Frequency and molecular characterization of human norovirus in Erzurum, Turkey

Timurkan, Mehmet Ozkan; Aydın, Hakan; Aktaş, Osman

doi:10.3906/sag-1509-87

Cited by 8 publications

(6 citation statements)

References 40 publications

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“…Other non-GII.4 genotypes were also detected in our study, including GII.1 (1/65, 1.5%), GII.6 (3/65, 4.6%), GII.7 (1/65, 1.5%), GII.13 (2/65, 3%), GII.17 (5/65, 7.7%), and GII.21 (1/65, 1.5%). These non-GII.4 genotypes were previously reported in the MENA region in Lebanon [45], Tunisia [62], Libya [35], Egypt [40], and Turkey [63]. Further genotypes GI.1, and GI.3, GII.1, GII.6, GII.7, GII.13, GII.17, and GII.21 were detected only once throughout the study.…”

Section: Discussionsupporting

confidence: 69%

Epidemiological, Molecular, and Clinical Features of Norovirus Infections among Pediatric Patients in Qatar

Mathew

Alansari

Smatti

et al. 2019

Viruses

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Background: Norovirus (NoV) is recognized as the second most important etiological agent leading to acute gastroenteritis globally. In order to determine the burden and characteristics of NoV infections in children in Qatar, profiling of circulating genotypes and their correlation with demographics and clinical manifestations were evaluated. Methods: A total of 177 NoV-positive fecal samples were collected from children suffering from acute gastroenteritis (AGE) during two-year period between June 2016 and June 2018. The age of the subjects ranged between 3 months and 12 years (median of 15 months). Genotyping was performed by amplifying and sequencing parts of viral VP1 and RNA-dependent RNA polymerase (RdRp) regions. Phylogenetic analysis and evolutionary relationships were performed using MEGA7.0. Fisher’s exact test was used to run statistical analysis for the clinical and demographical characteristics of circulating strains. Results: Overall, NoV infections were relatively higher in males than females with a ratio of 1.3:1 (p = 0.0073). Most of the NoV infections were reported in children between 1 and 3 years old (49.7%), followed by those <1 and >3 years of age (41.2% and 9.1%, respectively). NoV infections occurred throughout the year, with a noticeable increase in summer (36.6%) and drop in winter (25.4%). Nearly all (98.8%) NoV-infected children were positive for genogroup II (GII) compared to only two samples (1.2%) being positive for genogroup I (GI): GI.3 and GI.4. NoV genotype GII.4 (62.2%), GII.2 (15.8%), and GII.3 (13.5%) were predominant in our study. The detected strains shared >98% sequence homology with emerging recombinant strain of GII.P16-GII.4/RUS/Novosibirsk/2017 (MG892929), GII.P16-GII.4 Sydney/2012 (KY887601), GII.4 Sydney/2012, recombinant GII.P4 New Orleans /2009/GII.4 Sydney 2012 (MG585810.1), and the emerging strain GII.P16-GII.2 CHN/2017 (MH321823). Severe clinical illness (vesikari score >10) was reported in children infected with genotypes sharing homology with the above emerging strains. While GII.4 was reported in all age groups, NoV GII.3 infections were higher in children <1 year of age. Both genogroups (GII.4 and GII.3) in addition to GII.2 reported higher incidence in Qatari subjects compared to other nationalities (p = 0.034). Conclusion: This is the first report about NoV molecular epidemiology in Qatar. The most detected NoV strain was genogroup GII, which is the dominant genotype in the Middle East region. Further, we report GII.4, GII.2, and GII.3 as the most predominant NoV genotypes in our study. Moreover, disease severity scores were higher among children genotyped with genogroup GI (GI.4) and genogroup GII (GII.4, GII.2, GII.3, GII.6, and GII.7).

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Section: Discussionsupporting

confidence: 69%

Epidemiological, Molecular, and Clinical Features of Norovirus Infections among Pediatric Patients in Qatar

Mathew

Alansari

Smatti

et al. 2019

Viruses

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“…Therefore, combined characterization of both capsid and polymerase regions is substantial to monitor the new recombinant strains and the new emerging NoV genotype worldwide. GII.1 capsid genotype found in this study has been recently reported in Cameroon [ 48 ], Brazil [ 49 , 50 ], Australia [ 51 ], India [ 52 ], and elsewhere [ 53 – 55 ]. This genotype is frequently reported from both clinical cases and environmental samples.…”

Section: Discussionsupporting

confidence: 80%

“…(iii) GII.1 capsid genotype found in this study has been recently reported in Cameroon [48], Brazil [49,50], Australia [51], India [52], and elsewhere [53][54][55]. is genotype is frequently reported from both clinical cases and environmental samples.…”

Section: Discussionsupporting

confidence: 74%

Molecular Characterization of Norovirus Strains Isolated from Older Children and Adults in Impoverished Communities of Vhembe District, South Africa

Mulondo

Khumela

Kabue

et al. 2020

Advances in Virology

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Background. Human norovirus (NoV) is an etiological agent associated with acute gastroenteritis (AGE) in both children and adults worldwide. However, very few studies have been reported on the prevalence and genetic diversity of NoV strains in children older than 5 years of age and adults with little or inadequate water and sanitation conditions. Objectives. The aim of this study was assessing the prevalence of the human norovirus in older children and adults suffering with diarrhoea from rural communities in the Vhembe district, Limpopo province. Methods. Between August 2017 and October 2018, stool samples were collected from outpatients suffering from AGE and screened for NoV strains using the RIDA©GENE norovirus I and II real-time one-step RT-PCR. RNA extracts of NoV-positive samples were subjected to RT-PCR amplification and nucleotide sequencing to genotype the positive NoV strains. Results. Out of 80 collected stool samples, 13 (16%) were tested positive for norovirus. Genogroup GII was identified in 6/13 (46%) samples and genogroup GI in 7/13 (54%) samples. The sequence analyses showed multiple genotypes including GII.Pg, GII.1, GII.2, GII.4, and GI.3. Phylogenetic analysis revealed the relatedness of NoV genotypes identified with other strains reported globally. Conclusion. Continued systematic surveillance to evaluate norovirus association with diarrhoea is needed to assist with epidemiological surveillance and disease burden in people of all the age groups.

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“…When the genotypic distribution of 26 of 86 norovirus detected samples were examined, it was found that 24 (92%) were norovirus GII, and only 1 (3%) was norovirus GI. 13 Similarly, 20 (95.2%) of the noroviruses detected in this study were norovirus GII, 1 (4.8%) was norovirus GI.…”

Section: Discussionsupporting

confidence: 57%

Investigation of Children with Acute Gastroenteritis by Multiplex PCR Method in Central Part of Turkey

Yılmaz

Kaya

Özdemir

2022

J Pediatr Infect Dis

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Objective Gastroenteritis is a disease that affects all age groups, especially children, and causes high mortality and morbidity in all countries. The most common agents of acute gastroenteritis are viral agents. As a result, millions of diarrhea attacks and hospital admissions occur worldwide every year due to viral gastroenteritis. This study uses the multiplex polymerase chain reaction (PCR) method to investigate the viruses that are the causative agents of viral gastroenteritis in the pediatric patient group in Konya, Turkey. Methods Stool samples of 94 patients aged 0 to 18 years sent from Emergency clinics and Pediatric outpatient clinics, Meram Medical Faculty Hospital Pediatric clinics, Konya Necmettin Erbakan University to Medical Microbiology Laboratory with a diagnosis of gastroenteritis between February and December 2018 were included in the study. Stool samples were stored at –80°C until the time of the analysis. Deoxyribonucleic acid/ribonucleic acid isolation from stool samples was performed with EZ1 Virus Mini Kit v2.0 (Qiagen, Hilden, Germany) using an automatic extraction system (BioRobot EZ1 system, Qiagen). The presence of astrovirus, rotavirus, adenovirus, norovirus (GI, GII), and sapovirus agents was investigated by the multiplex PCR method (Fast Track Diagnostics, Luxembourg) viral gastroenteritis kit. Results Viral gastroenteritis agents were detected in 56.3% of the patients. One viral agent was detected in 47 (50%) of these patients and at least two viral agents in 6 (6.3%) of them. Norovirus GII was detected in 20 (21.2%) of the children included in the study, adenovirus in 13 (13.8%), rotavirus in 11 (12.8%), astrovirus in 11 (11.7%), sapovirus in 4 (4.2%), and norovirus GI in 1 (1.06%). When the distribution of viral agents was examined by months, the most number of agents were observed (21; 35%) in May, followed by April and June (12; 20%). Considering the distribution of the prevalence of the agents by age, it was seen to be mainly between 0 and 12 months (42%). Conclusion Considering that the most common viral agent in our region is norovirus GII, it will be useful to investigate the norovirus that is not routinely examined in children who are admitted to clinics with the complaint of gastroenteritis. It will be appropriate to examine routinely adenovirus, rotavirus, and norovirus in the laboratory, especially in children with diarrhea and vomiting in the winter and spring months.

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Frequency and molecular characterization of human norovirus in Erzurum, Turkey

Cited by 8 publications

References 40 publications

Epidemiological, Molecular, and Clinical Features of Norovirus Infections among Pediatric Patients in Qatar

Epidemiological, Molecular, and Clinical Features of Norovirus Infections among Pediatric Patients in Qatar

Molecular Characterization of Norovirus Strains Isolated from Older Children and Adults in Impoverished Communities of Vhembe District, South Africa

Investigation of Children with Acute Gastroenteritis by Multiplex PCR Method in Central Part of Turkey

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