Development of SYBR Green and TaqMan quantitative real-time PCR assays for hepatopancreatic parvovirus (HPV) infecting Penaeus monodon in India

Yadav, Reena; Paria, Anutosh; Mankame, Smruti; Makesh, M.; Chaudhari, Aparna; Rajendran, K. V.

doi:10.1016/j.mcp.2015.07.006

Cited by 9 publications

(5 citation statements)

References 28 publications

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“…Yadav et al showed that the HPV DNA detection limit for conventional PCR was 200 copies, whereas for real-time PCR, which has a higher sensitivity, detecting HPV DNA required only 1 copy [ 26 ]. Lingen et al detected high-risk HPV DNA in 9.8 % of OSCC cases using consensus primer PCR, but the positive rate was 6.6 % using real-time PCR [ 22 ].…”

Section: Discussionmentioning

confidence: 99%

“…Scapoli et al found the detection rate of HPV16 to be 2 % in OSCC with real-time PCR [ 27 ]. Real-time PCR shows a higher sensitivity and specificity than conventional PCR assays [ 12 , 22 , 26 ]. In the current study, we utilized real-time PCR and found that 3 of 198 samples showed late and deformed amplifying curves of HPV 16 E6 and 7 of 198 samples had late and deformed amplifying curves of HPV 18 E6.…”

Section: Discussionmentioning

confidence: 99%

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Absence of high-risk HPV 16 and 18 in Chinese patients with oral squamous cell carcinoma and oral potentially malignant disorders

Chen

Sun

Jiang

2016

Virol J

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BackgroundThe critical role of human papillomavirus (HPV) in cancer has been recognized, but the involvement of HPV in oral squamous cell carcinoma (OSCC) and oral potentially malignant disorders (OPMD) is still controversial. The aim of this study was to identify and verify the prevalence of high-risk HPV infection (HPV16 and 18) in Chinese patients with OSCC or OPMD using real-time PCR and DNA sequencing.MethodsPaired tissue and serum DNA samples were extracted from 40 Chinese patients with OSCC and 59 with OPMD. A SYBR Green-based real-time PCR assay was developed to detect the E6 gene of HPV16 and HPV18. Suspicious positive samples were then sequenced to eliminate false positives.ResultsWe found that none of the tissue and serum samples of OSCCs and OPMDs were positive for HPV16 E6 or 18 E6, using both real-time PCR and DNA sequencing. Overall, 3 of 198 (1.52 %) and 7 of 198 (3.54 %) samples were false-positive for HPV16 E6 and HPV18 E6, respectively, using real-time PCR.ConclusionThe lack of HPV16 and HPV18 detected in this study indicates that high-risk HPV 16 and 18 infections are uncommon in Chinese patients with OSCC and OPMD. Real-time PCR followed by DNA sequencing for HPV DNA detection is an effective strategy to rule out false positives.

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Section: Discussionmentioning

confidence: 99%

Section: Discussionmentioning

confidence: 99%

Absence of high-risk HPV 16 and 18 in Chinese patients with oral squamous cell carcinoma and oral potentially malignant disorders

Chen

Sun

Jiang

2016

Virol J

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“…Several studies have developed real-time PCR assays with an LOD of 4 to 10 genome (or plasmid) copies (Table 3). [109][110][111][112] However, it appears that these primers only bind to the genomes of isolates derived from specific geographical regions, as listed in Table 3, due to a significant number of primer mismatches with genomes from other geographical sources (see alignment results for quantitative PCR methods in Figure S2b). For instance, Yan et al 111 developed a TaqMan-based real-time PCR utilising the genomic sequence of an HPV isolate from Korea.…”

Section: Hepatopancreatic Parvovirusmentioning

confidence: 99%

Nucleic acid amplification‐based methods for diagnosis of shrimp viral diseases

Lee,

Vijayan,

Roh

et al. 2023

Reviews in Aquaculture

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Viral diseases are one of the constraints affecting the sustainability of the shrimp farming industry worldwide. The common causes of viral infections include white spot syndrome virus, infectious hypodermal and haematopoietic necrosis virus, hepatopancreatic parvovirus, Penaeus monodon nudivirus, decapod iridescent virus 1, Taura syndrome virus, yellow head virus, infectious myonecrosis virus and Macrobrachium rosenbergii nodavirus. Accurate diagnostic methods are necessary for preventing the spread of these transboundary diseases. Many molecular diagnostic methods for shrimp viral diseases have been developed and are currently in use, including conventional polymerase chain reaction (PCR), nested PCR, loop‐mediated isothermal amplification PCR, recombinase polymerase assay and real‐time PCR. Although the World Organization for Animal Health (founded as OIE) recommends several PCR methods for shrimp disease diagnosis, there has been a lack of efforts to comparatively evaluate the performance of the available methods, resulting in a significant knowledge gap. Therefore, in this review, we compare various PCR assays and commercial PCR‐based diagnostic kits that have been developed and/or published previously, and discuss pros and cons of each of these methods. Our objective of this review is to offer enhanced clarity and a comprehensive overview of molecular diagnostic methods for shrimp viral diseases. This endeavour would serve as an important resource for researchers engaged in relevant studies and professionals within the shrimp‐farming industry, providing valuable guidance and insights.

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“…29,30 A more recent study attempted to detect HPV in M. rosenbergii collected from wild populations in India, but could not amplify the virus by PCR. 31 Another parvovirus, Penaeus stylirostris penstyldensovirus 1 (PstDV1), 26 commonly named infectious hypodermal haematopoetic necrosis virus (IHHNV), a 20-22 nm icosahedral-shaped virus, has been shown to cause disease in penaeid shrimp. 32 Gross clinical signs of infections vary with species, from runt deformity syndrome in P. vannamei and P. monodon to a whitish colour and opaque abdominal musculature resulting in mortality of Penaeus stylirostris postlarvae and adults.…”

Section: Virusesmentioning

confidence: 99%

“…A more recent study attempted to detect HPV in M . rosenbergii collected from wild populations in India, but could not amplify the virus by PCR 31 …”

Section: Virusesmentioning

confidence: 99%

Diseases of the giant river prawnMacrobrachium rosenbergii: A review for a growing industry

Hooper

Debnath

Stentiford

et al. 2022

Reviews in Aquaculture

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The giant river prawn, Macrobrachium rosenbergii, is a major focus of aquaculture in tropical and sub-tropical regions around the globe. Over the last 30 years, culture of M. rosenbergii has increased exponentially as demand has risen both for domestic consumption and for international export trade. As with many aquaculture species increases in production have been accompanied by the emergence of diseases affecting yield, profit and trading potential. Disease-causing agents include pathogens infecting other crustaceans, such as Decapod Iridescent Virus (DIV1), as well as pathogens only known from M. rosenbergii such as White Tail Disease caused by Macrobrachium rosenbergii nodavirus (MrNV) and extra small virus (XSV). Here, we review the pathogenic agents associated with the culture of M. rosenbergii since commercial culture began in earnest during the 1970s. Particular emphasis is given to pathogens first identified in other aquaculture host species, but which have subsequently been shown to infect and cause disease in M. rosenbergii. As polyculture of M. rosenbergii with other aquaculture species is common practice, including culture with other decapods, crabs and fish, increased pathogen transfer among these farmed species may occur as M. rosenbergii aquaculture increases in the future.aquaculture, emerging disease, giant river prawn, polyculture | INTRODUCTIONAquaculture is the fastest-growing farmed food sector, with the proportion of cultured to caught seafood increasing year-on-year. 1,2 Global aquaculture production for fish, crustaceans and molluscs surpassed 87 million tonnes in 2020, just under half of all world production. 2 Crustacean production by aquaculture far surpasses that by capture, with more than 11,000,000 tonnes in 2020 from aquaculture compared to 6,000,000 tonnes by capture. 2 Despite these considerable production figures, it is estimated that up to 40% of tropical shrimp aquaculture production is lost annually, 3 equating to losses of over 3 billion USD, and this is primarily due to infection with viral agents. 4 Losses on this scale threaten global food security, with most of the consumption of cultured crustaceans being outside of producing countries, making management and mitigation of disease of key importance to the future success of crustacean aquaculture. 4 Stentiford et al. (2012) outlines a holistic strategy involving both producer and consumer nations to improve husbandry and farm management, better understand pathogens and their spread (either by movement of animals or alternative hosts) and learn lessons from previous disease outbreaks. This review focuses on these points to outline the pathogenic agents in Macrobrachium rosenbergii culture, identify other hosts

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Development of SYBR Green and TaqMan quantitative real-time PCR assays for hepatopancreatic parvovirus (HPV) infecting Penaeus monodon in India

Cited by 9 publications

References 28 publications

Absence of high-risk HPV 16 and 18 in Chinese patients with oral squamous cell carcinoma and oral potentially malignant disorders

Absence of high-risk HPV 16 and 18 in Chinese patients with oral squamous cell carcinoma and oral potentially malignant disorders

Nucleic acid amplification‐based methods for diagnosis of shrimp viral diseases

Diseases of the giant river prawnMacrobrachium rosenbergii: A review for a growing industry

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