scholarly journals Emergence of Rare Bovine–Human Reassortant DS-1-Like Rotavirus A Strains with G8P[8] Genotype in Human Patients in the Czech Republic

Viruses ◽  
2019 ◽  
Vol 11 (11) ◽  
pp. 1015 ◽  
Author(s):  
Moutelíková ◽  
Sauer ◽  
Dvořáková Heroldová ◽  
Holá ◽  
Prodělalová
Keyword(s):  
Low Income ◽  
Childhood Mortality ◽  
High Rate ◽  
Interspecies Transmission ◽  
Low Income Countries ◽  
The Czech Republic ◽  
Rotavirus A ◽  
Group A Rotaviruses ◽  
Group A ◽  
First Time

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.

scholarly journals Group A rotavirus surveillance before vaccine introduction in Italy, September 2014 to August 2017

2019 ◽  
Vol 24 (15) ◽  
Author(s):  
Giovanni Ianiro ◽  
Roberto Micolano ◽  
Ilaria Di Bartolo ◽  
Gaia Scavia ◽  
Marina Monini ◽  
...  
Keyword(s):  
Low Income ◽  
Acute Gastroenteritis ◽  
Paediatric Population ◽  
Low Income Countries ◽  
Mixed Infections ◽  
Genotype Distribution ◽  
Vaccine Introduction ◽  
Glycoprotein G ◽  
Group A Rotaviruses ◽  
Group A

Introduction Group A rotaviruses (RVA) are the leading cause of acute gastroenteritis (AGE) in young children, causing ca 250,000 deaths worldwide, mainly in low-income countries. Two proteins, VP7 (glycoprotein, G genotype) and VP4 (protease-sensitive protein, P genotype), are the basis for the binary RVA nomenclature. Although 36 G types and 51 P types are presently known, most RVA infections in humans worldwide are related to five G/P combinations: G1P[8], G2P[4], G3P[8], G4P[8], G9P[8]. Aim This study aimed to characterise the RVA strains circulating in Italy in the pre-vaccination era, to define the trends of circulation of genotypes in the Italian paediatric population. Methods Between September 2014 and August 2017, after routine screening in hospital by commercial antigen detection kit, 2,202 rotavirus-positive samples were collected in Italy from children hospitalised with AGE; the viruses were genotyped following standard European protocols. Results This 3-year study revealed an overall predominance of the G12P[8] genotype (544 of 2,202 cases; 24.70%), followed by G9P[8] (535/2,202; 24.30%), G1P[8] (459/2,202; 20.84%) and G4P[8] (371/2,202; 16.85%). G2P[4] and G3P[8] genotypes were detected at low rates (3.32% and 3.09%, respectively). Mixed infections accounted for 6.49% of cases (143/2,202), uncommon RVA strains for 0.41% of cases (9/2,202). Conclusions The emergence of G12P[8] rotavirus in Italy, as in other countries, marks this genotype as the sixth most common human genotype. Continuous surveillance of RVA strains and monitoring of circulating genotypes are important for a better understanding of rotavirus evolution and genotype distribution, particularly regarding strains that may emerge from reassortment events.

scholarly journals Detection and molecular characterization of reassortant DS-1-like G1P [8] strains of rotavirus A

2017 ◽  
Vol 62 (2) ◽  
pp. 91-96
Author(s):  
O. V. Morozova ◽  
T. A. Sashina ◽  
N. A. Novikova
Keyword(s):  
Phylogenetic Analysis ◽  
Nucleotide Sequences ◽  
Mutation Rates ◽  
Molecular Characteristics ◽  
Viral Gastroenteritis ◽  
Rotavirus A ◽  
Group A Rotaviruses ◽  
Group A ◽  
First Time

Group A rotaviruses (RVA) are the main cause of viral gastroenteritis in children worldwide. In this study we provide the molecular characteristics of reassortant DS-1-like G1P[8] RVA strains detected in Russia for the first time. Previously, such reassortant strains were detected in Japan and Thailand. The G1P[8] RVAs with DS-1-like short electropherotype RNA-PAGE were isolated from children hospitalised with an acute gastroenteritis during the 2013-2014 period. The DS-1-like G1P[8] strains accounted for 2.6% of all RVA strains detected continuously throughout the season. A phylogenetic analysis was made on the basis of the established nucleotide sequences of genes VP7, VP8* (VP4), VP6 and NSP4. The Nizhny Novgorod strains belong to G1-I and G1-II alleles of VP7 gene and to P[8]-3 allele of VP4. According to their VP6 sequences, two Russian samples clustered with the reassortant strains isolated in Japan, Thailand and Australia and two other strains were phylogenetically close to the typical G2P[4] DS-1-like RVA. Nucleotide sequences of G1P[8] strains that belong to NSP4 gene form a separate cluster from G3P[8] DS-1-like rotaviruses detected in Thailand and Australia. The RVA alleles included in Rotarix and RotaTeq vaccine strains were clustered separately from the studied reassortant RVAs. On the grounds of phylogenetic analysis we assume a polyphyletic origin of reassortants between Wa- and DS-1-like strains. Mutation rates evaluated by Bayesian inference in clusters with reassortant RVA strains were 1.004Е-3 (VP7), 1.227E-3 (VP4), 3.909E-4 (VP6), and 4.014Е-4 (NSP4). Analysis of tMRCA showed relatively contemporary origin of alleles DS-1-like G1P[8] rotaviruses: VP7 - 1998 (G1-I) and 1981 (G1-II), VP4 - 1998, VP6 - 1994, NSP4 - 1979.

scholarly journals Molecular Epidemiology of Rotavirus A Strains Pre- and Post-Vaccine (Rotarix®) Introduction in Mozambique, 2012–2019: Emergence of Genotypes G3P[4] and G3P[8]

Pathogens ◽  
2020 ◽  
Vol 9 (9) ◽  
pp. 671 ◽  
Author(s):  
Eva D. João ◽  
Benilde Munlela ◽  
Assucênio Chissaque ◽  
Jorfélia Chilaúle ◽  
Jerónimo Langa ◽  
...  
Keyword(s):  
Acute Diarrhea ◽  
Sentinel Site ◽  
Predominant Genotype ◽  
Post Vaccination ◽  
Rotavirus A ◽  
Strain Diversity ◽  
Monovalent Vaccine ◽  
Group A ◽  
Expanded Program On Immunization ◽  
First Time

Group A rotavirus (RVA) remains the most important etiological agent associated with severe acute diarrhea in children. Rotarix® monovalent vaccine was introduced into Mozambique’s Expanded Program on Immunization in September 2015. In the present study, we report the diversity and prevalence of rotavirus genotypes, pre- (2012–2015) and post-vaccine (2016–2019) introduction in Mozambique, among diarrheic children less than five years of age. Genotyping data were analyzed for five sentinel sites for the periods indicated. The primary sentinel site, Mavalane General Hospital (HGM), was analyzed for the period 2012–2019, and for all five sites (country-wide analyses), 2015–2019. During the pre-vaccine period, G9P[8] was the most predominant genotype for both HGM (28.5%) and the country-wide analysis (46.0%). However, in the post-vaccine period, G9P[8] was significantly reduced. Instead, G3P[8] was the most common genotype at HGM, while G1P[8] predominated country-wide. Genotypes G9P[4] and G9P[6] were detected for the first time, and the emergence of G3P[8] and G3P[4] genotypes were observed during the post-vaccine period. The distribution and prevalence of rotavirus genotypes were distinct in pre- and post-vaccination periods, while uncommon genotypes were also detected in the post-vaccine period. These observations support the need for continued country-wide surveillance to monitor changes in strain diversity, due to possible vaccine pressure, and consequently, the effect on vaccine effectiveness.

scholarly journals Human, porcine and bovine rotaviruses in Slovenia: evidence of interspecies transmission and genome reassortment

2008 ◽  
Vol 89 (7) ◽  
pp. 1690-1698 ◽  
Author(s):  
Andrej Steyer ◽  
Mateja Poljšak-Prijatelj ◽  
Darja Barlič-Maganja ◽  
Jožica Marin
Keyword(s):  
Amino Acid ◽  
Amino Acid Sequences ◽  
Zoonotic Transmission ◽  
Interspecies Transmission ◽  
Genotype Combination ◽  
Human Rotavirus ◽  
Group A Rotaviruses ◽  
Group A ◽  
Stool Samples ◽  
Genome Reassortment

A surveillance of human, porcine and bovine rotaviruses was carried out in Slovenia in 2004 and 2005. Stool samples were collected from a total of 406 pigs (373 from asymptomatic animals), 132 cattle (126 from asymptomatic animals) and 241 humans (all with diarrhoea), tested for group A rotaviruses using RT-PCR and analysed by sequencing. The aims of the study were to determine the incidence of asymptomatic rotavirus infection in animals, to look for evidence of zoonotic transmission and to detect reassortment among rotaviruses. The rates of asymptomatic shedding of rotaviruses in pigs and cattle were 18.0 % (67/373) and 4.0 % (5/126), respectively. Evidence for zoonotic transmission was detected in one human rotavirus strain, SI-MB6, with the G3P[6] genotype combination, as the nucleotide and predicted amino acid sequences of the VP6, VP7, VP8* and NSP4 genes of strain SI-MB6 and of porcine strains showed high nucleotide and amino acid sequence identity. Two porcine rotavirus strains carried VP7 of probable human origin, suggesting an interspecies reassortment event in the past.

scholarly journals Molecular Detection of Rotavirus in Mollusks from the Oued El Maleh Estuary of Mohammedia, Morocco

2021 ◽  
Author(s):  
Abderrahim Hatib ◽  
Najwa Hassou ◽  
Abdelouahab Benani ◽  
Jamal Eddine Hafid ◽  
Moulay Mustapha Ennaji
Keyword(s):  
Real Time ◽  
Enteric Bacteria ◽  
Human Populations ◽  
Rt Pcr ◽  
Wet Season ◽  
Rotavirus A ◽  
Viral Loads ◽  
Wide Range ◽  
Group A Rotaviruses ◽  
Group A

Viral outbreaks can result from the consumption of contaminated bivalve mollusks. However, despite the regulation related to enteric bacteria in food products, the consumption of raw and undercooked mollusks remains linked to viral epidemics in human populations. Real-time RT-PCR is a highly sensitive approach for detecting and quantifying enteric viruses, and after eliminating enzymatic amplification inhibitors from samples of interest, sensitive and specific tests, like real-time RT-PCR, can facilitate the detection and quantification of a wide range of viruses that are concentrated in mollusk digestive tissues. The aim of the present study was to evaluate the prevalence of Group-A rotaviruses in mussel (Mytilus edulis Linnaeus, 1758) specimens (n=576) collected downstream of the Oued El Maleh Estuary, which is along the coast of Mohammedia City in Morocco, using real-time RT-PCR. Rotavirus A RNA was detected in 37.5% (n=18) of the 48 sample batches, and viral loads ranged from 0.42×101 to 1.8603×104 genomic copies per g digestive tissue. Most (72.22%) of the positive samples were collected during the wet season (September-April), and the probability of detecting rotaviruses was significantly greater during the wet season than during the dry season (P<0.001). Monitoring Rotavirus A and similar viruses in shellfish may help prevent viral contamination and preserve public health.

scholarly journals Rapid, Cheap, and Effective COVID-19 Diagnostics for Africa

Diagnostics ◽  
2021 ◽  
Vol 11 (11) ◽  
pp. 2105
Author(s):  
Lukman Yusuf ◽  
Mark Appeaning ◽  
Taiwo Gboluwaga Amole ◽  
Baba Maiyaki Musa ◽  
Hadiza Shehu Galadanci ◽  
...  
Keyword(s):  
Low Income ◽  
Nucleic Acid Amplification ◽  
High Rate ◽  
Low Income Countries ◽  
Rt Pcr ◽  
Antibody Testing ◽  
Middle Income ◽  
Diagnostic Assays ◽  
Middle Income Countries ◽  
To Come

Background: Although comprehensive public health measures such as mass quarantine have been taken internationally, this has generally been ineffective, leading to a high infection and mortality rate. Despite the fact that the COVID-19 pandemic has been downgraded to epidemic status in many countries, the real number of infections is unknown, particularly in low-income countries. However, precision shielding is used in COVID-19 management, and requires estimates of mass infection in key groups. As a result, rapid tests for the virus could be a useful screening tool for asymptomatic virus shedders who are about to come into contact with sensitive groups. In Africa and other low- and middle-income countries there is high rate of COVID-19 under-diagnosis, due to the high cost of molecular assays. Exploring alternate assays to the reverse transcriptase polymerase chain reaction (RT-PCR) for COVID-19 diagnosis is highly warranted. Aim: This review explored the feasibility of using alternate molecular, rapid antigen, and serological diagnostic assays to accurately and precisely diagnose COVID-19 in African populations, and to mitigate severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) RT-PCR diagnostic challenges in Africa. Method: We reviewed publications from internet sources and searched for appropriate documents available in English. This included Medline, Google Scholar, and Ajol. We included primary literature and some review articles that presented knowledge on the current trends on SARS-CoV-2 diagnostics in Africa and globally. Results: Based on our analysis, we highlight the utility of four different alternatives to RT-PCR. These include two isothermal nucleic acid amplification assays (loop-mediated isothermal amplification (LAMP) and recombinase polymerase amplification (RPA)), rapid antigen testing, and antibody testing for tackling difficulties posed by SARS-CoV-2 RT-PCR testing in Africa. Conclusion: The economic burden associated COVID-19 mass testing by RT-PCR will be difficult for low-income nations to meet. We provide evidence for the utility and deployment of these alternate testing methods in Africa and other LMICs.

G and P types of bovine group A rotavirus in northern India

2015 ◽  
Vol 49 (6) ◽  
Author(s):  
Tripti Singh ◽  
Rashmi Singh ◽  
Ajay Pratap Singh ◽  
Y. P.S. Malik ◽  
Minakshi Prasad
Keyword(s):  
Interspecies Transmission ◽  
Buffalo Calves ◽  
Potential Threat ◽  
Specific Primers ◽  
Northern India ◽  
Faecal Samples ◽  
Group A Rotaviruses ◽  
Group A ◽  
Vp6 Gene ◽  
Faecal Suspension

Animal rotaviruses (RVs) are considered as a potential threat to humans due to possibility of interspecies transmission and exchange of genomic materials. Among several RVs, the group A rotaviruses (RVA) are the major cause of diarrhoea in cattle and buffalo calves worldwide. The present study was carried out to understand epidemiology and types of RVA circulating in Mathura region of northern India. One hundred faecal samples were collected from diarrhoeic cattle (n=94) and buffalo calves (n=6) from organized dairy farms. Viral RNA was extracted from faecal suspension and was transcribed to cDNA using RT-PCR. The cDNA was amplified for VP6, VP7 and VP4 genes and multiplex nested PCR was done for G and P genotyping. Twelve samples were detected positive for RVA by antigen detection ELISA and eleven samples produced expected amplicon for group A specific VP6 gene. On genotyping with G3, G6, G8 and G10 specific primers for VP7 gene and P [1] and P [11] specific primers for VP4 gene, G6 genotype predominated over other genotypes. Dual genotypes were also observed. In P typing only one isolate was found to be positive for P [1] and rest all samples remained untypable. The result of present study indicates G6 as a major G genotype and change in frequencies of distribution of G types in this part of the country.

Whole genomic analyses of equine group A rotaviruses from Japan: Evidence for bovine-to-equine interspecies transmission and reassortment events

2013 ◽  
Vol 166 (3-4) ◽  
pp. 474-485 ◽  
Author(s):  
Souvik Ghosh ◽  
Koki Taniguchi ◽  
Satoru Aida ◽  
Balasubramanian Ganesh ◽  
Nobumichi Kobayashi
Keyword(s):  
Interspecies Transmission ◽  
Genomic Analyses ◽  
Group A Rotaviruses ◽  
Group A

scholarly journals Ethiopian pre-school children consuming a predominantly unrefined plant-based diet have low prevalence of iron-deficiency anaemia

2016 ◽  
Vol 19 (10) ◽  
pp. 1834-1841 ◽  
Author(s):  
Dawd Gashu ◽  
Barbara J Stoecker ◽  
Abdulaziz Adish ◽  
Gulelat D Haki ◽  
Karim Bougma ◽  
...  
Keyword(s):  
Low Income ◽  
Dietary Diversity ◽  
Total Sample ◽  
High Rate ◽  
Low Income Countries ◽  
Fe Deficiency ◽  
Food Groups ◽  
Cross Sectional ◽  
Deficiency Anaemia ◽  
Low Prevalence

AbstractObjectiveChildren from low-income countries consuming predominantly plant-based diets but little animal products are considered to be at risk of Fe deficiency. The present study determined the Fe status of children from resource-limited rural households.DesignA cross-sectional study.SettingTwenty six kebeles (the smallest administrative unit) from six zones of the Amhara region, Ethiopia.SubjectsChildren aged 54–60 months (n 628).ResultsGrain, roots or tubers were the main dietary components consumed by 100 % of the study participants, followed by pulses, legumes or nuts (66·6 %). Consumption of fruit and vegetables (19·3 %) and meat, poultry and fish (2·2 %) was low. Children had a mean dietary diversity score of 2·1 (sd 0·8). Most children (74·8 %, n 470) were in the lowest dietary diversity group (1–2 food groups). Rate of any morbidity in the preceding 14 d was 22·9 % (n 114). Infection or inflammation (α1-acid glycoprotein >1·2 g/l) was present in 30·2 % (n 184) of children. Children had a high rate of stunting (43·2 %). Of the total sample, 13·6 % (n 82) of children were anaemic, 9·1 % (n 57) were Fe deficient and 5·3 % (n 32) had Fe-deficiency anaemia. Fe-deficiency erythropoiesis was present in 14·2 % (n 60) of children.ConclusionsDespite consuming a predominantly plant-based diet and little animal-source foods, there was a low prevalence of Fe-deficiency anaemia. This illustrates that dietary patterns can be inharmonious with Fe biochemical status; thus, Fe-related interventions require biochemical screening.

Sign in / Sign up

Export Citation Format

Share Document