Development of a loop-mediated isothermal amplification method for rapid detection of caprine arthritis-encephalitis virus proviral DNA

Huang, Jinhai; Sun, Yuehui; Liu, Yebing; Xiao, Huining; Zhuang, Shiwen

doi:10.1007/s00705-012-1322-y

Cited by 28 publications

(20 citation statements)

References 29 publications

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“…Although SRLV infection in small ruminants is widely distributed in all continents [27,58], little information is available on the genetic variants circulating in different geographic regions (Table 1). SRLV complete genomes have been sequenced and are available in the GenBank derived from goat (CAEV-CO [59,60], 1GA [61,62], Gansu [63], Shanxi [64], FESC-752 [25], Seui [46] Roccaverano [45] and A4 [27] viruses) and sheep (Fonni [30], Volterra [30], 496 [65], SA-OMVV [66], KV1514 [67], KV1772 [68], LV1 [69], EV1 [70], P1OLV [71], 85/34 [72] and 697 [73] viruses) (Figure 1). In addition, partial sequences have been published in Brazil [74,75,76], Canada [77], Finland [78], France [27,79,80,81], Greece [82], Ireland [83], Japan [84], Netherlands [85], Poland [86,87], Russia [88], Slovenia [89], South Korea [90] and Turkey [29,30].…”

Section: Phylogenymentioning

confidence: 99%

“…Molecular techniques of use in SRLV diagnosis include the heteroduplex mobility assay (HMA) [80], which may help to a genotypic characterization of circulating strains within the flock, a loop-mediated isothermal amplification technique [64] and polymerase chain reaction (PCR) procedures, the most commonly used to directly assess the presence of viral nucleic acid. Conventional PCR for diagnostic purposes has been more extensively studied than the real-time PCR (rtPCR).…”

Section: In Vitro Diagnosismentioning

confidence: 99%

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Small Ruminant Lentiviruses: Genetic Variability, Tropism and Diagnosis

Ramírez

Reina

Amorena

et al. 2013

Viruses

126

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Small ruminant lentiviruses (SRLV) cause a multisystemic chronic disease affecting animal production and welfare. SRLV infections are spread across the world with the exception of Iceland. Success in controlling SRLV spread depends largely on the use of appropriate diagnostic tools, but the existence of a high genetic/antigenic variability among these viruses, the fluctuant levels of antibody against them and the low viral loads found in infected individuals hamper the diagnostic efficacy. SRLV have a marked in vivo tropism towards the monocyte/macrophage lineage and attempts have been made to identify the genome regions involved in tropism, with two main candidates, the LTR and env gene, since LTR contains primer binding sites for viral replication and the env-encoded protein (SU ENV), which mediates the binding of the virus to the host’s cell and has hypervariable regions to escape the humoral immune response. Once inside the host cell, innate immunity may interfere with SRLV replication, but the virus develops counteraction mechanisms to escape, multiply and survive, creating a quasi-species and undergoing compartmentalization events. So far, the mechanisms of organ tropism involved in the development of different disease forms (neurological, arthritic, pulmonary and mammary) are unknown, but different alternatives are proposed. This is an overview of the current state of knowledge on SRLV genetic variability and its implications in tropism as well as in the development of alternative diagnostic assays.

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Section: Phylogenymentioning

confidence: 99%

Section: In Vitro Diagnosismentioning

confidence: 99%

Small Ruminant Lentiviruses: Genetic Variability, Tropism and Diagnosis

Ramírez

Reina

Amorena

et al. 2013

Viruses

126

View full text Add to dashboard Cite

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“…Loop-mediated isothermal amplification (LAMP) assays can amplify specific nucleic acids at a consistent temperature. They have been used for rapid detection of specific genes [17][18][19][20]. In particular, LAMP method combined with reverse transcription (called RT-LAMP) is a method for simultaneously synthesizing cDNA from template RNA and amplifying DNA [21].…”

Section: Introductionmentioning

confidence: 99%

Rapid and simple colorimetric detection of multiple influenza viruses infecting humans using a reverse transcriptional loop-mediated isothermal amplification (RT-LAMP) diagnostic platform

et al. 2019

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Background In addition to seasonal influenza viruses recently circulating in humans, avian influenza viruses (AIVs) of H5N1, H5N6 and H7N9 subtypes have also emerged and demonstrated human infection abilities with high mortality rates. Although influenza viral infections are usually diagnosed using viral isolation and serological/molecular analyses, the cost, accessibility, and availability of these methods may limit their utility in various settings. The objective of this study was to develop and optimized a multiplex detection system for most influenza viruses currently infecting humans. Methods We developed and optimized a multiplex detection system for most influenza viruses currently infecting humans including two type B (both Victoria lineages and Yamagata lineages), H1N1, H3N2, H5N1, H5N6, and H7N9 using Reverse Transcriptional Loop-mediated Isothermal Amplification (RT-LAMP) technology coupled with a one-pot colorimetric visualization system to facilitate direct determination of results without additional steps. We also evaluated this multiplex RT-LAMP for clinical use using a total of 135 clinical and spiked samples (91 influenza viruses and 44 other human infectious viruses). Results We achieved rapid detection of seasonal influenza viruses (H1N1, H3N2, and Type B) and avian influenza viruses (H5N1, H5N6, H5N8 and H7N9) within an hour. The assay could detect influenza viruses with high sensitivity (i.e., from 100 to 0.1 viral genome copies), comparable to conventional RT-PCR-based approaches which would typically take several hours and require expensive equipment. This assay was capable of specifically detecting each influenza virus (Type B, H1N1, H3N2, H5N1, H5N6, H5N8 and H7N9) without cross-reactivity with other subtypes of AIVs or other human infectious viruses. Furthermore, 91 clinical and spiked samples confirmed by qRT-PCR were also detected by this multiplex RT-LAMP with 98.9% agreement. It was more sensitive than one-step RT-PCR approach (92.3%). Conclusions Results of this study suggest that our multiplex RT-LAMP assay may provide a rapid, sensitive, cost-effective, and reliable diagnostic method for identifying recent influenza viruses infecting humans, especially in locations without access to large platforms or sophisticated equipment. Electronic supplementary material The online version of this article (10.1186/s12879-019-4277-8) contains supplementary material, which is available to authorized users.

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“…The Shanxi strain, isolated in China [27], was the basis for the design of primers used in the study.…”

Section: Primer Designmentioning

confidence: 99%

Molecular characterization of the gag gene of caprine arthritis encephalitis virus from goats in the Philippines

et al. 2015

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Caprine arthritis encephalitis virus (CAEV) causes caprine arthritis encephalitis syndrome, which is an emerging disease of goats in the Philippines. DNA sequence analysis showed homology of 86-93 % between Philippine CAEV and available CAEV sequences in GenBank. CAEV was detected using nested polymerase chain reaction (PCR), and new sets of primers were designed in order to amplify the gag gene, which is a highly conserved region of the viral genome. In addition, the Philippine CAEV isolate clustered in group B with the prototype caprine lentivirus. Based on amino acid sequence alignments, it is possible that the Philippine CAEV isolate is a new strain of CAEV, but it is also possible that it was already present in the country even before the start of goat importation. Molecular characterization of the CAEV gag gene is important for the development of a detection kit specific for the local strain of CAEV and the establishment of small ruminant lentivirus eradication programs in the Philippines. This study is the first report to describe the molecular characteristics of CAEV circulating in the Philippines.

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Development of a loop-mediated isothermal amplification method for rapid detection of caprine arthritis-encephalitis virus proviral DNA

Cited by 28 publications

References 29 publications

Small Ruminant Lentiviruses: Genetic Variability, Tropism and Diagnosis

Small Ruminant Lentiviruses: Genetic Variability, Tropism and Diagnosis

Rapid and simple colorimetric detection of multiple influenza viruses infecting humans using a reverse transcriptional loop-mediated isothermal amplification (RT-LAMP) diagnostic platform

Molecular characterization of the gag gene of caprine arthritis encephalitis virus from goats in the Philippines

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