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1.
J Gen Virol ; 102(9)2021 09.
Artigo em Inglês | MEDLINE | ID: mdl-34486970

RESUMO

Recently, murine kobuvirus (MuKV), a novel member of the family Picornaviridae, was identified in faecal samples of Rattus norvegicus in China. The limited information on the circulation of MuKV in other murine rodent species prompted us to investigate its prevalence and conduct a genetic characterization of MuKV in Rattus losea, Rattus tanezumi and Rattus norvegicus in China. Between 2015 and 2017, 243 faecal samples of these three murine rodent species from three regions in southern China were screened for the presence of MuKV. The overall prevalence was 23.0% (56/243). Three complete MuKV polyprotein sequences were acquired, and the genome organization was determined. Phylogenetic analyses suggested that our sequences were closely related to Chinese strains and belong to the species Aichivirus A in the genus Kobuvirus. Additional studies are required to understand the true prevalence of MuKV in murine rodent populations in China.


Assuntos
Fezes/virologia , Kobuvirus/genética , Infecções por Picornaviridae/veterinária , Ratos/virologia , Doenças dos Roedores/virologia , Animais , China/epidemiologia , Genoma Viral , Kobuvirus/isolamento & purificação , Filogenia , Infecções por Picornaviridae/epidemiologia , Infecções por Picornaviridae/virologia , Poliproteínas/genética , Prevalência , Doenças dos Roedores/epidemiologia , Proteínas Virais/genética
2.
Arch Virol ; 166(9): 2591-2596, 2021 Sep.
Artigo em Inglês | MEDLINE | ID: mdl-34244861

RESUMO

Between 2016 and 2018, the prevalence of porcine kobuvirus (PKoV) and porcine astrovirus (PAstV) in Korean wild boars (n = 845) was 28.0% and 10.7%, respectively. Coinfection by both viruses was detected in 5.1% of boars. Phylogenetic analysis revealed that 134 PKoV isolates belonged to diverse lineages within the species Aichivirus C; however, one strain (WKoV16CN-8627) clustered with bovine kobuvirus (Aichivirus B). Forty-seven PAstVs belonged to lineage PAstV4, and only one strain (WAst17JN-10931) was a novel addition to lineage PAstV2. The two viruses were more prevalent in boars weighing ≤ 60 kg than in boars weighing > 61 kg.


Assuntos
Kobuvirus/classificação , Kobuvirus/isolamento & purificação , Mamastrovirus/classificação , Mamastrovirus/isolamento & purificação , Filogenia , Sus scrofa/virologia , Animais , Infecções por Astroviridae/epidemiologia , Infecções por Astroviridae/virologia , Bovinos , DNA Viral , Diarreia/virologia , Fezes/virologia , Genótipo , Kobuvirus/genética , Mamastrovirus/genética , Prevalência , República da Coreia/epidemiologia , Análise de Sequência de DNA , Suínos , Doenças dos Suínos/epidemiologia , Doenças dos Suínos/virologia
3.
Viruses ; 13(4)2021 03 24.
Artigo em Inglês | MEDLINE | ID: mdl-33805214

RESUMO

Enteric viruses are the leading cause of diarrhea in children globally. Identifying viral agents and understanding their genetic diversity could help to develop effective preventive measures. This study aimed to determine the detection rate and genetic diversity of four enteric viruses in Gabonese children aged below five years. Stool samples from children <5 years with (n = 177) and without (n = 67) diarrhea were collected from April 2018 to November 2019. Norovirus, astrovirus, sapovirus, and aichivirus A were identified using PCR techniques followed by sequencing and phylogenetic analyses. At least one viral agent was identified in 23.2% and 14.9% of the symptomatic and asymptomatic participants, respectively. Norovirus (14.7%) and astrovirus (7.3%) were the most prevalent in children with diarrhea, whereas in the healthy group norovirus (9%) followed by the first reported aichivirus A in Gabon (6%) were predominant. The predominant norovirus genogroup was GII, consisting mostly of genotype GII.P31-GII.4 Sydney. Phylogenetic analysis of the 3CD region of the aichivirus A genome revealed the presence of two genotypes (A and C) in the study cohort. Astrovirus and sapovirus showed a high diversity, with five different astrovirus genotypes and four sapovirus genotypes, respectively. Our findings give new insights into the circulation and genetic diversity of enteric viruses in Gabonese children.


Assuntos
Infecções por Enterovirus/epidemiologia , Infecções por Enterovirus/virologia , Enterovirus/classificação , Enterovirus/genética , Variação Genética , Pré-Escolar , Diarreia/virologia , Enterovirus/isolamento & purificação , Fezes/virologia , Feminino , Gabão/epidemiologia , Genótipo , Humanos , Lactente , Recém-Nascido , Kobuvirus/genética , Kobuvirus/isolamento & purificação , Masculino , Norovirus/genética , Norovirus/isolamento & purificação , Filogenia , Rotavirus/genética , Rotavirus/isolamento & purificação , Sapovirus/genética , Sapovirus/isolamento & purificação , Análise de Sequência de DNA
4.
Viruses ; 13(5)2021 04 23.
Artigo em Inglês | MEDLINE | ID: mdl-33922604

RESUMO

Swine enteric viral infections are responsible for substantial economic losses in the pork industry worldwide. Porcine epidemic diarrhea (PEDV) is one of the main causative agents of diarrhea in lactating pigs, and reports of PEDV coinfection with other enteric viruses highlight the importance of viral interactions for disease presentation and outcomes. Using next-generation sequencing (NGS) and sequence analyses from samples taken from piglets with acute diarrhea, we explored the possible interactions between PEDV and other less reported pathogens. PEDV coinfection with porcine kobuvirus (PKV) was detected in 36.4% (27/74) of samples. Full genomes from porcine coronavirus and kobuvirus were obtained, as was a partial porcine sapovirus genome (PSaV). The phylogenetic results show the clustering of these strains corresponding to the geographical relationship. To our knowledge, this is the first full genome and isolation report for porcine kobuvirus in México, as well as the first phylogenetic analysis for porcine sapovirus in the country. The NGS approach provides a better perspective of circulating viruses and other pathogens in affected production units.


Assuntos
Coinfecção/virologia , Infecções por Coronavirus/virologia , Kobuvirus/genética , Kobuvirus/isolamento & purificação , Vírus da Diarreia Epidêmica Suína/genética , Vírus da Diarreia Epidêmica Suína/isolamento & purificação , Animais , Coinfecção/epidemiologia , Infecções por Coronavirus/epidemiologia , Diarreia/virologia , Fezes/virologia , Genoma Viral , Kobuvirus/classificação , México/epidemiologia , Técnicas de Diagnóstico Molecular , Filogenia , Vírus da Diarreia Epidêmica Suína/classificação , Sapovirus/genética , Análise de Sequência , Suínos , Doenças dos Suínos/virologia
5.
J Zoo Wildl Med ; 52(1): 343-347, 2021 Apr.
Artigo em Inglês | MEDLINE | ID: mdl-33827197

RESUMO

Pygmy hogs (Porcula salvania) are the smallest and rarest wild suid. It is categorized as a Critically Endangered species as per the Red List of the International Union for Conservation of Nature. This study reports the first detection of a single-stranded RNA virus species, Aichivirus C, belonging to the genus Kobuvirus (KobV) and the family Picornaviridae, in pygmy hogs. KobV species are identified as a cause of acute gastroenteritis among children in India. As of now, there exists no report on the detection of KobV in animals from India. We used a detection assay based on reverse transcription-polymerase chain reaction for KobV screening in pygmy hogs from a conservation center in India. The 3D polymerase gene-based molecular analysis revealed KobV presence in the Indian wild suid, pygmy hogs. Of the 15 samples tested, three were found positive for picornaviruses and were negative for rotavirus A, rotavirus C, astrovirus, picobirnavirus and caliciviruses. Nucleotide-based sequence analysis of the partial 3D polymerase gene revealed close identity with porcine KobV from the Czech Republic (JX232619, 90.6%-91.6%) and Hungary (NC_011829, 89.8%-91.6%), wherein one of the current study strains clustered with the Czech Republic JX232619 strain in the phylogenetic tree. Further investigation of the role of KobV in health and disease of pygmy hogs is warranted.


Assuntos
Espécies em Perigo de Extinção , Kobuvirus/isolamento & purificação , Suínos/virologia , Animais , Fezes/virologia , Feminino , Índia/epidemiologia , Masculino
6.
Infect Genet Evol ; 91: 104810, 2021 07.
Artigo em Inglês | MEDLINE | ID: mdl-33741511

RESUMO

A novel kobuvirus was found in diarrheal fecal samples of Tibetan sheep using a viral metagenomics approach, and a full kobuvirus genome was successfully obtained by RT-PCR from a diarrheal fecal sample. The full genomic sequence was 8485 nucleotides (nt) in length with a standard picornavirus genome organization. The novel genome shares 62.9% and 77.8% nt homology with Aichivirus D1 genotype strain 1-22-KoV, and Aichivirus D2 genotype strain 2-44-KoV, respectively. According to the species classification criteria of the International Committee on Taxonomy of Viruses (ICTV), the new kobuvirus belongs to Aichivirus species D. Interestingly, compared with 2 known Aichivirus D genotype strains, the novel Aichivirus D has unique amino acid substitutions in the 5'untranslated region (-UTR), VP0, VP3, and VP1, with a recombination event in the 2C region.These characteristics make the novel Aichivirus D cluster into an independent branch in the phylogenetic tree, suggesting that strain may represent a novel genotype in Aichivirus D. Moreover, the novel Aichivirus D was detected in 9.2% (18/195) of the sheep diarrheal fecal samples from 4 farms in 3 counties of the Qinghai Tibet Plateau in China. In addition, full-length VP0, VP3, and VP1 genes were successfully obtained from 12 samples from 4 farms, and phylogenetic analysis based on these genes revealed a unique evolutionary pattern for this novel Aichivirus D strain. This study identified a novel Aichivirus D that is circulating in sheep in Qinghai Tibet Plateau in China and these findings provide a better understanding of the epidemiologic and genetic evolution of kobuviruses.


Assuntos
Diarreia/virologia , Genótipo , Kobuvirus/isolamento & purificação , Infecções por Picornaviridae/veterinária , Doenças dos Ovinos/epidemiologia , Animais , China/epidemiologia , Fezes/virologia , Kobuvirus/classificação , Filogenia , Infecções por Picornaviridae/epidemiologia , Infecções por Picornaviridae/virologia , Prevalência , Ovinos , Doenças dos Ovinos/virologia , Carneiro Doméstico
7.
J Vet Diagn Invest ; 32(6): 873-879, 2020 Nov.
Artigo em Inglês | MEDLINE | ID: mdl-33140709

RESUMO

Kobuvirus infections are common among humans, rodents, carnivores, pigs, and ruminants. We report herein the complete genome sequence of a novel caprine kobuvirus (MN604700) from diarrheic kids in Minnesota. Whole-genome sequencing revealed a kobuvirus genome of 8,139 nt with a single ORF region encoding a polyprotein of 2,480 amino acids. Further analysis revealed nt substitutions along the genome compared with that of the caprine kobuvirus reference strain, with 93% identity. Phylogenetic analysis indicated that the clade of the caprine kobuvirus was most closely related to porcine kobuviruses rather than bovine or ovine kobuviruses. Using primers designed from this genome, caprine kobuvirus was identified in the stools of other goats. Sanger sequencing of PCR products indicated 3D and VP1 gene nucleotides of this latter strain were 95% and 91% identical with those of MN604700, respectively. There were 35 and 101 nt substitutions in 3D and VP1 genes, respectively. Findings of kobuvirus over a 2-y period may indicate an endemic state, which needs further research. In addition, screening for kobuviruses over large geographic areas is needed to identify the evolutionary connections among different strains.


Assuntos
Diarreia/veterinária , Doenças das Cabras/virologia , Kobuvirus/genética , Kobuvirus/isolamento & purificação , Infecções por Picornaviridae/veterinária , Animais , Primers do DNA , Diarreia/epidemiologia , Diarreia/virologia , Fezes/virologia , Doenças das Cabras/epidemiologia , Cabras , Minnesota/epidemiologia , Filogenia , Infecções por Picornaviridae/epidemiologia , Infecções por Picornaviridae/virologia
8.
Food Environ Virol ; 12(4): 342-349, 2020 12.
Artigo em Inglês | MEDLINE | ID: mdl-33044663

RESUMO

Aichivirus 1 (AiV-1) is an enteric virus that has been documented to be the causative agent of diarrhea in humans. It is transmitted by fecal-oral route, through person-to-person contact, consumption of contaminated food or water, or recreation of contaminated water. AiV-1 is highly prevalent in water samples and has been proposed as a potential indicator of fecal contamination in water reservoirs. This study aimed to investigate the prevalence and genetic diversity of AiV-1 in environmental water samples in Thailand. A total of 126 samples were collected monthly from November 2016 to July 2018 from various sources of environmental water including irrigation water, reservoir, river, and wastewater. The presence of AiV-1 was detected by RT-nested PCR of the 3CD region and further analyzed by phylogenetic analysis. The AiV-1 was detected in 28 out of 126 (22.2%) of tested samples. A high frequency of AiV-1 detection was in wastewater (52.4%). All 28 AiV-1 strains detected in this study belonged to the genotype B and were closely related to AiV strains detected previously in environmental waters and in humans worldwide. This study demonstrated, for the first time, the contamination of AiV-1 in various sources of water samples in Thailand and provided a better insight into the prevalence of AiV-1 in environmental waters and its potential risk of human health.


Assuntos
Kobuvirus/genética , Kobuvirus/isolamento & purificação , Rios/virologia , Águas Residuárias/virologia , Diarreia/virologia , Fezes/virologia , Genótipo , Humanos , Kobuvirus/classificação , Filogenia , Infecções por Picornaviridae/virologia , Prevalência , Tailândia
9.
Infect Genet Evol ; 85: 104566, 2020 11.
Artigo em Inglês | MEDLINE | ID: mdl-32976973

RESUMO

Caprine kobuvirus (CKoV), a member of the genus Kobuvirus, has only been identified in South Korea and Italy until now. In this study, 24 goat diarrheic fecal samples were collected from 3 farms in Sichuan province, China, and 87.5% (21/24) samples were detected as CKoV positive by RT-PCR. Meanwhile, full-length VP0, VP3, and VP1 genes were simultaneously cloned from 17 clinical samples. Phylogenetic analysis showed that all CKoV strains were most closely related to porcine kobuvirus based on amino acid (aa) sequences of VP0 and VP3 proteins, but CKoV strains were closely related to with Aichivirus B strains (ferret, bovine, and sheep kobuvirus) based on aa sequences of the VP1 protein. Interestingly, compared with known CKoV strains in the GenBank database, Chinese CKoV strains have unique amino acid changes in VP0 and VP1 proteins. Moreover, the first Chinese CKoV nearly complete genome was successfully obtained from a diarrheic fecal sample, named SWUN/F11/2019. Compared with the two known CKoV strains, five aa mutations (S60A, L252I, V267T, I, V 306 L, V331I) were found in the VP0 gene and 7 aa mutations (S57N, G, T243A, V244I, T, A248V, L, S251A, R252H, and M255L) were found in VP1 in the SWUN/F11/2019 genome. This was the first report of the detection and molecular characteristics of CKoV from goats in China, which could be helpful for improving the understanding of the prevalence and genetic evolution of CKoV.


Assuntos
Doenças das Cabras/virologia , Kobuvirus/classificação , Kobuvirus/genética , Infecções por Picornaviridae/veterinária , Animais , China/epidemiologia , Genes Virais , Genoma Viral , Genômica/métodos , Doenças das Cabras/diagnóstico , Doenças das Cabras/epidemiologia , Cabras , Kobuvirus/isolamento & purificação , Filogenia , RNA Viral , Fatores de Virulência
10.
Res Vet Sci ; 132: 404-406, 2020 Oct.
Artigo em Inglês | MEDLINE | ID: mdl-32763569

RESUMO

Porcine Kobuvirus (PKV) infection is very common in pigs throughout the world. Since it has never been investigated in Serbia, to contribute to the knowledge of Porcine Kobuvirus, its role, and distribution, we tested 200 samples from domestic pigs and wild boars. From domestic pigs, 10 fecal, 22 spleen and 68 serum samples, and 100 spleen samples from wild boars were tested. The virus prevalence determined by real-time RT-PCR in domestic pigs was 22% and in wild boars 6%. The phylogenetic analysis of 3D region revealed that Serbian strains are closest related to the Hungarian strain from wild boar from 2011. This is the first report on PKV in Serbia in domestic pigs and wild boars, implying its wide circulation. Although the infection could not be directly related to any clinical manifestation, the frequency of virus found in feces suggests viral affinity to the gastrointestinal tract. However, due to the rather ubiquitous presence of PKV, the clinical and pathological assessment have to be considered when PKV infection is diagnosed.


Assuntos
Kobuvirus/isolamento & purificação , Infecções por Picornaviridae/veterinária , Doenças dos Suínos/epidemiologia , Animais , Feminino , Kobuvirus/classificação , Kobuvirus/genética , Filogenia , Infecções por Picornaviridae/epidemiologia , Infecções por Picornaviridae/virologia , Reação em Cadeia da Polimerase/veterinária , Prevalência , Sérvia/epidemiologia , Sus scrofa , Suínos , Doenças dos Suínos/virologia
11.
J Virol Methods ; 285: 113944, 2020 11.
Artigo em Inglês | MEDLINE | ID: mdl-32730841

RESUMO

Canine kobuvirus (CaKoV) is a causative agent of gastroenteritis in dogs. Rapid detection of CaKoV is important for preventing and controlling this condition. In this study, an SYBR Green I-based quantitative real-time PCR assay was established for CaKoV detection. Specific primers targeting a highly conserved region of the CaKoV 3D gene were developed. After optimization, the method detected a minimum of 1 × 101 copies/µL with high specificity, stability, and repeatability. Moreover, the entire process only required approximately 1.5 h for completion. Our results were supported by those obtained for clinical samples, in which our developed method was successfully applied. The newly established real-time PCR is a rapid, sensitive, specific, and repeatable method for the quantitative detection of CaKoV and can, therefore, be used in epidemiological studies.


Assuntos
Doenças do Cão/diagnóstico , Gastroenterite , Kobuvirus/isolamento & purificação , Infecções por Picornaviridae , Reação em Cadeia da Polimerase em Tempo Real/métodos , Animais , Benzotiazóis/química , Diaminas/química , Diarreia/virologia , Cães , Fezes/virologia , Gastroenterite/diagnóstico , Gastroenterite/veterinária , Infecções por Picornaviridae/diagnóstico , Infecções por Picornaviridae/veterinária , Quinolinas/química , Sensibilidade e Especificidade
12.
Food Environ Virol ; 12(3): 269-273, 2020 09.
Artigo em Inglês | MEDLINE | ID: mdl-32666473

RESUMO

Monthly sampling was conducted at a drinking water treatment plant (DWTP) in Southern Louisiana, USA from March 2017 to February 2018 to determine the prevalence and reduction efficiency of pathogenic and indicator viruses. Water samples were collected from the DWTP at three different treatment stages (raw, secondary-treated, and chlorinated drinking water) and subjected to quantification of seven pathogenic viruses and three indicator viruses [pepper mild mottle virus (PMMoV), tobacco mosaic virus (TMV), and crAssphage] based on quantitative polymerase chain reaction. Among the seven pathogenic viruses tested, only Aichi virus 1 (AiV-1) (7/12, 58%) and noroviruses of genogroup II (NoVs-GII) (2/12, 17%) were detected in the raw water samples. CrAssphage had the highest positive ratio at 78% (28/36), and its concentrations were significantly higher than those of the other indicator viruses for all three water types (P < 0.05). The reduction ratios of AiV-1 (0.7 ± 0.5 log10; n = 7) during the whole treatment process were the lowest among the tested viruses, followed by crAssphage (1.1 ± 1.9 log10; n = 9), TMV (1.3 ± 0.9 log10; n = 8), PMMoV (1.7 ± 0.8 log10; n = 12), and NoVs-GII (3.1 ± 0.1 log10; n = 2). Considering the high abundance and relatively low reduction, crAssphage was judged to be an appropriate process indicator during drinking water treatment. To the best of our knowledge, this is the first study to assess the reduction of crAssphage and TMV during drinking water treatment.


Assuntos
Água Potável/virologia , Enterovirus/crescimento & desenvolvimento , Kobuvirus/crescimento & desenvolvimento , Vírus do Mosaico do Tabaco/crescimento & desenvolvimento , Tobamovirus/crescimento & desenvolvimento , Enterovirus/genética , Enterovirus/isolamento & purificação , Kobuvirus/genética , Kobuvirus/isolamento & purificação , Vírus do Mosaico do Tabaco/genética , Vírus do Mosaico do Tabaco/isolamento & purificação , Tobamovirus/genética , Tobamovirus/isolamento & purificação , Poluição da Água/análise , Purificação da Água
13.
BMC Microbiol ; 20(1): 94, 2020 04 15.
Artigo em Inglês | MEDLINE | ID: mdl-32295529

RESUMO

BACKGROUND: Murine kobuviruses (MuKV) are newly recognized picornaviruses first detected in murine rodents in the USA in 2011. Little information on MuKV epidemiology in murine rodents is available. Therefore, we conducted a survey of the prevalence and genomic characteristics of rat kobuvirus in Guangdong, China. RESULTS: Fecal samples from 223 rats (Rattus norvegicus) were collected from Guangdong and kobuviruses were detected in 12.6% (28) of samples. Phylogenetic analysis based on partial 3D and complete VP1 sequence regions showed that rat kobuvirus obtained in this study were genetically closely related to those of rat/mouse kobuvirus reported in other geographical areas. Two near full-length rat kobuvirus genomes (MM33, GZ85) were acquired and phylogenetic analysis of these revealed that they shared very high nucleotide/amino acids identity with one another (95.4%/99.4%) and a sewage-derived sequence (86.9%/93.5% and 87.5%/93.7%, respectively). Comparison with original Aichivirus A strains, such human kobuvirus, revealed amino acid identity values of approximately 80%. CONCLUSION: Our findings indicate that rat kobuvirus have distinctive genetic characteristics from other Aichivirus A viruses. Additionally, rat kobuvirus may spread via sewage.


Assuntos
Genoma Viral , Kobuvirus/classificação , Infecções por Picornaviridae/epidemiologia , Sequenciamento Completo do Genoma/métodos , Animais , Proteínas do Capsídeo/genética , China/epidemiologia , Fezes/virologia , Kobuvirus/genética , Kobuvirus/isolamento & purificação , Filogenia , Infecções por Picornaviridae/veterinária , Prevalência , Ratos , Análise de Sequência de RNA , Esgotos/virologia
14.
Transbound Emerg Dis ; 67(2): 678-685, 2020 Mar.
Artigo em Inglês | MEDLINE | ID: mdl-31597013

RESUMO

The major enteric RNA viruses in pigs include porcine epidemic diarrhoea virus (PEDV), transmissible gastroenteritis virus (TGEV), porcine rotavirus A (PRV-A), porcine kobuvirus (PKV), porcine sapovirus (PSaV) and porcine deltacoronavirus (PDCoV). For differential diagnosis, a multiplex RT-PCR method was established on the basis of the N genes of TGEV, PEDV and PDCoV, the VP7 gene of PRV-A, and the polyprotein genes of PKV and PSaV. This multiplex RT-PCR could specifically detect TGEV, PEDV, PDCoV, PRV-A, PKV and PSaV without cross-reaction to any other major viruses circulating in Chinese pig farms. The limit of detection of this method was as low as 100 -101  ng cDNA of each virus. A total of 398 swine faecal samples collected from nine provinces of China between October 2015 and April 2017 were analysed by this established multiplex RT-PCR. The results demonstrated that PDCoV (144/398), PSaV (114/398), PEDV (78/398) and PRV-A (70/398) were the main pathogens, but TGEV was not found in the pig herds in China. In addition, dual infections, for example, PDCoV + PSaV, PDCoV + PRV-A, PRA-V + PSaV and PEDV + PDCoV, and triple infections, for example, PDCoV + PRV-A + PSaV and PEDV + PDCoV + PKV, were found among the collected samples. The multiplex RT-PCR provided a valuable tool for the differential diagnosis of swine enteric viruses circulating in Chinese pig farms and will facilitate the prevention and control of swine diarrhoea in China.


Assuntos
Infecções por Coronavirus/veterinária , Diarreia/veterinária , Reação em Cadeia da Polimerase Multiplex/veterinária , Doenças dos Suínos/diagnóstico , Animais , China/epidemiologia , Infecções por Coronavirus/diagnóstico , Infecções por Coronavirus/epidemiologia , Infecções por Coronavirus/virologia , Diagnóstico Diferencial , Diarreia/diagnóstico , Diarreia/prevenção & controle , Diarreia/virologia , Fezes/virologia , Gastroenterite Suína Transmissível/virologia , Kobuvirus/genética , Kobuvirus/isolamento & purificação , Vírus da Diarreia Epidêmica Suína/genética , Vírus da Diarreia Epidêmica Suína/isolamento & purificação , Reação em Cadeia da Polimerase Via Transcriptase Reversa/veterinária , Rotavirus/genética , Rotavirus/isolamento & purificação , Sensibilidade e Especificidade , Suínos , Doenças dos Suínos/epidemiologia , Doenças dos Suínos/virologia
15.
Acta Vet Hung ; 67(3): 463-476, 2019 09.
Artigo em Inglês | MEDLINE | ID: mdl-31549549

RESUMO

The involvement of picornaviruses in calf diarrhoea was evaluated by the analysis of 127 faecal samples collected from diarrhoeic calves during 2014-2016. Virus detections were carried out by PCR using generic or specific primer pairs. One-third of the faecal samples (33.86%) were found to be positive for one or more of the studied viruses. Bovine kobuvirus was detected in 22.83%, bovine hungarovirus in 11.02%, while bovine enterovirus 1 in 5.51% of the samples. The sequences of the PCR products indicated the existence of novel variants in all the three virus species. When comparing the partial sequences, the nucleotide sequence identities between our newly detected viruses and those previously deposited to the GenBank ranged between 76 and 99%. Phylogenetic analyses revealed a novel lineage within the species Hunnivirus A. Our findings suggest that these viruses should be regarded as possible aetiological agents of calf diarrhoea. Based on the newly determined sequences, we designed and tested a new generic PCR primer set for the more reliable detection of bovine hungaroviruses. This is the first report on the molecular detection of the presence of bovine hungarovirus, bovine kobuvirus and bovine enterovirus 1 in the faecal samples of diarrhoeic calves in Turkey.


Assuntos
Doenças dos Bovinos/virologia , Diarreia/veterinária , Infecções por Picornaviridae/veterinária , Picornaviridae/isolamento & purificação , Animais , Bovinos , Diarreia/virologia , Enterovirus Bovino/genética , Enterovirus Bovino/isolamento & purificação , Kobuvirus/genética , Kobuvirus/isolamento & purificação , Picornaviridae/genética , Infecções por Picornaviridae/virologia , Turquia
16.
Vet Microbiol ; 235: 319-326, 2019 Aug.
Artigo em Inglês | MEDLINE | ID: mdl-31383319

RESUMO

Porcine kobuviruses are widely distributed in swine, but the clinical significance of these viruses remains unclear, since they have been associated with both diarrheic and healthy pigs. In addition, there is a paucity of data on Kobuvirus prevalence in Canadian pig herds. In this study, a total of 181 diarrheic and healthy piglets were monitored and sampled on four occasions, intended to represent the different stages of production. The piglets were sampled at the nursing farms (birth to weaning stage), at the nursery farms (post-weaning stage), and at finishing farms (at the beginning and the end of the fattening stage). Fecal and environmental samples were collected during each life stage. Following viral extraction, Kobuvirus detection by RT-PCR was conducted, and positive samples were sequenced. During the late-nursing stage (6-21 days old), piglets with diarrhea shed more Kobuvirus than healthy individuals. Piglets shed more Kobuvirus during the post-weaning stage (nursery farms) than during any of the other life stages. This was evidenced in individual samples as well as in environmental samples. Over 97% of the sampled piglets shed Kobuvirus at least once in their lifetime. All piglets shedding a Kobuvirus strain or mix of strains at the nursing stage did not appear to shed another porcine kobuvirus strain at a later life stage. Overall, our findings throw light on Kobuvirus shedding dynamics and their potential role in neonatal diarrhea at the nursing stage, which appears to be the point of entry for kobuviruses into swine production systems.


Assuntos
Diarreia/veterinária , Kobuvirus/fisiologia , Infecções por Picornaviridae/veterinária , Doenças dos Suínos/virologia , Eliminação de Partículas Virais , Fatores Etários , Animais , Diarreia/virologia , Fazendas , Fezes/virologia , Kobuvirus/isolamento & purificação , Filogenia , Infecções por Picornaviridae/virologia , RNA Viral , Análise de Sequência de DNA , Suínos , Desmame
17.
J Clin Virol ; 118: 14-19, 2019 09.
Artigo em Inglês | MEDLINE | ID: mdl-31382225

RESUMO

BACKGROUND: In recent years, Aichi virus (AiV) has been involved in acute viral gastroenteritis outbreaks. However, the common pathogenesis of AiV releases more in subclinical infections underestimating the impact of AiV in human health. OBJECTIVES: The present study describes the presence and genetic diversity of AiV in patients with gastroenteritis in Northwestern Spain. STUDY DESIGN: A total of 2667 stool samples, obtained between July 2010 and June 2011, from diarrheic outpatients were studied for detection and molecular characterization of AiV using PCR techniques followed by sequencing and phylogenetic analyses. RESULTS: The virus was detected in 124 (5.0%) of the samples among all age groups. Coinfections were also detected, from the 124 positive samples, 72 (58.1%) were positive only for AiV, whereas mixed contaminations with Norovirus genogroup I or genogroup II, Sapovirus, or other enteric pathogens were detected in 52 (41.9%) samples. A total of 70 positive samples could be genotyped, being characterized as genotype A (58.6%) or B (41.4%). AiV was detected from August to April, being the highest number of AiV positive samples detected during autumn and winter seasons. CONCLUSIONS: This survey remarks the importance of emerging enteric viruses in patients who require medical assistance, and offers more information about the real importance of AiV as gastroenteritis agent.


Assuntos
Fezes/virologia , Gastroenterite/epidemiologia , Gastroenterite/virologia , Kobuvirus/isolamento & purificação , Pacientes Ambulatoriais , Infecções por Picornaviridae/epidemiologia , Infecções por Picornaviridae/virologia , Adolescente , Adulto , Idoso , Idoso de 80 Anos ou mais , Criança , Pré-Escolar , Coinfecção/epidemiologia , Coinfecção/virologia , Diarreia/epidemiologia , Diarreia/virologia , Feminino , Genótipo , Técnicas de Genotipagem , Humanos , Lactente , Recém-Nascido , Kobuvirus/classificação , Kobuvirus/genética , Masculino , Pessoa de Meia-Idade , Filogenia , Reação em Cadeia da Polimerase , Análise de Sequência de DNA , Espanha/epidemiologia , Adulto Jovem
18.
Arch Iran Med ; 22(5): 242-246, 2019 05 01.
Artigo em Inglês | MEDLINE | ID: mdl-31256596

RESUMO

BACKGROUND: Aichi virus (AiV) is an emerging virus, which belongs to Kobuvirus genus of the Picornaviridae family. AiV was recently determined as an etiologic agent of gastroenteritis in susceptible humans. After shedding of virus particles from affected people, AiV particles can contaminate water sources. Then, infection with this virus occurs in humans by the fecal-oral route after exposure with contaminated waters. Thus far, some research around the world demonstrated that different kinds of water sources including river water, ground water and treated or untreated sewage water have contamination with AiVs. Molecular detection of AiV has been mostly depended on reverse transcription polymerase chain reaction (RT-PCR) methods, which targeted 3CD junction region of the virus genome. METHODS: The present study aims to assess the molecular detection of AiVs in treated and untreated sewage water and river water specimens by the development of reverse transcription-quantitative PCR (RT-qPCR) assay for all AiV genotypes. RESULTS: Out of 50 samples tested (consisting of 28 river water samples and 22 sewage water samples), the AiV genomic RNA was identified in 15/28 (~50%) river water samples and in 14/22 (~70%) sewage samples. CONCLUSION: Our results, for the first time, indicate that AiVs have been circulating in Iran.


Assuntos
Kobuvirus/isolamento & purificação , Reação em Cadeia da Polimerase Via Transcriptase Reversa/métodos , Rios/virologia , Esgotos/virologia , Genoma Viral , Humanos , Irã (Geográfico) , Poluição da Água/análise
19.
BMC Vet Res ; 15(1): 254, 2019 Jul 19.
Artigo em Inglês | MEDLINE | ID: mdl-31324182

RESUMO

BACKGROUND: Canine Kobuvirus (CaKoV) has been detected both in healthy and diarrheic dogs and in asymptomatic wild carnivores. In this study, we conducted a survey of CaKoV at small animal hospitals in Bangkok and vicinity of Thailand during September 2016 to September 2018. RESULTS: Three hundred and seven rectal swab samples were collected from healthy dogs (n = 55) and dogs with gastroenteritis symptoms (n = 252). Of 307 swab samples tested by using one-step RT-PCR specific to 3D gene, we found CaKoV positivity at 17.59% (54/307). CaKoVs could be detected in both sick (19.44%) and healthy (9.09%) animals. In relation to age group, CaKoV could be frequently detected in younger dogs (25.45%). Our result showed no seasonal pattern of CaKoV infection in domestic dogs. In this study, we characterized CaKoVs by whole genome sequencing (n = 4) or 3D and VP1 gene sequencing (n = 8). Genetic and phylogenetic analyses showed that whole genomes of Thai CaKoVs were closely related to Chinese CaKoVs with highest 99.5% amino acid identity suggesting possible origin of CaKoVs in Thailand. CONCLUSIONS: In conclusion, this study was the first to report the detection and genetic characteristics of CaKoVs in domestic dogs in Thailand. CaKoVs could be detected in both sick and healthy dogs. The virus is frequently detected in younger dogs. Thai CaKoVs were genetically closely related and grouped with Chinese CaKoVs. Our result raises the concerns to vet practitioners that diarrhea in dogs due to canine Kobuvirus infection should not be ignored.


Assuntos
Doenças do Cão/virologia , Kobuvirus/genética , Infecções por Picornaviridae/veterinária , Sequência de Aminoácidos , Animais , Doenças do Cão/epidemiologia , Cães , Gastroenterite/veterinária , Genoma Viral , Kobuvirus/isolamento & purificação , Filogenia , Infecções por Picornaviridae/epidemiologia , Infecções por Picornaviridae/virologia , Tailândia/epidemiologia
20.
Infect Genet Evol ; 74: 103939, 2019 10.
Artigo em Inglês | MEDLINE | ID: mdl-31247336

RESUMO

In this study, 96 diarrheic and 77 non-diarrheic fecal samples from dairy calves were collected from 14 dairy farms in 4 provinces to investigate the molecular prevalence and genomic characteristics of Bovine Kobuvirus (BKoV) in China. The results showed that the BKoV positive rate for the diarrheic feces (35.42%) was significantly higher than that for the non-diarrheic feces (11.69%, p < 0.001). Interestingly, three potential novel VP1 lineages were identified from 15 complete VP1 sequences, and a unique triple nucleotide insertion which can result in an aa insertion, was first observed in the 11/12 VP0 fragments with 660 bp long in this study, compared with known BKoV VP0 sequences. Moreover, the first Chinese BKoV genome was successfully obtained from a diarrheic fecal sample, named CHZ/CHINA. The open reading frame (ORF) of the genome from strain CHZ/China shares 87.4%-88.3% nucleotide (nt) and 93.7%-96.4% amino acid (aa) identity, compared with the three known genomes of BKoV. Interestingly, phylogenetic tree based on aa sequences of these genomes showed that CHZ/CHINA was clustered into an independent branch, suggesting the strain may represent a novel BKoV strain. The findings contribute to better understanding the molecular characteristics and evolution of BKoV.


Assuntos
Doenças dos Bovinos/virologia , Diarreia/veterinária , Kobuvirus/classificação , Infecções por Picornaviridae/veterinária , Sequenciamento Completo do Genoma/métodos , Animais , Estudos de Casos e Controles , Bovinos , Diarreia/virologia , Fezes/virologia , Tamanho do Genoma , Genoma Viral , Kobuvirus/genética , Kobuvirus/isolamento & purificação , Filogenia , Infecções por Picornaviridae/virologia , RNA Viral/genética
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