, 2C-133, 2C-235, 2C-268, 2C-287, 2C-327, 3A-67, 3C-60) were constructed using the long-PCR method. The cDNA wAs then trAnscribed in vitro And then trAnsfected into the HEp-2 cell-line. As expected, the recombinAnt Virus PJ156/CAV-18, with recombinAtion sites 2C-327, 3A-67, And 3C-60 were viAble, while All the others were not. The recombinAnt Viruses displAyed A slightly smAller plAque size, but emonstrAted quite similAr growth As compAred to the pArentAl control PJ156. Since AnAlysis for similArity hAs shown thAt the homology between PV And CAV-18 wAs high Around these regions, these results supported the copy-choice mechAnism of enteroVirus recombinAtion.
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A sAbin 3 derived polioVirus recombinAnt contAined A sequence homologous with indigenous humAn enteroVirus species c in the virAl polymerAse coding region
Journal of Virology, 2005Co-Authors: Minetaro Arita, Hiromu Yoshida, Tatsuo Miyamura, Tetsuo Yoneyama, Hiroyuki ShimizuAbstract:OutbreAks of poliomyelitis cAused by circulAting vAccine-derived polioViruses (cVDPVs) hAve been reported in AreAs where indigenous wild polioViruses (PVs) were eliminAted by vAccinAtion. Most of these cVDPVs contAined unidentified sequences in the nonstructurAl protein coding region which were considered to be derived from humAn enteroVirus species C (HEV-C) by recombinAtion. In this study, we report isolAtion of A SAbin 3-derived PV recombinAnt (CAmbodiA-02) from An Acute flAccid pArAlysis (AFP) cAse in CAmbodiA in 2002. We Attempted to identify the putAtive recombinAtion counterpArt of CAmbodiA-02 by sequence AnAlysis of nonpolio enteroVirus isolAtes from AFP cAses in CAmbodiA from 1999 to 2003. BAsed on the previously estimAted evolution rAtes of PVs, the recombinAtion event resulting in CAmbodiA-02 wAs estimAted to hAve occurred within 6 months After the AdministrAtion of orAl PV vAccine (99.3% nucleotide identity in VP1 region). The 2BC And the 3Dpol coding regions of CAmbodiA-02 were grouped into the genetic cluster of indigenous CoxsAckie A Virus type 17 (CAV17) (the highest [87.1%] nucleotide identity) And the cluster of indigenous CAV13-CAV18 (the highest [94.9%] nucleotide identity) by the phylogenic AnAlysis of the HEV-C isolAtes in 2002, respectively. CAV13-CAV18 And CAV17 were the dominAnt HEV-C serotypes in 2002 but not in 2001 And in 2003. We found A putAtive recombinAtion between CAV13-CAV18 And CAV17 in the 3CDpro coding region of A CAV17 isolAte. These results suggested thAt A pArt of the 3Dpol coding region of PV3(CAmbodiA-02) wAs derived from A HEV-C strAin geneticAlly relAted to indigenous CAV13-CAV18 strAins in 2002 in CAmbodiA.
Minetaro Arita - One of the best experts on this subject based on the ideXlab platform.
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A sAbin 3 derived polioVirus recombinAnt contAined A sequence homologous with indigenous humAn enteroVirus species c in the virAl polymerAse coding region
Journal of Virology, 2005Co-Authors: Minetaro Arita, Hiromu Yoshida, Tatsuo Miyamura, Tetsuo Yoneyama, Hiroyuki ShimizuAbstract:OutbreAks of poliomyelitis cAused by circulAting vAccine-derived polioViruses (cVDPVs) hAve been reported in AreAs where indigenous wild polioViruses (PVs) were eliminAted by vAccinAtion. Most of these cVDPVs contAined unidentified sequences in the nonstructurAl protein coding region which were considered to be derived from humAn enteroVirus species C (HEV-C) by recombinAtion. In this study, we report isolAtion of A SAbin 3-derived PV recombinAnt (CAmbodiA-02) from An Acute flAccid pArAlysis (AFP) cAse in CAmbodiA in 2002. We Attempted to identify the putAtive recombinAtion counterpArt of CAmbodiA-02 by sequence AnAlysis of nonpolio enteroVirus isolAtes from AFP cAses in CAmbodiA from 1999 to 2003. BAsed on the previously estimAted evolution rAtes of PVs, the recombinAtion event resulting in CAmbodiA-02 wAs estimAted to hAve occurred within 6 months After the AdministrAtion of orAl PV vAccine (99.3% nucleotide identity in VP1 region). The 2BC And the 3Dpol coding regions of CAmbodiA-02 were grouped into the genetic cluster of indigenous CoxsAckie A Virus type 17 (CAV17) (the highest [87.1%] nucleotide identity) And the cluster of indigenous CAV13-CAV18 (the highest [94.9%] nucleotide identity) by the phylogenic AnAlysis of the HEV-C isolAtes in 2002, respectively. CAV13-CAV18 And CAV17 were the dominAnt HEV-C serotypes in 2002 but not in 2001 And in 2003. We found A putAtive recombinAtion between CAV13-CAV18 And CAV17 in the 3CDpro coding region of A CAV17 isolAte. These results suggested thAt A pArt of the 3Dpol coding region of PV3(CAmbodiA-02) wAs derived from A HEV-C strAin geneticAlly relAted to indigenous CAV13-CAV18 strAins in 2002 in CAmbodiA.
Mark A Pallansch - One of the best experts on this subject based on the ideXlab platform.
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complete genomic sequencing shows thAt polioViruses And members of humAn enteroVirus species c Are closely relAted in the noncApsid coding region
Journal of Virology, 2003Co-Authors: Betty A. Brown, Steven M Oberste, Kaija Maher, Mark A PallanschAbstract:The 65 humAn enteroVirus serotypes Are currently clAssified into five species: PolioVirus (3 serotypes), HumAn enteroVirus A (HEV-A) (12 serotypes), HEV-B (37 serotypes), HEV-C (11 serotypes), And HEV-D (2 serotypes). CoxsAckie A Virus (CAV) serotypes 1, 11, 13, 15, 17, 18, 19, 20, 21, 22, And 24 constitute HEV-C. We hAve determined the complete genome sequences for the remAining nine HEV-C serotypes And compAred them with the complete sequences of CAV21, CAV24, And the polioViruses. The Viruses were most diverse in the cApsid region (4 to 36% Amino Acid difference). A high degree of cApsid sequence conservAtion (96% Amino Acid identity) suggests thAt CAV15 And CAV18 should be clAssified As strAins of CAV11 And CAV13, respectively. In the 3CD region, CAV1, CAV19, And CAV22 differed from one Another by only 1.2 to 1.4% And CAV11, CAV13, CAV17, CAV20, CAV21, CAV24, And the polioViruses differed from one Another by only 1.2 to 3.6%. The two groups, however, differed from one Another by 14.6 to 16.2%. The polioViruses As A group were monophyletic only in the cApsid region. Only one group of serotypes (CAV1, CAV19, And CAV22) wAs consistently monophyletic in multiple genome regions. Incongruities Among phylogenetic trees bAsed on different genome regions strongly suggest thAt recombinAtion hAs occurred between the polioViruses, CAV11, CAV13, CAV17, And CAV20. The close relAtionship Among the polioViruses And CAV11, CAV13, CAV17, CAV20, CAV21, And CAV24 And the uniqueness of CAV1, CAV19, And CAV22 suggest thAt revisions should be mAde to the clAssificAtion of these Viruses.
Marieline Joffret - One of the best experts on this subject based on the ideXlab platform.
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common And diverse feAtures of cocirculAting type 2 And 3 recombinAnt vAccine derived polioViruses isolAted from pAtients with poliomyelitis And heAlthy children
The Journal of Infectious Diseases, 2012Co-Authors: Sophie Jegouic, Jean Balanant, Marieline Joffret, Mael Bessaud, Coralie Tran, Valerie CaroAbstract:BAckground. Five cAses of poliomyelitis due to type 2 or 3 recombinAnt vAccine-derived polioViruses (VDPVs) were reported in the ToliArA province of MAdAgAscAr in 2005. Methods. We sequenced the genome of the VDPVs isolAted from the pAtients And from 12 heAlthy children And chArActerized phenotypic Aspects, including pAthogenicity, in mice trAnsgenic for the polioVirus receptor. Results. We identified 6 highly complex mosAic recombinAnt lineAges composed of sequences derived from different vAccine polioViruses And other species C humAn enteroViruses (HEV-Cs). Most hAd some recombinAnt genome feAtures in common And contAined nucleotide sequences closely relAted to certAin cocirculAting CoxsAckie A Virus isolAtes. However, they differed in terms of their recombinAnt chArActeristics or nucleotide substitutions And phenotypic feAtures. All VDPVs were neurovirulent in mice. Conclusions. This study confirms the genetic relAtionship between type 2 And 3 VDPVs, indicAting thAt both types cAn be involved in A single outbreAk of diseAse. Our results highlight the vArious wAys in which A vAccinederived polioVirus mAy become pAthogenic in complex virAl ecosystems, through frequent recombinAtion events And mutAtions. Intertypic recombinAtion between cocirculAting HEV-Cs (including polioViruses) AppeArs to be A common mechAnism of genetic plAsticity underlying trAnsverse genetic vAriAbility.
E. Cunningham - One of the best experts on this subject based on the ideXlab platform.
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A europeAn multicentre evAluAtion of detection And typing methods for humAn enteroViruses And pArechoViruses using rnA trAnscripts
Journal of Medical Virology, 2020Co-Authors: A. Hayes, D. Nguyen, M. Andersson, J. Bailly, S. Beard, K.s.m. Benschop, N. Berginc, S. Blomqvist, Andres Anton, E. CunninghamAbstract:PolymerAse chAin reAction (PCR) detection hAs become the gold stAndArd for diAgnosis And typing of enteroVirus (EV) And humAn pArechoVirus (HPeV) infections. Its effectiveness depends criticAlly on using the AppropriAte sAmple types And high AssAy sensitivity As virAl loAds in cerebrospinAl fluid sAmples from meningitis And sepsis clinicAl presentAtion cAn be extremely low. This study evAluAted the sensitivity And specificity of currently used commerciAl And in-house diAgnostic And typing AssAys. AccurAtely quAntified RNA trAnscript controls were distributed to 27 diAgnostic And 12 reference lAborAtories in 17 EuropeAn countries for blinded testing. TrAnscripts represented the four humAn EV species (EV-A71, echoVirus 30, CoxsAckie A Virus 21, And EV-D68), HPeV3, And specificity controls. Reported results from 48 in-house And 15 commerciAl AssAys showed 98% detection frequencies of high copy (1000 RNA copies/5 µL) trAnscripts. In-house AssAys showed significAntly greAter detection frequencies of the low copy (10 copies/5 µL) EV And HPeV trAnscripts (81% And 86%, respectively) compAred with commerciAl AssAys (56%, 50%; P = 7 × 10−5). EV-specific PCRs showed low cross-reActivity with humAn rhinoVirus C (3 of 42 tests) And infrequent positivity in the negAtive control (2 of 63 tests). Most or All high copy EV And HPeV controls were successfully typed (88%, 100%) by reference lAborAtories, but showed reduced effectiveness for low copy controls (41%, 67%). StAbilized RNA trAnscripts provide An effective, logisticAlly simple And inexpensive reAgent for evAluAtion of diAgnostic AssAy performAnce. The study provides reAssurAnce of the performAnce of the mAny in-house AssAy formAts used Across Europe. However, it identified often substAntiAlly reduced sensitivities of commerciAl AssAys often used As point-of-cAre tests. (Less)
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A EuropeAn multi-centre evAluAtion of detection And typing methods for humAn enteroViruses And pArechoViruses using RNA trAnscripts
'Wiley', 2019Co-Authors: A. Hayes, D. Nguyen, M. Andersson, A. Antó, J. Bailly, S. Beard, K.s.m. Benschop, N. Berginc, S. Blomqvist, E. CunninghamAbstract:PCR detection hAs become the gold stAndArd for diAgnosis And typing of enteroVirus (EVs) And humAn pArechoVirus (HPeV) infections. Its effectiveness depends criticAlly on using AppropriAte sAmple types And high AssAy sensitivity since virAl loAds in cerebrospinAl fluid sAmples from meningitis And sepsis clinicAl presentAtion cAn be extremely low. This study evAluAted the sensitivity And specificity of currently used commerciAl And in-house diAgnostic And typing AssAys. AccurAtely quAntified RNA trAnscript controls were distributed to 27 diAgnostic And 12 reference lAborAtories in 17 EuropeAn countries for blinded testing. TrAnscripts represented the 4 humAn EV species (EV-A71, echoVirus 30, CoxsAckie A Virus 21, EV-D68), HPeV-3 And specificity controls. Reported results from 48 in-house And 15 commerciAl AssAys showed 98% detection frequencies of high copy (1000 RNA copies/5\ub5l) trAnscripts. In-house AssAys showed significAntly greAter detection frequencies of the low copy (10 copies/5\ub5l) EV And HPeV trAnscripts (81%, 86% respectively) compAred to commerciAl AssAys (56%, 50%; p = 7x10-5 ). EV-specific PCRs showed low cross-reActivity with humAn rhinoVirus C (3/42 tests) And infrequent positivity in the negAtive control (2/63 tests). Most or All high copy EV And HPeV controls were successfully typed (88%, 100%) by reference lAborAtories, but showed reduced effectiveness for low copy controls (41%, 67%). StAbilised RNA trAnscripts provide An effective, logisticAlly simple And inexpensive reAgent for evAluAtion of diAgnostic AssAy performAnce. The study provides reAssurAnce of the performAnce of the mAny in-house AssAy formAts used Across Europe. However, it identified often substAntiAlly reduced sensitivities of commerciAl AssAys often used As point-of-cAre tests
