Data from: Detection and differentiation of low virulence and virulent Orthoavulavirus javaense using a molecular beacon with RT-LAMP

Description

This dataset accompanies the manuscript Detection and differentiation of low virulence and virulent Orthoavulavirus javaense using a molecular beacon with RT-LAMP | Scientific Reports (nature.com) published on 08/05/2024. The Orthoavulavirus javaense also called as Newcastle Disease virus is the causative of Newcastle disease a significant problem for the poultry industry. Virulent strains of this virus can cause extensive mortality and economic loss to the poultry industry. Current diagnostic methods rely on polymerase chain reaction targeting the fusion gene of this virus and this method is not only expensive and time consuming, but is also not field applicable. The dataset reported here and the manuscript published describe an assay that can be applied to field diagnosis of NDV via a colorimetric and fluorometric assay. The MB-RT-LAMP assay enables rapid detection of viruses from field samples without the need for RNA isolation and also enable rapid differentiation of virulent vs low virulence viruses. The data provided here demonstrate the sequence analysis undertaken to develop the MB-RT-LAMP primers and probes, the supporting data show the conditions tested to identify optimal parameters.

Resources

Name Format Description Link
SR-suppl_material.zip ZIP Open resource
Figure 1 Alignment.fasta Unknown Open resource
Alignment-Class II complete genomes May 2022.fasta Unknown Open resource
Figure 3 and Supplementary Figure 2 MB-LAMP Plate reader fluorescence 29Aug23.xlsx XLS Open resource
Figure 2 Plasmids Additional Replicate 1 11Aug23.eds Unknown Open resource
Figure 3 IVT RNA LOD AgPath Fusion qRT-PCR 29Aug23.eds Unknown Open resource
Figure 2 Plasmids Additional Replicate 2 11Aug23.eds Unknown Open resource
Figure 2 Plasmids Additional Replicate 3 11Aug23.eds Unknown Open resource
Figure 4 and Figure 5 IVT RNA plate reader data 01sep23.xlsx XLS Open resource
Figure 3 MB-LAMP extra 30 min 29Aug23.eds Unknown Open resource
Figure 2 Plasmids Replicate 2 08Aug23.eds Unknown Open resource
Figure 4 and Figure 5 IVT RNA plate reader values 06Sep23.xlsx XLS Open resource
Figure 2 Plasmids Replicate 3 08Aug23.eds Unknown Open resource
Figure 2 Plasmids Replicate 1 22Jul23.eds Unknown Open resource
Figure 3 MB-LAMP 29Aug23 first hour.eds Unknown Open resource
Figure 5 AgPath Fusion Lentos 1ng per rxn 18Oct23.eds Unknown Open resource
Figure 5 Agpath qRT-PCR IVT RNA 01Sep23.eds Unknown Open resource
Figure 5 AgPath qRT-PCR IVT RNA 06Sep23.eds Unknown Open resource
Figure 5 Fusion AgPath velos 1ng 20Oct23.eds Unknown Open resource
Figure 4 Beacon specificity 01Sep23 and Figure 5 IVT RNAs.eds Unknown Open resource
Figure 5 Matrix AgPath Lento screen 1ng 17Oct23.eds Unknown Open resource
Figure 4 Beacon specificity 06Sep23 and Figure 5 IVT RNAs.eds Unknown Open resource
Figure 5 Matrix AgPath Velos 1ng 20Oct23.eds Unknown Open resource
Figure 5 18Oct23 MB-LAMP Lentos total RNA 1ng per rxn.eds Unknown Open resource
Figure 5 Plate reader data Lentos 18Oct23.xlsx XLS Open resource
Figure 5 plate reader data Velos 20oct23.xlsx XLS Open resource
Figure 6 EID50 dilutions LaSota M gene AgPath 16Nov23.eds Unknown Open resource
Figure 6 LaSota EID50 diluteions plate reader data 16Nov23.xlsx XLS Open resource
Figure 5 MB-LAMP Velos RNA screen 1ng 20Oct23.eds Unknown Open resource
Figure 6 IVT RNA spiked OP and CL swabs MB-LAMP 17Nov23.eds Unknown Open resource
Figure 6 MB-LAMP 16Nov23 EID50 LaSota rapid lysis.eds Unknown Open resource

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