Panoramic Parvovirus Strain Discovery Data Chain

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ParvoDB ID PV024491 GenBank Accession MF947544
Subfamily Parvovirinae Genus Bocaparvovirus
Species Bocaparvovirus primate1 Sequence Length 921
Definition Human bocavirus strain Mex15 nonstructural protein 1 gene, partial cds. Submission Date 2017-09-11
Strain Name Mex15 Sampling Date 2015
Sampling Country Mexico Location Mexico
Submitted By Vazquez-Perez,J.A., Coronel-Tellez,R.H., Moreno-Valencia,Y. and Romero-Espinoza,J.I. Submitting Institution Virology and Mycology Research, National Institute of Respiratory Diseases, Calzada de Tlalpan 4502, Seccion Xvi Tlalpan, Mexico City, Mexico D.F. 14080, Mexico
Original Host Homo sapiens Sample Type nasopharyngeal swabs samples
Standardized Host Name Homo sapiens Host Tax Rank species
Standardized Host Class Mammalia Standardized Host Order Primates
Environmental Origin - N/A - Reagent Origin - N/A -
Number Reagent/Consumables Purpose PMID/Url Reference
1 MagNa Pure LC 2.0 Automated nucleic acids isolation 29447223 View Related Publication
2 Total Nucleic Acids kit (Roche diagnostics) Isolate total nucleic acids from samples
3 In-house RT-qPCR respiratory viral panel Viral screening and identification
4 250 μl of transport media Concentration and purification of viral particles
5 0.2 μM-pore-size disc filters (Syringe filter, Corning) Remove cellular debris from viral particles
6 15ml concentrator tube (Amicon Ultra -15, Merck Millipore) Concentration of viral particles
7 PureLink Viral RNA/DNA kit (Invitrogen, Waltham, MA) Isolation of viral nucleic acids
8 RNase-free DNase I (Thermo Scientific) Remove DNA contamination from RNA samples
9 NEBNext Microbiome DNA Enrichment Kit (New England BioLabs Inc.) Reduce amount of human DNA
10 m13-random hexamer primer Reverse transcription of RNA viruses
11 Transcriptor First Strand cDNA Synthesis Kit (Roche diagnostics) Generate cDNA from RNA
12 Klenow fragment (Thermo Scientific) Second strand synthesis of cDNA
13 m13 primers Label DNA for amplification
14 Platinum Taq DNA Polymerase High Fidelity (Thermo Scientific) Amplification of viral and bacterial DNA
15 Qubit dsDNA HS Assay Kit (Thermo Scientific) Quantify DNA
16 Agilent High Sensitivity DNA Kit (Agilent Technologies) Evaluate DNA fragment length
17 Nextera XT DNA Library Preparation Kit (Illumina) Build libraries for sequencing
18 Nextera XT Index Kit (Illumina) Label libraries for sequencing
19 MiSeq Desktop Sequencer (Illumina) Sequencing of viral and bacterial genomes