Detection of Astrovirus RNA from Sewage Works, Seawater and Native Oysters Samples in Chiba City, Japan Using Reverse Transcription-Polymerase Chain Reaction

Yokoi, Hajime; Kitahashi, Tomoko; Tanaka, Toshimitsu; Utagawa, Etsuko

doi:10.11150/kansenshogakuzasshi1970.75.263

Cited by 7 publications

(7 citation statements)

References 10 publications

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“…Diversity of human AstV strains in water samples was studied by Sanger sequencing in previous studies 17 – 19 , 21 – 23 , except for one study applying next-generation sequencing 37 . Especially, diversities of MLB- and VA-AstVs in water samples were studied by only one 17 and two studies 17 , 18 , respectively.…”

Section: Discussionmentioning

confidence: 99%

Next-generation amplicon sequencing identifies genetically diverse human astroviruses, including recombinant strains, in environmental waters

Hata

Kitajima

Haramoto

et al. 2018

Sci Rep

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Human astroviruses are associated with gastroenteritis and known to contaminate water environments. Three different genetic clades of astroviruses are known to infect humans and each clade consists of diverse strains. This study aimed to determine the occurrence and genetic diversity of astrovirus strains in water samples in different geographical locations, i.e., influent and effluent wastewater samples (n = 24 each) in Arizona, U.S., and groundwater (n = 37) and river water (n = 14) samples collected in the Kathmandu Valley, Nepal, using next-generation amplicon sequencing. Astrovirus strains including rare types (types 6 and 7 classical human astroviruses), emerging type (type 5 VA-astroviruses), and putative recombinants were identified. Feline astrovirus strains were collaterally identified and recombination between human and feline astroviruses was suggested. Classical- and VA-astroviruses seemed to be prevalent during cooler months, while MLB-astroviruses were identified only during warmer months. This study demonstrated the effectiveness of next-generation amplicon sequencing for identification and characterization of genetically diverse astrovirus strains in environmental water.

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Section: Discussionmentioning

confidence: 99%

Next-generation amplicon sequencing identifies genetically diverse human astroviruses, including recombinant strains, in environmental waters

Hata

Kitajima

Haramoto

et al. 2018

Sci Rep

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“…AstVs, NoVs, and RVC have been detected in different types of water, such as drinking water (Kukkula et al 1999;El-Senousy et al 2014), sewage (Meleg et al 2008;Kitajima et al 2012, El-Senousy et al, 2014, seawater (Yokoi et al, 2001;Victoria et al 2014), rivers (Kitajima et al 2010;El-Senousy et al 2015;Prevost et al 2015) and recreational waters (Taylor et al,2001;Vieira et al 2012). Because these viruses can be excreted at a high concentration (10 9 -10 15 particles/g) in the feces of infected patients (Zhang et al 2006;Ludwig et al 2008 ), investigation of municipal wastewater samples could be an effective tool to understand the actual frequency and distribution of these viruses (Gofti-Laroche et al 2003;Scarcella et al 2009).…”

Section: Introductionmentioning

confidence: 99%

Molecular detection of three gastroenteritis viruses in an urban sewage treatment plant and river water in Egypt

Shaheen¹,

El-Daim²,

Ahmed³

et al. 2018

Egypt. J. of Aquatic Biolo. and Fish.

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In this study, the prevalence of astrovirus (AstV), norovirus (NoV), and group C rotaviruses (RVC) were described in urban sewage, sewage sludge, river water, and sediment samples from Egypt. AstV, NoV, and RVC were detected in 58.3%, 33.3%, and 25% of the raw sewage samples; in 33.3%, 25%, and 16.6% of the treated sewage samples; and in 66.6%, 16.6%, and 8.3% of the sludge samples, respectively. On the other hand, AstV, NoV, and RVC were detected in 25%, 16.6%, and 8.3% of the river water samples and in 16.6%, 8.3%, and 0% of the river sediment samples, respectively. The study revealed that AstV genogroup B and NoV genogroup I are the most frequent genotypes in the Egyptian environment. Furthermore, the peak prevalence of AstV and RVC in river water and raw sewage samples was found in winter months however there was no clear seasonality for NoV spread. This study support the importance of considering viral markers to ensure the quality of water and the utilization of these markers as additional tests for the characterization of water contamination.

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“…HAstVs are antigenically or genetically classified into eight different types (HAstV type 1 [HAstV-1] to HAstV-8). Previous studies revealed that HAstV-1 is the most prevalent type among infected individuals and in the environment, followed by 5,[9][10][11][12][13].Because HAstV can be excreted in the feces of infected individuals at a high concentration (up to 10 15 particles/g) (14), examination of municipal wastewater samples could be an effective approach to understand the actual prevalence and epidemiology of these viruses (15, 16). In spite of their importance as enteric pathogens, the occurrence and other characteristics of HAstVs in water compared to those of other enteric viruses, such as noroviruses, rotaviruses, and adenoviruses, have not been well documented (17, 18).…”

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confidence: 99%

mentioning

confidence: 99%

Wastewater Analysis Indicates that Genetically Diverse Astroviruses, Including Strains Belonging to Novel Clades MLB and VA, Are Circulating within Japanese Populations

Hata

Katayama

Kitajima

et al. 2015

Appl Environ Microbiol

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Human astroviruses (HAstVs) are a common etiological agent of infantile gastroenteritis. Recent studies revealed that novel astrovirus (AstV) strains of the MLB clade (MLB-AstVs) and VA clade (VA-AstVs), which are genetically distinct from the classic HAstVs, are circulating in the human population. In the present study, we quantified classic HAstVs as well as carried out a genetic analysis of classic and novel HAstVs in wastewater in Japan. The concentration of classic HAstVs in the influent water samples ranged from 10 4 to 10 5 copies per liter, and the amount removed by wastewater treatment was determined to be 2.4 ؎ 0.3 log 10 . Four types of classic HAstV strains (HAstV types 1, 2, 5, and 4/8) as well as novel AstV strains belonging to the MLB-2, VA-1, and VA-2 clades were identified using reverse transcription-PCR (RT-PCR) assays, including assays newly developed for the detection of strains of the MLB and VA clades, followed by cloning and nucleotide sequencing. Our results suggest that genetically diverse AstV strains are circulating among the human population in Japan. The newly developed (semi)nested RT-PCR assays for these novel AstV clades are useful to identify and characterize the novel AstVs in environmental waters.H uman astroviruses (HAstVs) are considered one of the most important causes of infantile gastroenteritis worldwide (1). The infections typically occur sporadically, and the cause of 2 to 10% of total viral gastroenteritis cases is attributed to HAstVs (1-6). Astroviruses (AstVs) possess nonenveloped, icosahedrally shaped virions containing approximately 6,800 nucleotides (nt) of single-stranded positive-sense RNA (7). It has been reported that the diameter of AstV particles shed in fecal specimens ranges from 28 to 31 nm, while the diameter of those grown in cell culture is 41 nm (8). Their viral genome consists of three open reading frames (ORFs), namely, ORF1a, ORF1b, and ORF2, encoding the serine protease, RNA-dependent RNA polymerase, and capsid proteins, respectively (7). HAstVs are antigenically or genetically classified into eight different types (HAstV type 1 [HAstV-1] to HAstV-8). Previous studies revealed that HAstV-1 is the most prevalent type among infected individuals and in the environment, followed by 5,[9][10][11][12][13].Because HAstV can be excreted in the feces of infected individuals at a high concentration (up to 10 15 particles/g) (14), examination of municipal wastewater samples could be an effective approach to understand the actual prevalence and epidemiology of these viruses (15, 16). In spite of their importance as enteric pathogens, the occurrence and other characteristics of HAstVs in water compared to those of other enteric viruses, such as noroviruses, rotaviruses, and adenoviruses, have not been well documented (17, 18). Due to the scarcity of knowledge, the fate of HAstVs in water environments and wastewater treatment processes is not well understood.Recent studies based on viral metagenomic analysis have identified some novel AstVs, namely, clade MLB ...

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Detection of Astrovirus RNA from Sewage Works, Seawater and Native Oysters Samples in Chiba City, Japan Using Reverse Transcription-Polymerase Chain Reaction

Cited by 7 publications

References 10 publications

Next-generation amplicon sequencing identifies genetically diverse human astroviruses, including recombinant strains, in environmental waters

Next-generation amplicon sequencing identifies genetically diverse human astroviruses, including recombinant strains, in environmental waters

Molecular detection of three gastroenteritis viruses in an urban sewage treatment plant and river water in Egypt

Wastewater Analysis Indicates that Genetically Diverse Astroviruses, Including Strains Belonging to Novel Clades MLB and VA, Are Circulating within Japanese Populations

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