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

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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Epidemiological profile and genetic diversity of sapoviruses (SaVs) identified in children suffering from acute gastroenteritis in Pune, Maharashtra, Western India, 2007–2011

Epidemiology and Infection ◽

10.1017/s0950268816001953 ◽

2016 ◽

Vol 145 (1) ◽

pp. 106-114 ◽

Cited By ~ 7

Author(s):

N. LASURE ◽

V. GOPALKRISHNA

Keyword(s):

Genetic Diversity ◽

Acute Gastroenteritis ◽

Clinical Manifestations ◽

Circulation Pattern ◽

The Philippines ◽

Western India ◽

Faecal Samples ◽

Severe Gastroenteritis ◽

Sporadic Cases ◽

Epidemiological Profile

SUMMARYSapoviruses (SaVs) are responsible for sporadic cases and outbreaks of acute gastroenteritis. Despite this, few studies in India have focused on the epidemiological investigation of SaV in cases of acute gastroenteritis. The aim of this study was to understand the molecular epidemiology, genetic diversity and clinical impact of SaV in diarrhoeic children from Pune, Western India. Between 2007 and 2011, a total of 985 faecal samples from diarrhoeic cases and non-diarrhoeic controls were collected and examined for the presence of SaV by nested RT–PCR. SaV was detected in 2·7% (21/778) of the cases and 1·9% (4/207) of the controls. We observed that the majority of SaV mono-infections caused severe gastroenteritis (67%) with clinical manifestations of diarrhoea (100%), vomiting (73%) and dehydration (80%). All known human SaV genogroups were detected in the study. At least eight genotypes were identified from cases and controls. Genogroups GIV and GV, along with genotypes GI.5, GII.4 and GII.6, were discovered for the first time in India. Two GII.4 study strains were found to be 98·5–99% identical, having a novel intra-genogroup recombinant (GII.1/GII.4) recently reported from the Philippines, suggesting probable evidence of recombination. The circulation pattern of SaV genotypes varied during the study period, with GII.1 being predominant in 2007 and 2009, GIV.1 in 2008, and GV.1 in 2011.

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Full genome analysis of rotavirus G9P[8] strains identified in acute gastroenteritis cases reveals genetic diversity: Pune, western India

Journal of Medical Virology ◽

10.1002/jmv.24799 ◽

2017 ◽

Vol 89 (8) ◽

pp. 1354-1363 ◽

Cited By ~ 3

Author(s):

Vaishali S. Tatte ◽

Deepa Chaphekar ◽

Varanasi Gopalkrishna

Keyword(s):

Genetic Diversity ◽

Genome Analysis ◽

Acute Gastroenteritis ◽

Western India ◽

Full Genome ◽

Full Genome Analysis

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Molecular epidemiology and genetic diversity of norovirus infection in children with acute gastroenteritis in Bangladesh, 2014‐2019

Journal of Medical Virology ◽

10.1002/jmv.26772 ◽

2021 ◽

Author(s):

Shuvra Kanti Dey ◽

Nadim Sharif ◽

Baki Billah ◽

Tanjir Tarek Ibn Siddique ◽

Tarequl Islam ◽

...

Keyword(s):

Genetic Diversity ◽

Molecular Epidemiology ◽

Acute Gastroenteritis

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Prevalence and genetic diversity of gastroenteritis viruses in hospitalized children < 5 years of age in Maharashtra state, Western India, 2017‐2019

Journal of Medical Virology ◽

10.1002/jmv.27085 ◽

2021 ◽

Author(s):

Varanasi Gopalkrishna ◽

Madhuri S. Joshi ◽

Nutan A. Chavan ◽

Manohar S. Shinde ◽

Atul M. Walimbe ◽

...

Keyword(s):

Genetic Diversity ◽

Western India ◽

Hospitalized Children

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Prevalence and Genetic Diversity of Group A Rotavirus Genotypes in Moscow (2019–2020)

Pathogens ◽

10.3390/pathogens10060674 ◽

2021 ◽

Vol 10 (6) ◽

pp. 674

Author(s):

Anton Yuzhakov ◽

Ksenia Yuzhakova ◽

Nadezhda Kulikova ◽

Lidia Kisteneva ◽

Stanislav Cherepushkin ◽

...

Keyword(s):

Infectious Disease ◽

Genetic Diversity ◽

Acute Gastroenteritis ◽

Rt Pcr ◽

Clinical Hospital ◽

Group A Rotavirus ◽

Group A ◽

First Time ◽

Common Combination ◽

Children Under 5

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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Use of expressed sequence tag microsatellite markers for population genetic research of Helicoverpa armigera (Lepidoptera: Noctuidae) from India

The Canadian Entomologist ◽

10.4039/tce.2015.47 ◽

2015 ◽

Vol 148 (2) ◽

pp. 187-199

Author(s):

Thiruvengadam Venkatesan ◽

Vaddi Sridhar ◽

Yan R. Tomason ◽

Sushil Kumar Jalali ◽

Gajanan T. Behere ◽

...

Keyword(s):

Genetic Diversity ◽

Gene Flow ◽

Microsatellite Markers ◽

Population Genetic ◽

Expressed Sequence Tag ◽

Genetic Research ◽

Western India ◽

Diversity Analysis ◽

Lepidoptera Noctuidae ◽

Expressed Sequence

AbstractCotton bollworm, Helicoverpa armigera (Hübner) (Lepidoptera: Noctuidae), is a serious pest of several crops throughout the world, representing millions of United States of America dollars worth of damage. This pest can adapt to various cropping systems in a wide geographical range and has high migratory potential. It features high fecundity and can develop resistance to almost all insecticides used for its management. Several investigations to develop microsatellite markers for H. armigera have not been successful because of the paucity of microsatellites in the lepidopteran genome. As well, collections of H. armigera from cotton fields of southern and western India were not yet studied for molecular genetic diversity. The current study aimed to screen publicly available expressed sequence tag resources for simple sequence repeats and assess their potential as DNA markers for assessment of gene flow between collections of southern and western India. We identified 30 polymorphic microsatellites for potential use in diversity analysis of H. armigera collections. Genetic diversity analysis revealed that the collections were widely diverse with population differentiation index (Fst) of 0.17. Furthermore, gene flow analysis revealed a mean frequency of private alleles of 11% within the collections. The microsatellite resources we developed could be widely used for molecular diversity or population genetic research involving this important pest of cotton and food crops.

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