Development and applications of a TaqMan based quantitative real-time PCR for the rapid detection of Pigeon circovirus (PiCV)

Nath, Babu Kanti; Das, Shubhagata; Das, Tridip; Forwood, Jade K.; Raidal, Shane R.

doi:10.1016/j.jviromet.2022.114588

Cited by 3 publications

(3 citation statements)

References 45 publications

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“…The TaqMan-qPCR platform is a widely used detection method that has higher sensitivity and higher specificity than conventional PCR. It has been used for detecting PiCV ( Nath et al, 2022 ), novel pigeon adenovirus ( N-PiAd ) and PTTV. The TaqMan-qPCR method for identifying PiMeV infection was established for the first time, and the optimized method showed good specification.…”

Section: Discussionmentioning

confidence: 99%

Rapid detection of pigeon Megrivirus using TaqMan real-time PCR technology

Zhang

Chen

et al. 2023

Poultry Science

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Section: Discussionmentioning

confidence: 99%

Rapid detection of pigeon Megrivirus using TaqMan real-time PCR technology

Zhang

Chen

et al. 2023

Poultry Science

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“…PCR primers were designed based on all available complete genome sequences from NCBI GenBank and using the design tools in the Geneious Prime v 2021.1.1 package. Oligonucleotide primers specifically targeting the replication associated protein coding gene (Rep) for the PiCV genome (forward, PiCV SD-F, 5 -GTGAAAGCCGGAAGAGCAATG-3 , and reverse, PiCV-SD-R, 5 -GTGATGACGATGACTTCCGTTTTGAAG-3 ) were used for the PCR amplification of an approximately 139 bp fragment [35]. To obtain the 515 bp fragment of replication associated protein coding gene (Rep) for the PiCV genome, a new pair of primers (forward, PiCV-BK-F, 5 -ATGCCATTGTGGGGAAGGAG-3 , and reverse, PiCV-BK-R, 5 -GCCAGCCGTAGAAGTCATCA-3 ) were used for the PCR amplification.…”

Section: Dna Extraction Pcr Library Construction and Sequencingmentioning

confidence: 99%

“…Obtained raw data were trimmed, edited and deposited in GenBank (Table S1 available in the online version of this article). Furthermore, a total of 118 samples were subjected to qPCR assay to obtain the Ct values using the methods described previously [35].…”

Section: Dna Extraction Pcr Library Construction and Sequencingmentioning

confidence: 99%

Australasian Pigeon Circoviruses Demonstrate Natural Spillover Infection

Nath,

Das,

Peters

et al. 2023

Viruses

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Pigeon circovirus (PiCV) is considered to be genetically diverse, with a relatively small circular single-stranded DNA genome of 2 kb that encodes for a capsid protein (Cap) and a replication initiator protein (Rep). Australasia is known to be the origin of diverse species of the Order Columbiformes, but limited data on the PiCV genome sequence has hindered phylogeographic studies in this species. To fill this gap, this study was conducted to investigate PiCV in 118 characteristic samples from different birds across Australia using PCR and sequencing. Eighteen partial PiCV Rep sequences and one complete PiCV genome sequence were recovered from reservoir and aberrant hosts. Phylogenetic analyses revealed that PiCV circulating in Australia was scattered across three different subclades. Importantly, one subclade dominated within the PiCV sequenced from Australia and Poland, whereas other PiCV sequenced in this study were more closely related to the PiCV sequenced from China, USA and Japan. In addition, PiCV Rep sequences obtained from clinically affected plumed whistling duck, blue billed duck and Australian magpie demonstrated natural spillover of PiCV unveiled host generalist characteristics of the pigeon circovirus. These findings indicate that PiCV genomes circulating in Australia lack host adapted population structure but demonstrate natural spillover infection.

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Investigating pigeon circovirus infection in a pigeon farm: molecular detection, phylogenetic analysis and complete genome analysis

Li,

Wang,

et al. 2024

BMC Genomics

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Background Pigeon circovirus infections in pigeons (Columba livia domestica) have been reported worldwide. Pigeons should be PiCV-free when utilized as qualified experimental animals. However, pigeons can be freely purchased as experimental animals without any clear guidelines to follow. Herein, we investigated the status quo of PiCV infections on a pigeon farm in Beijing, China, which provides pigeons for experimental use. Results PiCV infection was verified in at least three types of tissues in all forty pigeons tested. A total of 29 full-length genomes were obtained and deposited in GenBank. The whole genome sequence comparison among the 29 identified PiCV strains revealed nucleotide homologies of 85.8–100%, and these sequences exhibited nucleotide homologies of 82.7–98.9% as compared with those of the reference sequences. The cap gene displayed genetic diversity, with a wide range of amino acid homologies ranging from 64.5% to 100%. Phylogenetic analysis of the 29 full-genome sequences revealed that the PiCV strains in this study could be further divided into four clades: A (17.2%), B (10.4%), C (37.9%) and D (34.5%). Thirteen recombination events were also detected in 18 out of the 29 PiCV genomes obtained in this study. Phylogenetic research using the rep and cap genes verified the recombination events, which occurred between clades A/F, A/B, C/D, and B/D among the 18 PiCV strains studied. Conclusions In conclusion, PiCV infection, which is highly genetically varied, is extremely widespread on pigeon farms in Beijing. These findings indicate that if pigeons are to be used as experimental animals, it is necessary to evaluate the impact of PiCV infection on the results.

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Development and applications of a TaqMan based quantitative real-time PCR for the rapid detection of Pigeon circovirus (PiCV)

Cited by 3 publications

References 45 publications

Rapid detection of pigeon Megrivirus using TaqMan real-time PCR technology

Rapid detection of pigeon Megrivirus using TaqMan real-time PCR technology

Australasian Pigeon Circoviruses Demonstrate Natural Spillover Infection

Investigating pigeon circovirus infection in a pigeon farm: molecular detection, phylogenetic analysis and complete genome analysis

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