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Vidal Ordeig Anna - One of the best experts on this subject based on the ideXlab platform.
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Agents infecciosos implicats en Brots de diarrea neonatal porcina en granges de Catalunya
'Universitat Autonoma de Barcelona', 2019Co-Authors: Vidal Ordeig AnnaAbstract:La diarrea neonatal porcina constitueix una de les proBlemàtiques, tant a nivell sanitari com a nivell econòmic, més freqüents a les granges de porcs d’arreu del món. Malgrat que els Brots de diarrea neonatal porcina poden estar ocasionats per múltiples factors, la causa més haBitual és la presència de patògens entèrics. Existeixen molts agents infecciosos capaços de provocar diarrea en garrins nounats i el diagnòstic definitiu és sovint complex degut a la presència de diversos microorganismes en una mateixa mostra. Per aquesta raó, l’oBjectiu principal de la present tesi va ser analitzar quins agents infecciosos estaven involucrats de forma més haBitual en els Brots de diarrea neonatal porcina en granges de Catalunya produïts entre 2017 i 2018. L’oBjectiu del primer estudi va ser el càlcul de la prevalença de diversos agents infecciosos a partir de mostres provinents de granges que patien un Brot de diarrea neonatal. Cadascuna de les mostres oBtingudes va ser testada per detectar la presència de <B>RotavirusB> A, <B>RotavirusB> B, <B>RotavirusB> C, Virus de la diarrea epidèmica porcina, Virus de la gastroenteritis transmissiBle, Escherichia coli, Clostridium perfringens i Clostridium difficile. <B>RotavirusB> A va resultar ser l’únic patogen que es va poder correlacionar estadísticament amB l’aparició de diarrea. L’oBjectiu del segon estudi era caracteritzar diverses de les soques de <B>RotavirusB> A oBtingudes de mostres del primer estudi, a través d’anàlisis genotípics i filogenètics. Els resultats del genotipat van indicar que les 24 soques compartien un nucli comú, ja que 9 de les 11 proteïnes analitzades pertanyien al mateix genotip. Per contra, les proteïnes més externes del <B>RotavirusB>, VP4 i VP7, presentaven una gran diversitat. Els anàlisis filogenètics van indicar que totes les mostres analitzades en aquest estudi pertanyien a una única Branca evolutiva. El tercer treBall es va Basar en l’estudi de resistències antimicroBianes de les soques d’Escherichia coli oBtingudes de mostres de femta de garrins amB diarrea o sense del primer estudi. Els resultats oBtinguts en l’antiBiograma qualitatiu van mostrar uns nivells de resistència a la majoria de famílies d’antiBiòtics molt elevats. Pel que fa a la presència de gens de resistència, l’únic gen de BLEE detectat va ser BlaCTX-M. Paral·lelament, es van detectar 4 soques que contenien el gen de resistència a la colistina mcr-1. Com a conclusió, els resultats de la present tesi mostren que, en l’actualitat, <B>RotavirusB> A és especialment rellevant en els Brots de diarrea neonatal, tot i que no és possiBle descartar la contriBució cap de les altres causes, infeccioses i no-infeccioses, sense un Bon diagnòstic. TamBé destaquen que E. coli és un Bon indicador de l’estat de les resistències antimicroBianes presents en la microBiota dels porcs. Els resultats mostren alts valors de resistència als antimicroBians més haBituals en la producció porcina, així com la presència de gens de resistència a Beta-lactàmics i a la colistina, transmissiBles a través de plasmidis entre poBlacions Bacterianes.Porcine neonatal diarrhea is one of the most common health and economic proBlem in pig farms around the world. Although outBreaks of porcine neonatal diarrhea can Be caused By multiple factors, the most frequent cause is the presence of enteric pathogens. There are many infectious agents that can cause diarrhea in newBorn piglets, and the definitive diagnosis is often complex due to the presence of several microorganisms in the same sample. For this reason, the oBjective of this thesis was to analyze which infectious agents were most commonly involved in outBreaks of porcine neonatal diarrhea in farms in Catalonia Between 2017 and 2018. The oBjective of the first study was to calculate the prevalence of several infectious agents from samples oBtained from farms suffering an outBreak of neonatal diarrhea. Each of the oBtained samples was tested to detect the presence of <B>RotavirusB> A, <B>RotavirusB> B, <B>RotavirusB> C, Porcine epidemic diarrhea virus, TransmissiBle gastroenteritis virus, Escherichia coli, Clostridium perfringens and Clostridium difficile. <B>RotavirusB> A was the only pathogen that could Be statistically correlated with the onset of diarrhea. The oBjective of the second study was to characterize several of the <B>RotavirusB> A strains oBtained from samples from the first study, through genotypic and phylogenetic analysis. The results of the genotyping indicated that the 24 strains shared a common core, since 9 of the 11 proteins analyzed Belonged to the same genotype. By contrast, the most external proteins of the <B>RotavirusB>, VP4 and VP7, presented a great diversity. Phylogenetic analyses indicated that all the samples analyzed in this study Belonged to a single evolutionary Branch. The third work of this thesis was Based on the study of antimicroBial resistance in strains of Escherichia coli oBtained from feces from diarrheic and non-diarrheic piglets from the first study. The results oBtained in the qualitative antiBiogram showed high levels of resistance for most of the antimicroBial families. Regarding the presence of resistance genes in the studied strains, the only ESBL gene detected was BlaCTX-M. In parallel, 4 strains containing the colistin-resistance gene mcr-1 were detected. In conclusion, the results of this thesis show that, at present, <B>RotavirusB> A is especially relevant in outBreaks of porcine neonatal diarrhea, although it is not possiBle to rule out any of the other causes, infectious and non-infectious, without a good diagnosis. The results also point out that E. coli is a good indicator of the state of the antimicroBial resistance in the pig microBiota. The results show high values of resistance to the most commonly used antimicroBials in pig production, as well as the presence of ESBL and colistin resistance gens, that can Be transmitted through plasmids Between Bacterial populations
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Agents infecciosos implicats en Brots de diarrea neonatal porcina en granges de Catalunya /
2019Co-Authors: Vidal Ordeig Anna, Universitat Autònoma De Barcelona. Departament De Sanitat I D'anatomiaAbstract:La diarrea neonatal porcina constitueix una de les proBlemàtiques, tant a nivell sanitari com a nivell econòmic, més freqüents a les granges de porcs d'arreu del món. Malgrat que els Brots de diarrea neonatal porcina poden estar ocasionats per múltiples factors, la causa més haBitual és la presència de patògens entèrics. Existeixen molts agents infecciosos capaços de provocar diarrea en garrins nounats i el diagnòstic definitiu és sovint complex degut a la presència de diversos microorganismes en una mateixa mostra. Per aquesta raó, l'oBjectiu principal de la present tesi va ser analitzar quins agents infecciosos estaven involucrats de forma més haBitual en els Brots de diarrea neonatal porcina en granges de Catalunya produïts entre 2017 i 2018. L'oBjectiu del primer estudi va ser el càlcul de la prevalença de diversos agents infecciosos a partir de mostres provinents de granges que patien un Brot de diarrea neonatal. Cadascuna de les mostres oBtingudes va ser testada per detectar la presència de <B>RotavirusB> A, <B>RotavirusB> B, <B>RotavirusB> C, Virus de la diarrea epidèmica porcina, Virus de la gastroenteritis transmissiBle, Escherichia coli, Clostridium perfringens i Clostridium difficile. <B>RotavirusB> A va resultar ser l'únic patogen que es va poder correlacionar estadísticament amB l'aparició de diarrea. L'oBjectiu del segon estudi era caracteritzar diverses de les soques de <B>RotavirusB> A oBtingudes de mostres del primer estudi, a través d'anàlisis genotípics i filogenètics. Els resultats del genotipat van indicar que les 24 soques compartien un nucli comú, ja que 9 de les 11 proteïnes analitzades pertanyien al mateix genotip. Per contra, les proteïnes més externes del <B>RotavirusB>, VP4 i VP7, presentaven una gran diversitat. Els anàlisis filogenètics van indicar que totes les mostres analitzades en aquest estudi pertanyien a una única Branca evolutiva. El tercer treBall es va Basar en l'estudi de resistències antimicroBianes de les soques d'Escherichia coli oBtingudes de mostres de femta de garrins amB diarrea o sense del primer estudi. Els resultats oBtinguts en l'antiBiograma qualitatiu van mostrar uns nivells de resistència a la majoria de famílies d'antiBiòtics molt elevats. Pel que fa a la presència de gens de resistència, l'únic gen de BLEE detectat va ser BlaCTX-M. Paral·lelament, es van detectar 4 soques que contenien el gen de resistència a la colistina mcr-1. Com a conclusió, els resultats de la present tesi mostren que, en l'actualitat, <B>RotavirusB> A és especialment rellevant en els Brots de diarrea neonatal, tot i que no és possiBle descartar la contriBució cap de les altres causes, infeccioses i no-infeccioses, sense un Bon diagnòstic. TamBé destaquen que E. coli és un Bon indicador de l'estat de les resistències antimicroBianes presents en la microBiota dels porcs. Els resultats mostren alts valors de resistència als antimicroBians més haBituals en la producció porcina, així com la presència de gens de resistència a Beta-lactàmics i a la colistina, transmissiBles a través de plasmidis entre poBlacions Bacterianes.Porcine neonatal diarrhea is one of the most common health and economic proBlem in pig farms around the world. Although outBreaks of porcine neonatal diarrhea can Be caused By multiple factors, the most frequent cause is the presence of enteric pathogens. There are many infectious agents that can cause diarrhea in newBorn piglets, and the definitive diagnosis is often complex due to the presence of several microorganisms in the same sample. For this reason, the oBjective of this thesis was to analyze which infectious agents were most commonly involved in outBreaks of porcine neonatal diarrhea in farms in Catalonia Between 2017 and 2018. The oBjective of the first study was to calculate the prevalence of several infectious agents from samples oBtained from farms suffering an outBreak of neonatal diarrhea. Each of the oBtained samples was tested to detect the presence of <B>RotavirusB> A, <B>RotavirusB> B, <B>RotavirusB> C, Porcine epidemic diarrhea virus, TransmissiBle gastroenteritis virus, Escherichia coli, Clostridium perfringens and Clostridium difficile. <B>RotavirusB> A was the only pathogen that could Be statistically correlated with the onset of diarrhea. The oBjective of the second study was to characterize several of the <B>RotavirusB> A strains oBtained from samples from the first study, through genotypic and phylogenetic analysis. The results of the genotyping indicated that the 24 strains shared a common core, since 9 of the 11 proteins analyzed Belonged to the same genotype. By contrast, the most external proteins of the <B>RotavirusB>, VP4 and VP7, presented a great diversity. Phylogenetic analyses indicated that all the samples analyzed in this study Belonged to a single evolutionary Branch. The third work of this thesis was Based on the study of antimicroBial resistance in strains of Escherichia coli oBtained from feces from diarrheic and non-diarrheic piglets from the first study. The results oBtained in the qualitative antiBiogram showed high levels of resistance for most of the antimicroBial families. Regarding the presence of resistance genes in the studied strains, the only ESBL gene detected was BlaCTX-M. In parallel, 4 strains containing the colistin-resistance gene mcr-1 were detected. In conclusion, the results of this thesis show that, at present, <B>RotavirusB> A is especially relevant in outBreaks of porcine neonatal diarrhea, although it is not possiBle to rule out any of the other causes, infectious and non-infectious, without a good diagnosis. The results also point out that E. coli is a good indicator of the state of the antimicroBial resistance in the pig microBiota. The results show high values of resistance to the most commonly used antimicroBials in pig production, as well as the presence of ESBL and colistin resistance gens, that can Be transmitted through plasmids Between Bacterial populations
Universitat Autònoma De Barcelona. Departament De Sanitat I D'anatomia - One of the best experts on this subject based on the ideXlab platform.
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Agents infecciosos implicats en Brots de diarrea neonatal porcina en granges de Catalunya /
2019Co-Authors: Vidal Ordeig Anna, Universitat Autònoma De Barcelona. Departament De Sanitat I D'anatomiaAbstract:La diarrea neonatal porcina constitueix una de les proBlemàtiques, tant a nivell sanitari com a nivell econòmic, més freqüents a les granges de porcs d'arreu del món. Malgrat que els Brots de diarrea neonatal porcina poden estar ocasionats per múltiples factors, la causa més haBitual és la presència de patògens entèrics. Existeixen molts agents infecciosos capaços de provocar diarrea en garrins nounats i el diagnòstic definitiu és sovint complex degut a la presència de diversos microorganismes en una mateixa mostra. Per aquesta raó, l'oBjectiu principal de la present tesi va ser analitzar quins agents infecciosos estaven involucrats de forma més haBitual en els Brots de diarrea neonatal porcina en granges de Catalunya produïts entre 2017 i 2018. L'oBjectiu del primer estudi va ser el càlcul de la prevalença de diversos agents infecciosos a partir de mostres provinents de granges que patien un Brot de diarrea neonatal. Cadascuna de les mostres oBtingudes va ser testada per detectar la presència de <B>RotavirusB> A, <B>RotavirusB> B, <B>RotavirusB> C, Virus de la diarrea epidèmica porcina, Virus de la gastroenteritis transmissiBle, Escherichia coli, Clostridium perfringens i Clostridium difficile. <B>RotavirusB> A va resultar ser l'únic patogen que es va poder correlacionar estadísticament amB l'aparició de diarrea. L'oBjectiu del segon estudi era caracteritzar diverses de les soques de <B>RotavirusB> A oBtingudes de mostres del primer estudi, a través d'anàlisis genotípics i filogenètics. Els resultats del genotipat van indicar que les 24 soques compartien un nucli comú, ja que 9 de les 11 proteïnes analitzades pertanyien al mateix genotip. Per contra, les proteïnes més externes del <B>RotavirusB>, VP4 i VP7, presentaven una gran diversitat. Els anàlisis filogenètics van indicar que totes les mostres analitzades en aquest estudi pertanyien a una única Branca evolutiva. El tercer treBall es va Basar en l'estudi de resistències antimicroBianes de les soques d'Escherichia coli oBtingudes de mostres de femta de garrins amB diarrea o sense del primer estudi. Els resultats oBtinguts en l'antiBiograma qualitatiu van mostrar uns nivells de resistència a la majoria de famílies d'antiBiòtics molt elevats. Pel que fa a la presència de gens de resistència, l'únic gen de BLEE detectat va ser BlaCTX-M. Paral·lelament, es van detectar 4 soques que contenien el gen de resistència a la colistina mcr-1. Com a conclusió, els resultats de la present tesi mostren que, en l'actualitat, <B>RotavirusB> A és especialment rellevant en els Brots de diarrea neonatal, tot i que no és possiBle descartar la contriBució cap de les altres causes, infeccioses i no-infeccioses, sense un Bon diagnòstic. TamBé destaquen que E. coli és un Bon indicador de l'estat de les resistències antimicroBianes presents en la microBiota dels porcs. Els resultats mostren alts valors de resistència als antimicroBians més haBituals en la producció porcina, així com la presència de gens de resistència a Beta-lactàmics i a la colistina, transmissiBles a través de plasmidis entre poBlacions Bacterianes.Porcine neonatal diarrhea is one of the most common health and economic proBlem in pig farms around the world. Although outBreaks of porcine neonatal diarrhea can Be caused By multiple factors, the most frequent cause is the presence of enteric pathogens. There are many infectious agents that can cause diarrhea in newBorn piglets, and the definitive diagnosis is often complex due to the presence of several microorganisms in the same sample. For this reason, the oBjective of this thesis was to analyze which infectious agents were most commonly involved in outBreaks of porcine neonatal diarrhea in farms in Catalonia Between 2017 and 2018. The oBjective of the first study was to calculate the prevalence of several infectious agents from samples oBtained from farms suffering an outBreak of neonatal diarrhea. Each of the oBtained samples was tested to detect the presence of <B>RotavirusB> A, <B>RotavirusB> B, <B>RotavirusB> C, Porcine epidemic diarrhea virus, TransmissiBle gastroenteritis virus, Escherichia coli, Clostridium perfringens and Clostridium difficile. <B>RotavirusB> A was the only pathogen that could Be statistically correlated with the onset of diarrhea. The oBjective of the second study was to characterize several of the <B>RotavirusB> A strains oBtained from samples from the first study, through genotypic and phylogenetic analysis. The results of the genotyping indicated that the 24 strains shared a common core, since 9 of the 11 proteins analyzed Belonged to the same genotype. By contrast, the most external proteins of the <B>RotavirusB>, VP4 and VP7, presented a great diversity. Phylogenetic analyses indicated that all the samples analyzed in this study Belonged to a single evolutionary Branch. The third work of this thesis was Based on the study of antimicroBial resistance in strains of Escherichia coli oBtained from feces from diarrheic and non-diarrheic piglets from the first study. The results oBtained in the qualitative antiBiogram showed high levels of resistance for most of the antimicroBial families. Regarding the presence of resistance genes in the studied strains, the only ESBL gene detected was BlaCTX-M. In parallel, 4 strains containing the colistin-resistance gene mcr-1 were detected. In conclusion, the results of this thesis show that, at present, <B>RotavirusB> A is especially relevant in outBreaks of porcine neonatal diarrhea, although it is not possiBle to rule out any of the other causes, infectious and non-infectious, without a good diagnosis. The results also point out that E. coli is a good indicator of the state of the antimicroBial resistance in the pig microBiota. The results show high values of resistance to the most commonly used antimicroBials in pig production, as well as the presence of ESBL and colistin resistance gens, that can Be transmitted through plasmids Between Bacterial populations
Douglas Marthaler - One of the best experts on this subject based on the ideXlab platform.
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longitudinal surveillance of porcine <B>RotavirusB> B strains from the united states and canada and in silico identification of antigenically important sites
Pathogenetics, 2017Co-Authors: Frances K Shepherd, Marie R Culhane, Michael P Murtaugh, Fangzhou Chen, Douglas MarthalerAbstract:<B>RotavirusB> B (RVB) is an important swine pathogen, But control and prevention strategies are limited without an availaBle vaccine. To develop a suBunit RVB vaccine with maximal effect, we characterized the amino acid sequence variaBility and predicted antigenicity of RVB viral protein 7 (VP7), a major neutralizing antiBody target, from clinically infected pigs in the United States and Canada. We identified genotype-specific antigenic sites that may Be antiBody neutralization targets. While some antigenic sites had high amino acid functional group diversity, nine antigenic sites were completely conserved. Analysis of nucleotide suBstitution rates at amino acid sites (dN/dS) suggested that negative selection appeared to Be playing a larger role in the evolution of the identified antigenic sites when compared to positive selection, and was identified in six of the nine conserved antigenic sites. These results identified important characteristics of RVB VP7 variaBility and evolution and suggest antigenic residues on RVB VP7 that are negatively selected and highly conserved may Be good candidate regions to include in a suBunit vaccine design due to their tendency to remain staBle.
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vp6 genetic diversity reassortment intragenic recomBination and classification of <B>RotavirusB> B in american and japanese pigs
Veterinary Microbiology, 2014Co-Authors: Douglas Marthaler, Tohru Suzuki, Hiroshi Tsunemitsu, Kurt Rossow, Marie R Culhane, James E Collins, Sagar M Goyal, Max Ciarlet, Jelle MatthijnssensAbstract:<B>RotavirusB> B (RVB) has Been identified as a causative agent of diarrhea in rats, humans, cattle, lamBs, and swine. Recently, 20 RVB VP7 genotypes were determined Based on an 80% nucleotide percent cut-off value. In this study, we sequenced the RVB VP6 gene segment from 80 RVB positive swine samples from the United States and Japan. Phylogenetic analyses, using the 30 availaBle RVB VP6 sequences from GenBank and our 80 novel RVB VP6 sequences, revealed a large genetic diversity of RVB strains, mainly in pigs. For classification purposes, pairwise identity frequency analyses suggested an 81% nucleotide percent cut-off value, resulting in 13 RVB VP6 (I) genotypes. In addition, an intragenic recomBinant RVB VP6 segment was identified from Japan. Furthermore, the data indicates frequent reassortment events occurred Between the porcine RVB VP7 and VP6 gene segments.
Hiroshi Tsunemitsu - One of the best experts on this subject based on the ideXlab platform.
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vp6 genetic diversity reassortment intragenic recomBination and classification of <B>RotavirusB> B in american and japanese pigs
Veterinary Microbiology, 2014Co-Authors: Douglas Marthaler, Tohru Suzuki, Hiroshi Tsunemitsu, Kurt Rossow, Marie R Culhane, James E Collins, Sagar M Goyal, Max Ciarlet, Jelle MatthijnssensAbstract:<B>RotavirusB> B (RVB) has Been identified as a causative agent of diarrhea in rats, humans, cattle, lamBs, and swine. Recently, 20 RVB VP7 genotypes were determined Based on an 80% nucleotide percent cut-off value. In this study, we sequenced the RVB VP6 gene segment from 80 RVB positive swine samples from the United States and Japan. Phylogenetic analyses, using the 30 availaBle RVB VP6 sequences from GenBank and our 80 novel RVB VP6 sequences, revealed a large genetic diversity of RVB strains, mainly in pigs. For classification purposes, pairwise identity frequency analyses suggested an 81% nucleotide percent cut-off value, resulting in 13 RVB VP6 (I) genotypes. In addition, an intragenic recomBinant RVB VP6 segment was identified from Japan. Furthermore, the data indicates frequent reassortment events occurred Between the porcine RVB VP7 and VP6 gene segments.
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sequence and phylogenetic analyses of nonstructural protein 2 genes of species B porcine <B>RotavirusB>es detected in japan during 2001 2009
Virus Research, 2012Co-Authors: Tohru Suzuki, Ayako Miyazaki, Junichi Soma, Kazufumi Kuga, Hiroshi TsunemitsuAbstract:Porcine <B>RotavirusB> B (RVB) has Been often detected in diarrhea of suckling and weaned pigs. Because it is difficult to serially cultivate RVBs in cell culture, the numBer of availaBle sequence data for RNA segments other than VP7 and NSP1 in especially porcine RVBs is still limited. We performed genetic analysis focusing on nonstructural protein 2 (NSP2) using several porcine RVB strains, which were detected in diarrheic feces collected around Japan during 2001-2009. Comparison of NSP2 nucleotide and deduced amino acid sequences from porcine RVB strains exhiBited low identities (64.0-99.9% in nt and 66.7-100.0% in aa) to those of other RVB strains. Phylogenetic analysis of RVB NSP2 revealed the presence of four clusters (N1-N4) including human plus murine, Bovine and porcine clusters with cut-off values of 75% at the nt and 85% at the aa level. Furthermore, the NSP2 genes of porcine RVBs were divided into three genotypes, of which some porcine RVBs Belonged into Bovine-cluster. PB-70-H5 and PB-70-H3, which Belonged to same pig farm, might Be identical in NSP2 gene as shown sequence identity of 99.9%, nevertheless Both had different VP7 genes each other. Thus, this data demonstrates the occurrence of gene reassortment among porcine RVBs derived from same pig farm. Our findings presented here would provide more valuaBle information to elucidate evolution of RVBs.
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Phylogenetic analysis of nonstructural protein 5 (NSP5) gene sequences in porcine <B>RotavirusB> B strains.
Infection Genetics and Evolution, 2012Co-Authors: Tohru Suzuki, Ayako Miyazaki, Junichi Soma, Hiroshi TsunemitsuAbstract:Porcine <B>RotavirusB> B (RVB) has frequently Been detected in the diarrhea of suckling and weaned pigs. Because it is difficult to propagate RVBs serially in cell culture, little genetic information aBout RNA segments other than VP7, NSP1 and NSP2 is availaBle for porcine RVBs. We conducted a phylogenetic analysis focusing on nonstructural protein 5 (NSP5) using 22 porcine RVB strains, which were identified in fecal samples collected around Japan. Sequence analysis showed that NSP5 genes of RVBs contain one ORF, in contrast to the corresponding gene of RVAs that have two ORFs. Comparison of NSP5 amino acid sequences from porcine RVBs with other RVBs revealed that eight serine and serine/threonine residues at the N- and C-terminal regions are highly conserved among RVBs. Phylogenetic analysis also indicated the presence of six clusters (H1-H6) including rat, human, porcine and Bovine plus ovine clusters with cut-off values of 78% at the nucleotide level. Moreover, the NSP5 genes of porcine RVBs were divided to three clusters. The data presented here demonstrates that several porcine RVBs with distinctive genotypes are circulating among farms throughout Japan. Our findings provide important new insights into the evolutionary dynamics of RVBs.
Tohru Suzuki - One of the best experts on this subject based on the ideXlab platform.
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vp6 genetic diversity reassortment intragenic recomBination and classification of <B>RotavirusB> B in american and japanese pigs
Veterinary Microbiology, 2014Co-Authors: Douglas Marthaler, Tohru Suzuki, Hiroshi Tsunemitsu, Kurt Rossow, Marie R Culhane, James E Collins, Sagar M Goyal, Max Ciarlet, Jelle MatthijnssensAbstract:<B>RotavirusB> B (RVB) has Been identified as a causative agent of diarrhea in rats, humans, cattle, lamBs, and swine. Recently, 20 RVB VP7 genotypes were determined Based on an 80% nucleotide percent cut-off value. In this study, we sequenced the RVB VP6 gene segment from 80 RVB positive swine samples from the United States and Japan. Phylogenetic analyses, using the 30 availaBle RVB VP6 sequences from GenBank and our 80 novel RVB VP6 sequences, revealed a large genetic diversity of RVB strains, mainly in pigs. For classification purposes, pairwise identity frequency analyses suggested an 81% nucleotide percent cut-off value, resulting in 13 RVB VP6 (I) genotypes. In addition, an intragenic recomBinant RVB VP6 segment was identified from Japan. Furthermore, the data indicates frequent reassortment events occurred Between the porcine RVB VP7 and VP6 gene segments.
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sequence and phylogenetic analyses of nonstructural protein 2 genes of species B porcine <B>RotavirusB>es detected in japan during 2001 2009
Virus Research, 2012Co-Authors: Tohru Suzuki, Ayako Miyazaki, Junichi Soma, Kazufumi Kuga, Hiroshi TsunemitsuAbstract:Porcine <B>RotavirusB> B (RVB) has Been often detected in diarrhea of suckling and weaned pigs. Because it is difficult to serially cultivate RVBs in cell culture, the numBer of availaBle sequence data for RNA segments other than VP7 and NSP1 in especially porcine RVBs is still limited. We performed genetic analysis focusing on nonstructural protein 2 (NSP2) using several porcine RVB strains, which were detected in diarrheic feces collected around Japan during 2001-2009. Comparison of NSP2 nucleotide and deduced amino acid sequences from porcine RVB strains exhiBited low identities (64.0-99.9% in nt and 66.7-100.0% in aa) to those of other RVB strains. Phylogenetic analysis of RVB NSP2 revealed the presence of four clusters (N1-N4) including human plus murine, Bovine and porcine clusters with cut-off values of 75% at the nt and 85% at the aa level. Furthermore, the NSP2 genes of porcine RVBs were divided into three genotypes, of which some porcine RVBs Belonged into Bovine-cluster. PB-70-H5 and PB-70-H3, which Belonged to same pig farm, might Be identical in NSP2 gene as shown sequence identity of 99.9%, nevertheless Both had different VP7 genes each other. Thus, this data demonstrates the occurrence of gene reassortment among porcine RVBs derived from same pig farm. Our findings presented here would provide more valuaBle information to elucidate evolution of RVBs.
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Phylogenetic analysis of nonstructural protein 5 (NSP5) gene sequences in porcine <B>RotavirusB> B strains.
Infection Genetics and Evolution, 2012Co-Authors: Tohru Suzuki, Ayako Miyazaki, Junichi Soma, Hiroshi TsunemitsuAbstract:Porcine <B>RotavirusB> B (RVB) has frequently Been detected in the diarrhea of suckling and weaned pigs. Because it is difficult to propagate RVBs serially in cell culture, little genetic information aBout RNA segments other than VP7, NSP1 and NSP2 is availaBle for porcine RVBs. We conducted a phylogenetic analysis focusing on nonstructural protein 5 (NSP5) using 22 porcine RVB strains, which were identified in fecal samples collected around Japan. Sequence analysis showed that NSP5 genes of RVBs contain one ORF, in contrast to the corresponding gene of RVAs that have two ORFs. Comparison of NSP5 amino acid sequences from porcine RVBs with other RVBs revealed that eight serine and serine/threonine residues at the N- and C-terminal regions are highly conserved among RVBs. Phylogenetic analysis also indicated the presence of six clusters (H1-H6) including rat, human, porcine and Bovine plus ovine clusters with cut-off values of 78% at the nucleotide level. Moreover, the NSP5 genes of porcine RVBs were divided to three clusters. The data presented here demonstrates that several porcine RVBs with distinctive genotypes are circulating among farms throughout Japan. Our findings provide important new insights into the evolutionary dynamics of RVBs.
