Genetic diversity of noroviruses and sapoviruses in children hospitalized with acute gastroenteritis in Chiang Mai, Thailand

Group A rotavirus (RVA) infection is the leading cause of hospitalization of children under 5 years old, presenting with symptoms of acute gastroenteritis. The aim of our study was to explore the genetic diversity of RVA among patients admitted to Moscow Infectious Disease Clinical Hospital No. 1 with symptoms of acute gastroenteritis. A total of 653 samples were collected from May 2019 through March 2020. Out of them, 135 (20.67%) fecal samples were found to be positive for rotavirus antigen by ELISA. RT-PCR detected rotavirus RNA in 80 samples. Seven G-genotypes (G1, G2, G3, G4, G8, G9, and G12) and three P-genotypes (P[8], P[4], and P[6]) formed 9 different combinations. The most common combination was G9P[8]. However, for the first time in Moscow, the combination G3P[8] took second place. Moreover, all detected viruses of this combination belonged to Equine-like G3P[8] viruses that had never been detected in Russia before. The genotype G8P[8] and G9P[4] rotaviruses were also detected in Moscow for the first time. Among the studied rotaviruses, there were equal proportions of Wa and DS-1-like strains; previous studies showed that Wa-like strains accounted for the largest proportion of rotaviruses in Russia.

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Changing pattern of prevalence, genetic diversity, and mixed infections of viruses associated with acute gastroenteritis in pediatric patients in New Delhi, India

Journal of Medical Virology ◽

10.1002/jmv.24980 ◽

2017 ◽

Vol 90 (3) ◽

pp. 469-476 ◽

Cited By ~ 8

Author(s):

Shipra Gupta ◽

Anuja Krishnan ◽

Sumit Sharma ◽

Praveen Kumar ◽

Satinder Aneja ◽

...

Keyword(s):

Genetic Diversity ◽

Acute Gastroenteritis ◽

Pediatric Patients ◽

Mixed Infections ◽

New Delhi

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Clinico-epidemiology and genetic diversity of Salivirus in acute gastroenteritis cases from Pune, Western India: 2007–2011

Infection Genetics and Evolution ◽

10.1016/j.meegid.2016.07.047 ◽

2016 ◽

Vol 44 ◽

pp. 425-430 ◽

Cited By ~ 3

Author(s):

N. Lasure. ◽

V. Gopalkrishna.

Keyword(s):

Genetic Diversity ◽

Acute Gastroenteritis ◽

Western India

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Epidemiology and genetic diversity of human parechoviruses circulating among children hospitalised with acute gastroenteritis in Pune, Western India: a 5-years study

Epidemiology and Infection ◽

10.1017/s095026881700262x ◽

2017 ◽

Vol 146 (1) ◽

pp. 11-18 ◽

Cited By ~ 12

Author(s):

P. R. PATIL ◽

N. N. GANORKAR ◽

V. GOPALKRISHNA

Keyword(s):

Genetic Diversity ◽

Acute Gastroenteritis ◽

Clinical Manifestations ◽

Western India ◽

Vp1 Gene ◽

Rt Pcr ◽

Chain Reaction ◽

Predominant Genotype ◽

Stool Specimens ◽

Polymerase Chain

SUMMARYHuman parechoviruses (HPeVs) are known to cause various clinical manifestations including acute gastroenteritis. Although HPeV infections and their genotypes have been detected in human patients worldwide, no such reports are available from India to ascertain the association of HPeVs in acute gastroenteritis. The present study was conducted to determine the clinical features and genetic diversity of HPeVs detected in children hospitalised for acute gastroenteritis. Stool specimens (n= 979) collected from children aged ⩽5 years hospitalised for acute gastroenteritis in Pune, western India during January 2006–December 2010 were included. HPeV RNA was detected by reverse transcription-polymerase chain reaction (RT-PCR) (5′UTR) followed by genotyping using VP1 gene-based PCR and phylogenetic analysis. HPeV was detected in 13·9% (136/979) of the cases, co-infections with other enteric viruses were found in 43·4%. HPeV was more frequent in children ⩽1 year age with infections reported throughout the year. A total of 102/136 (75%) HPeV strains were genotyped, which comprised 13 different HPeV genotypes. Of these, HPeV1 was the most predominant genotype detected and phylogenetically clustered with the Harris strain which is rarely reported. The study documents circulation of heterogeneous HPeV genotypes. Two variant strains of HPeV4 and ‘RGD absent’ HPeV5 and 6 strains were also detected. This is the first report of HPeV with diversified genotypes identified in acute gastroenteritis patients from India.

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Epidemiology and genetic diversity of classic human astrovirus among hospitalized children with acute gastroenteritis in Uruguay

Journal of Medical Virology ◽

10.1002/jmv.24854 ◽

2017 ◽

Vol 89 (10) ◽

pp. 1775-1781 ◽

Cited By ~ 6

Author(s):

Fernando Lopez ◽

Andrés Lizasoain ◽

Matías Victoria ◽

Cecilia Papalardo ◽

Sebastian Castro ◽

...

Keyword(s):

Genetic Diversity ◽

Acute Gastroenteritis ◽

Hospitalized Children ◽

Human Astrovirus

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Genetic Diversity and Epidemiology of Genogroup II Noroviruses in Children with Acute Sporadic Gastroenteritis in Shanghai, China, 2012-2017

10.21203/rs.2.9681/v2 ◽

2019 ◽

Author(s):

Lijuan Lu ◽

Huaqing Zhong ◽

Menghua Xu ◽

Liyun Su ◽

Lingfeng Cao ◽

...

Keyword(s):

Genetic Diversity ◽

Genetic Analysis ◽

Acute Gastroenteritis ◽

Dominant Role ◽

Phylogenetic Analyses ◽

Age Groups ◽

Detection Rates ◽

Children Under Five ◽

Under Five ◽

Paediatric Age

Abstract Background Noroviruses (NoVs) are considered an important cause of acute gastroenteritis (AGE) across all age groups, especially in children under five years of age. We investigated the epidemiology of noroviruses in outpatient children from the Children’s Hospital of Fudan University in Shanghai, China. Methods Stool specimens were collected between January 2012 and December 2017 from 1433 children under ﬁve years of age with acute gastroenteritis. All samples were analysed by conventional reverse transcription-polymerase chain reaction (RT-PCR) for genogroup II NoVs amplifying both the RNA-dependent RNA polymerase (RdRp) and partial capsid genes. The Norovirus Genotyping Tool v.2.0 (https://www.rivm.nl/mpf/typingtool/norovirus/) was used for genotyping the strains, and phylogenetic analyses were conducted by MEGA 6.0. Results From 2012 to 2017, GII NoVs were detected in 15.4% (220/1433) of the samples, with the highest detection rate in children aged 7-12 months (19.2%, 143/746). The seasons with the highest prevalence of GII NoVs infection were autumn and winter . Based on genetic analysis of RdRp, GII.Pe (74.5%%, 137/184) was the most predominant RdRp genotype from 2013 to 2017, while GII.P4 played a dominant role in 2012 (55.6%, 21/36). Among the capsid genotypes, the most prevalent NoV genotype from 2012 to 2017 was GII.4 (73.6%, 162/220). On the basis of genetic analysis of RdRp and capsid sequences, the strains were clustered into 19 RdRp/capsid genotypes, and 12 of them were discordant, such as GII.Pe/GII.4-Sydney_2012, GII.P12/GII.3, GII.P7/GII.6, GII.Pe/GII.3, and GII.P16/GII.2. Starting with 2013, GII.Pe/GII.4-Sydney_2012 had completely replaced the pandemic GII.P4-2006b/GII.4-2006b subtype and was detected in children across all age groups. Conclusions The present study shows high detection rates and the genetic diversity of circulating NoV GII genotypes in paediatric AGE samples from Shanghai. The findings emphasize the importance of continuous molecular surveillance of emerging NoV strains.

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