Detection and typing of subgroup F adenoviruses using the polymerase chain reaction

Tiemessen, Caroline T.; Nel, Marietha

doi:10.1016/0166-0934(96)02015-0

Cited by 43 publications

(21 citation statements)

References 37 publications

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“…A multiplex PCR for subgenus-specific detection with selective primers from the loop l 4 gene region of the hexon has also been published (38). However, in these two systems, together with other PCR typing systems (39,45), discrimination between the different types is performed by comparing the migration of small fragments of similar sizes in a gel, a result that can ocassionally be very difficult to interpret, despite the use of high-resolution gels or high-quality molecular size markers. The PCR-RE digestion method described here provides an intelligible flowchart with a simple and clearcut final readout, namely, cleavage or noncleavage of a PCR amplimer.…”

Section: Discussionmentioning

confidence: 99%

“…Genome typing can be done by restriction endonuclease (RE) analysis of full-length Ad DNA (2,47) and with subgenus-or type-specific PCR primers (5,24,35,37,38). Recently, different methods have suggested how RE analysis and PCR can be combined to facilitate the typing procedure (7,24,39,45). However, these methods have been incomplete or limited, with results sometimes difficult to interpret.…”

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confidence: 99%

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Rapid Typing of Human Adenoviruses by a General PCR Combined with Restriction Endonuclease Analysis

2001

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We have developed a system for rapid typing of adenoviruses (Ads) based on a combination of PCR and restriction endonuclease (RE) digestion (PCR-RE digestion). Degenerated consensus primers were designed, allowing amplification of DNA from all 51 human Ad prototype strains and altogether 44 different genome variants of Ad serotypes 1, 3, 4, 5, 7, 11, 19, 40, and 41. The 301-bp amplimer of 22 prototype strains representing all six subgenera and the genome variant was selected as a target for sequencing to look for subgenus and genome type variabilities. The sequences obtained were used to facilitate the selection of specific REs for discrimination purposes in a diagnostic assay by following the concept of cleavage or noncleavage of the 301-bp amplimer. On the basis of these results, a flowchart was constructed, allowing identification of subgenus B:2 and D serotypes and almost complete distinction of subgenus A, B:1, C, E, and F serotypes. Application of the PCR-RE digestion system to clinical samples allowed typing of 34 of 40 clinical samples positive for Ad. The genome type determined by this method was identical to that obtained by traditional RE typing of full-length Ad DNA. The remaining six samples were positive only after a nested PCR. Therefore, to reduce the risk of false-negative results, samples scored negative by the PCR-RE digestion system should be evaluated by the described nested PCR. Used in combination, the PCR-RE digestion method and the nested PCR provide a reliable and sensitive system that can easily be applied to all kinds of clinical samples when rapid identification of adenoviruses is needed.

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Section: Discussionmentioning

confidence: 99%

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confidence: 99%

Rapid Typing of Human Adenoviruses by a General PCR Combined with Restriction Endonuclease Analysis

2001

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“…NV and SV primers amplified a region of ORF1 [Green et al, 1995a,b;Noel et al, 1997;Vinje et al, 2000a], HAsV primers amplified a region of the capsid gene [Noel et al, 1995], adenovirus primers amplified a region of the long fibre gene of adenovirus 40 and 41 strains [Tiemessen and Nel, 1996] and rotavirus Group A primers amplified a region of the VP6 gene [Iturriza Gomara et al, 2002].…”

Section: Pcr Primersmentioning

confidence: 99%

Diversity of enteric viruses detected in patients with gastroenteritis in a tertiary referral paediatric hospital

Gallimore¹,

Cubitt

Richards³

et al. 2004

Journal of Medical Virology

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The genetic diversity of enteric viruses co-circulating in a cohort of patients with viral gastroenteritis in a large tertiary paediatric hospital in London, UK, was determined. Multiple strains of noroviruses (NV), sapoviruses (SV) and astroviruses (HAsV) were detected in these patients, indicating the likelihood of multiple introductions from different sources, possible sub-clinical infections and simultaneous infection with different viruses in immunocompromised and other patients. Routine screening of immunocompromised patients and infection control procedures are important to prevent nosocomial infection.

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“…In addition, a total of eight PCR products of NoVs GI (two strains) and GII (six strains) were obtained after amplification by primer sets toward the capsid-coding region (Kojima et al, 2002). The presence of SaV and of AdV group F was detected by PCRs using primer pairs SR80-JV33 and AdenoF-AdenoR, and protocols described previously (Vinjé et al, 2000;Tiemessen & Nel, 1996). In addition, extracted RNAs were tested for the presence of PBV genogroups I and II, as described elsewhere (Bhattacharya et al, 2006).…”

Section: Methodsmentioning

confidence: 99%

Aetiology of acute paediatric gastroenteritis in Bulgaria during summer months: prevalence of viral infections

Mladenova

Steyer

et al. 2015

Journal of Medical Microbiology

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Paediatric acute gastroenteritis is a global public health problem. Comprehensive laboratory investigation for viral, bacterial and parasitic agents is helpful for improving management of acute gastroenteritis in health care settings and for monitoring and controlling the spread of these infections. Our study aimed to investigate the role of various pathogens in infantile diarrhoea in Bulgaria outside the classical winter epidemics of rotavirus and norovirus. Stool samples from 115 hospitalized children aged 0-3 years collected during summer months were tested for presence of 14 infectious agents -group A rotavirus, astrovirus, Giardia, Cryptosporidium and Entamoeba using ELISAs; norovirus by real-time RT-PCR; picobirnavirus and sapovirus by RT-PCR; adenovirus using PCR, and Salmonella, Shigella, Escherichia coli, Yersinia and Campylobacter using standard bacterial cultures. Infectious origin was established in a total of 92 cases and 23 samples remained negative. A single pathogen was found in 67 stools, of which rotaviruses were the most prevalent (56.7 %), followed by noroviruses (19.4 %), enteric adenoviruses (7.5 %), astroviruses (6.0 %), bacteria and parasites (4.5 % each) and sapoviruses (1.4 %). Rotavirus predominant genotypes were G4P[8] (46.3 %) and G2P[4] (21.4 %); for astroviruses, type 1a was the most common, while the GII.4/2006b variant was the most prevalent among noroviruses. Bacteria were observed in five cases, with Salmonella sp. as the most prevalent, while parasites were found in ten stool samples, with Giardia intestinalis in five cases. The results demonstrated high morbidity associated with viral infections and that rotavirus and norovirus remain the most common pathogens associated with severe gastroenteritis during summer months in Bulgaria, a country with a temperate climate, and significant molecular diversity among circulating virus strains.

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Detection and typing of subgroup F adenoviruses using the polymerase chain reaction

Cited by 43 publications

References 37 publications

Rapid Typing of Human Adenoviruses by a General PCR Combined with Restriction Endonuclease Analysis

Rapid Typing of Human Adenoviruses by a General PCR Combined with Restriction Endonuclease Analysis

Diversity of enteric viruses detected in patients with gastroenteritis in a tertiary referral paediatric hospital

Aetiology of acute paediatric gastroenteritis in Bulgaria during summer months: prevalence of viral infections

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