Bats host many viruses pathogenic to humans, and increasing evidence suggests that rotavirus A (RVA) also belongs to this list. Rotaviruses cause diarrheal disease in many mammals and birds, and their segmented genomes allow them to reassort and increase their genetic diversity. Eighteen out of 2,142 bat fecal samples (0.8%) collected from Europe, Central America, and Africa were PCR-positive for RVA, and 11 of those were fully characterized using viral metagenomics. Upon contrasting their genomes with publicly available data, at least 7 distinct bat RVA genotype constellations (GCs) were identified, which included evidence of reassortments and 6 novel genotypes. Some of these constellations are spread across the world, whereas others appear to be geographically restricted. Our analyses also suggest that several unusual human and equine RVA strains might be of bat RVA origin, based on their phylogenetic clustering, despite various levels of nucleotide sequence identities between them. Although SA11 is one of the most widely used reference strains for RVA research and forms the backbone of a reverse genetics system, its origin remained enigmatic. Remarkably, the majority of the genotypes of SA11-like strains were shared with Gabonese bat RVAs, suggesting a potential common origin. Overall, our findings suggest an underexplored genetic diversity of RVAs in bats, which is likely only the tip of the iceberg. Increasing contact between humans and bat wildlife will further increase the zoonosis risk, which warrants closer attention to these viruses.IMPORTANCE The increased research on bat coronaviruses after severe acute respiratory syndrome coronavirus (SARS-CoV) and Middle East respiratory syndrome coronavirus (MERS-CoV) allowed the very rapid identification of SARS-CoV-2. This is an excellent example of the importance of knowing viruses harbored by wildlife in general, and bats in particular, for global preparedness against emerging viral pathogens. The current effort to characterize bat rotavirus strains from 3 continents sheds light on the vast genetic diversity of rotaviruses and also hints at a bat origin for several atypical rotaviruses in humans and animals, implying that zoonoses of bat rotaviruses might occur more frequently than currently realized.
- Klíčová slova
- SA11, Viral metagenomics, bat rotavirus, rotavirus genetic diversity, zoonosis,
- MeSH
- Chiroptera virologie MeSH
- COVID-19 přenos virologie MeSH
- fylogeneze MeSH
- genetická variace MeSH
- genom virový MeSH
- genotyp MeSH
- koně MeSH
- koronavirus MERS izolace a purifikace MeSH
- lidé MeSH
- metagenomika MeSH
- průjem virologie MeSH
- rotavirové infekce přenos virologie MeSH
- Rotavirus genetika MeSH
- SARS-CoV-2 izolace a purifikace MeSH
- zoonózy přenos virologie MeSH
- zvířata MeSH
- Check Tag
- lidé MeSH
- zvířata MeSH
- Publikační typ
- časopisecké články MeSH
- práce podpořená grantem MeSH
An unusual reassortant rotavirus A (RVA) strain was isolated during RVA surveillance in two previously hospitalized children in 2018. G/P typing revealed uncommon G9P[4] genotypes, so the strains were further characterized by Illumina next-generation sequencing. Whole-genome typing showed that the two strains had a DS-1-like backbone except for NSP2: G9-P[4]-I2-R2-C2-M2-A2-N1-T2-E2-H2. The two strains shared 99.9-100% nucleotide sequence identity in all genes.
- MeSH
- fylogeneze MeSH
- genom virový MeSH
- kojenec MeSH
- lidé MeSH
- rotavirové infekce virologie MeSH
- Rotavirus klasifikace genetika izolace a purifikace MeSH
- sekvence nukleotidů MeSH
- sekvenování celého genomu MeSH
- Check Tag
- kojenec MeSH
- lidé MeSH
- ženské pohlaví MeSH
- Publikační typ
- časopisecké články MeSH
- Geografické názvy
- Česká republika MeSH
OBJECTIVE: Group A rotavirus (RVA) is one of leading causes of gastroenteritis in children under five years of age and is also an important nosocomial pathogen. In Europe, the most prevalent genotypes of RVA are G1P[8], G2P[4], G3P[8], G4P[8], G9P[8] and G12P[8]. Severe dehydration is the most important complication of RVA gastroenteritis. Each year, rotavirus infection is responsible for 3,000 to 5,000 hospitalizations of children in the Czech Republic. The aim of this study was to detect rotaviruses in patients with suspected acute viral gastroenteritis. METHODS: A total of 1 566 stool samples were obtained from patients with acute gastroenteritis from March 2016 to December 2018. All samples were tested by the enzyme immunoassay, rapid immunochromatographic test and quantitative reverse transcription PCR assay to detect RVA. All RVA positive samples were G- and P-typed by Sanger sequencing. RESULTS AND CONCLUSION: RVA was detected in 13.7 % of the samples (214/1566). The incidence of RVA was 58.9 % (126/214) in males and 41.1 % (88/214) in females. The percentages of positivity ranged from 1 % to 33 % in different age groups. The highest proportion of positive patients was in the age group 4-5 years, 32.6 % (30/92). There was a significant difference in the incidence of rotaviruses between different age groups (p = 0.3946). The prevalent RVA genotypes were G1P[8], G9P[8], G3P[8], G2P[4] and G8P[8]. The detection of the G8P[8] genotype was unusual. The obtained results show that despite the possibility of vaccination, the incidence of RVA infection remains high in the Czech Republic.
- MeSH
- dítě MeSH
- genotyp MeSH
- imunoanalýza MeSH
- imunoenzymatické techniky MeSH
- incidence MeSH
- klinické laboratorní techniky * normy MeSH
- kojenec MeSH
- lidé MeSH
- polymerázová řetězová reakce s reverzní transkripcí MeSH
- předškolní dítě MeSH
- RNA virová genetika MeSH
- rotavirové infekce * diagnóza epidemiologie patologie virologie MeSH
- Rotavirus * genetika izolace a purifikace MeSH
- Check Tag
- dítě MeSH
- kojenec MeSH
- lidé MeSH
- mužské pohlaví MeSH
- předškolní dítě MeSH
- ženské pohlaví MeSH
- Publikační typ
- časopisecké články MeSH
- Geografické názvy
- Česká republika epidemiologie MeSH
- Názvy látek
- RNA virová MeSH
Group A Rotaviruses (RVA) are the leading cause of acute gastroenteritis in children and a major cause of childhood mortality in low-income countries. RVAs are mostly host-specific, but interspecies transmission and reassortment between human and animal RVAs significantly contribute to their genetic diversity. We investigated the VP7 and VP4 genotypes of RVA isolated from 225 stool specimens collected from Czech patients with gastroenteritis during 2016-2019. The most abundant genotypes were G1P[8] (42.7%), G3P[8] (11.1%), G9P[8] (9.8%), G2P[4] (4.4%), G4P[8] (1.3%), G12P[8] (1.3%), and, surprisingly, G8P[8] (9.3%). Sequence analysis of G8P[8] strains revealed the highest nucleotide similarity of all Czech G8 sequences to the G8P[8] rotavirus strains that were isolated in Vietnam in 2014/2015. The whole-genome backbone of the Czech G8 strains was determined with the use of next-generation sequencing as DS-1-like. Phylogenetic analysis of all segments clustered the Czech isolates with RVA strains that were formerly described in Southeast Asia, which had emerged following genetic reassortment between bovine and human RVAs. This is the first time that bovine-human DS1-like G8P[8] strains were detected at a high rate in human patients in Central Europe. Whether the emergence of this unusual genotype reflects the establishment of a new RVA strain in the population requires the continuous monitoring of rotavirus epidemiology.
- Klíčová slova
- Central Europe, G8, bovine–human reassortants, gastroenteritis, rotavirus A,
- MeSH
- antigeny virové genetika MeSH
- feces virologie MeSH
- fylogeneze MeSH
- gastroenteritida epidemiologie virologie MeSH
- genom virový genetika MeSH
- genotyp MeSH
- lidé MeSH
- prevalence MeSH
- reassortantní viry genetika izolace a purifikace MeSH
- RNA virová genetika MeSH
- rotavirové infekce epidemiologie virologie MeSH
- Rotavirus genetika izolace a purifikace MeSH
- skot MeSH
- virové plášťové proteiny genetika MeSH
- zvířata MeSH
- Check Tag
- lidé MeSH
- skot MeSH
- zvířata MeSH
- Publikační typ
- časopisecké články MeSH
- multicentrická studie MeSH
- práce podpořená grantem MeSH
- Geografické názvy
- Česká republika epidemiologie MeSH
- Názvy látek
- antigeny virové MeSH
- RNA virová MeSH
- virové plášťové proteiny MeSH
- VP4 protein, Rotavirus MeSH Prohlížeč
- VP7 protein, Rotavirus MeSH Prohlížeč
Population of wild boar is increasing in the whole Europe, the animals migrate close to human habitats which greatly increases the possibility of natural transmission between domestic animals or humans and wild boars. The aim of the study was to estimate in population of free-living wild boar in the Czech Republic the prevalence of enteric viral pathogens, namely rotavirus groups A and C (RVA and RVC), porcine reproductive and respiratory syndrome virus (PRRSV), and members of family Coronaviridae (transmissible gastroenteritis virus - TGEV, porcine epidemic diarrhea virus - PEDV, porcine respiratory coronavirus - PRCV, and porcine hemagglutination encephalomyelitis virus - PHEV) and Picornaviridae,(teschovirus A - PTV, sapelovirus A - PSV, and enterovirus G - EV-G). In our study, stool samples from 203 wild boars culled during hunting season 2014-2015 (from October to January) were examined by RT-PCR. RVA was detected in 2.5% of tested samples. Nucleotide analysis of VP7, VP4, and VP6 genes revealed that four RVA strains belong to G4P[25]I1, G4P[6]I5, G11P[13]I5, and G5P[13]I5 genotypes and phylogenetic analysis suggested close relation to porcine and human RVAs. The prevalence of RVC in wild boar population reached 12.8%, PTV was detected in 20.2%, PSV in 8.9%, and EV-G in 2.5% of samples. During our study no PRRSV or coronaviruses were detected. Our study provides the first evidence of RVC prevalence in wild boars and indicates that wild boars might contribute to the genetic variability of RVA and also serve as an important reservoir of other enteric viruses.
- Klíčová slova
- Enteric viruses, Phylogeny, RT-PCR, Rotavirus A, Wild boar,
- MeSH
- antigeny virové genetika MeSH
- Coronaviridae genetika izolace a purifikace MeSH
- feces virologie MeSH
- fylogeneze MeSH
- genotyp MeSH
- infekce viry z čeledi Coronaviridae epidemiologie veterinární virologie MeSH
- lidé MeSH
- nemoci prasat epidemiologie virologie MeSH
- Picornaviridae genetika izolace a purifikace MeSH
- pikornavirové infekce epidemiologie veterinární virologie MeSH
- prasata MeSH
- rotavirové infekce epidemiologie veterinární virologie MeSH
- Rotavirus genetika izolace a purifikace MeSH
- Sus scrofa MeSH
- virové plášťové proteiny genetika MeSH
- zdroje nemoci MeSH
- zvířata MeSH
- Check Tag
- lidé MeSH
- mužské pohlaví MeSH
- ženské pohlaví MeSH
- zvířata MeSH
- Publikační typ
- časopisecké články MeSH
- Geografické názvy
- Česká republika epidemiologie MeSH
- Názvy látek
- antigeny virové MeSH
- virové plášťové proteiny MeSH
- VP4 protein, Rotavirus MeSH Prohlížeč
- VP6 protein, Rotavirus MeSH Prohlížeč
- VP7 protein, Rotavirus MeSH Prohlížeč
Rotavirus C (RVC) is a cause of gastroenteritis in swine and has a worldwide distribution. A total of 448 intestinal or faecal samples from pigs of all ages were tested for viruses causing gastroenteritis. RVC was detected in 118 samples (26.3%). To gain information on virus diversity, the complete coding nucleotide sequences of the VP7, VP4, VP6, NSP2, NSP4, and NSP5 genes of seven RVC strains were determined. Phylogenetic analysis of VP7 nucleotide sequence divided studied Czech strains into six G genotypes (G1, G3, G5-G7, and a newly described G10 genotype) based on an 85% identity cutoff value at the nucleotide level. Analysis of the VP4 gene revealed low nucleotide sequence identities between two Czech strains and other porcine (72.2-75.3%), bovine (74.1-74.6%), and human (69.1-69.3%) RVC strains. Thus, we propose that those two Czech porcine strains comprise a new RVC VP4 genotype, P8. Analysis of the VP6 gene showed 79.9-86.8% similarity at the nucleotide level between the Czech strains and other porcine RVC strains. According to the 87% identity cutoff value, we propose the existence of three new RVC VP6 genotypes, I8-I10. Analysis of the NSP4 gene divided porcine RVC strains into two clusters (the E1 genotype and the new E4 genotype, based on an 85% nucleotide sequence identity cutoff value). Our results indicate a degree of high genetic heterogeneity, not only in the variable VP7 and VP4 genes encoding the outer capsid proteins, but also in more-conserved genes encoding the inner capsid protein VP6 and the non-structural proteins NSP2, NSP4, and NSP5. This emphasizes the need for a whole-genome-sequence-based classification system.
- MeSH
- fylogeneze * MeSH
- genetická variace * MeSH
- lidé MeSH
- molekulární sekvence - údaje MeSH
- nemoci prasat virologie MeSH
- nemoci skotu virologie MeSH
- prasata MeSH
- rotavirové infekce veterinární virologie MeSH
- Rotavirus chemie klasifikace genetika izolace a purifikace MeSH
- sekvence aminokyselin MeSH
- sekvence nukleotidů MeSH
- sekvenční analýza DNA MeSH
- sekvenční homologie aminokyselin MeSH
- skot MeSH
- virové proteiny chemie genetika MeSH
- zvířata MeSH
- Check Tag
- lidé MeSH
- skot MeSH
- zvířata MeSH
- Publikační typ
- časopisecké články MeSH
- práce podpořená grantem MeSH
- Geografické názvy
- Česká republika MeSH
- Názvy látek
- virové proteiny MeSH
Rotaviruses are significant enteric pathogens of humans and animals. Rotavirus-associated mortality is still high in children, especially in developing countries. Rotaviruses also account for important economic losses due to gastrointestinal disease of livestock animals, notably of young cattle and pigs. Increasing numbers of different rotavirus strains stress the necessity of their uniform nomenclature and detailed classification with the use of whole-genome sequencing. Phylogenetic analyses of the rotavirus genome reveal repeated intersections between the evolution of human and animal rotavirus strains which is probably a consequence of multiple events of transmission among various animal species. The interspecies transmission and subsequent gene reassortment are important mechanisms driving the diversity of rotaviruses and enabling the emergence of new pathogenic strains.
- Klíčová slova
- rotavirus - gastroenteritis - zoonotic transmission - gene reassortment.,
- MeSH
- dítě MeSH
- dobytek MeSH
- fylogeneze MeSH
- genom virový genetika MeSH
- lidé MeSH
- prasata MeSH
- rotavirové infekce přenos virologie MeSH
- Rotavirus genetika fyziologie MeSH
- skot MeSH
- zoonózy přenos MeSH
- zvířata MeSH
- Check Tag
- dítě MeSH
- lidé MeSH
- skot MeSH
- zvířata MeSH
- Publikační typ
- časopisecké články MeSH
- přehledy MeSH
The surveillance study of rotavirus gastroenteritis at the University Teaching Hospital Trenčín area, Slovakia, during 2006-2011 confirmed that the genotype profile of circulating rotaviruses was not stable. While G1P[8] dominating genotype dropped from 75 to 7.3 % in the period 2009-2011, genotype G2P[4] that was not detected in 2009 raised to 45.1 % in 2011. Vaccination coverage rose from 4.4 to 22.1 % in the period 2008-2011. Among the community and hospital cases, we observed that the average age of patients with nosocomial infections was significantly less (10.6 months) than in the cases of community rotavirus gastroenteritis (RVGE) cases. Compared to the nosocomial infection cases, the duration of the disease and the duration of hospitalization among the community cases were significantly longer by 0.22 and 3.63 days, respectively, during 2006-2011. Though the vaccination coverage was found to correlate with changes in the type of the circulating rotaviruses, the natural circulation in rotavirus genotypes may not be excluded as important factor contributing to the emergence of G2P[4] strain during the survey period.
- MeSH
- gastroenteritida epidemiologie virologie MeSH
- genotyp MeSH
- infekce spojené se zdravotní péčí epidemiologie virologie MeSH
- infekce získané v komunitě epidemiologie virologie MeSH
- lidé MeSH
- molekulární epidemiologie MeSH
- rotavirové infekce epidemiologie virologie MeSH
- Rotavirus klasifikace genetika izolace a purifikace MeSH
- Check Tag
- lidé MeSH
- Publikační typ
- časopisecké články MeSH
- Geografické názvy
- Slovenská republika epidemiologie MeSH
Group C rotavirus (RVC) has been described to be a causative agent of gastroenteritis in humans and animals. In the current study, the presence of porcine RVC was confirmed in 25.6 % of 293 porcine faecal samples collected from seven Czech farms. A significantly larger (p < 0.05) number of RVC-positive samples was detected in groups of finisher pigs and post-weaning piglets (4-12 weeks of age). Phylogenetic analysis of nine RVC-positive Czech strains and their comparison with available sequence data for the gene encoding RVC group antigen VP6 revealed two separate lineages within porcine cluster I1.
- MeSH
- antigeny virové genetika MeSH
- feces virologie MeSH
- fylogeneze MeSH
- genetická variace MeSH
- lidé MeSH
- nemoci prasat epidemiologie virologie MeSH
- prasata MeSH
- prevalence MeSH
- rotavirové infekce epidemiologie veterinární virologie MeSH
- Rotavirus klasifikace MeSH
- shluková analýza MeSH
- virové plášťové proteiny genetika MeSH
- zvířata MeSH
- Check Tag
- lidé MeSH
- mužské pohlaví MeSH
- ženské pohlaví MeSH
- zvířata MeSH
- Publikační typ
- časopisecké články MeSH
- práce podpořená grantem MeSH
- Geografické názvy
- Česká republika epidemiologie MeSH
- Názvy látek
- antigeny virové MeSH
- virové plášťové proteiny MeSH
- VP6 protein, Rotavirus MeSH Prohlížeč
Analysis of 476 faecal samples from diarrhoeic piglets was performed using electron microscopy (EM) and a competitive blocking (CB)-ELISA based on monoclonal antibodies to the VP6 protein of group A rotavirus. Rotavirus was detected by EM and/or CB-ELISA in 111 (23.3%) samples. Of these, all groups of rotavirus were identified in 83 (74.8%) samples by EM (EM+), while group A rotavirus was identified in 90 (81.1%) samples by CB-ELISA (ELISA+). However, only 62 (55.9%) of samples were positive using both detection methods. The finding of 28 (25.2%) EM-/CB-ELISA+ samples illustrated the high sensitivity of the CB-ELISA method. On PCR analysis, groups B and C rotavirus was found in 3 and 16 of 19 EM+/CB-ELISA- samples, respectively. Although the study illustrates the high sensitivity of a CB-ELISA in rotavirus detection, the findings highlight the need to use a range of diagnostic methods in detecting these viruses in clinical samples.
- MeSH
- elektronová mikroskopie metody veterinární MeSH
- ELISA metody veterinární MeSH
- feces virologie MeSH
- nemoci prasat diagnóza virologie MeSH
- prasata MeSH
- průjem veterinární virologie MeSH
- rotavirové infekce diagnóza veterinární virologie MeSH
- Rotavirus izolace a purifikace MeSH
- senzitivita a specificita MeSH
- zvířata MeSH
- Check Tag
- zvířata MeSH
- Publikační typ
- časopisecké články MeSH
- práce podpořená grantem MeSH
- srovnávací studie MeSH
