Panoramic Parvovirus Strain Discovery Data Chain

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ParvoDB ID PV001352 GenBank Accession MN939556
Subfamily Hamaparvovirinae Genus Ichtchaphamaparvovirus
Species unclassified Ichtchaphamaparvovirus Sequence Length 3194
Definition Chapparvovirus sp. isolate VRI NS1 and NP genes, complete cds; and VP gene, partial cds. Submission Date 2020-01-14
Strain Name VRI Sampling Date 2014
Sampling Country Brazil Location Tocantins and Amapa states, Brazil
Submitted By Fahsbender,E., Charlys da-Costa,A., Elise Gill,D., Augusto de Padua Milagres,F., Brustulin,R., Costa Monteiro,F.J., Octavio da Silva Rego,M., Soares D'Athaide Ribeiro,E., Cerdeira Sabino,E. and Delwart,E. Submitting Institution Molecular Virology, UCSF/Vitalant Research Institute, 270 Masonic Ave, San Francisco, CA 94122, USA
Original Host Homo sapiens Sample Type Plasma 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 Euroimmun Medicine Labordiagnostika AG, Luebeck, Germany Anti-Chikungunya Virus ELISA IgM assay Detection of early anti-Chikungunya immune responses 32134963 View Related Publication
2 Euroimmun Medicine Labordiagnostika AG, Luebeck, Germany Anti-Zika Virus ELISA IgM assay Detection of early anti-Zika immune responses
3 Abbott, Chicago, IL, USA Panbio DENV NS1 antigen ELISA tests Detection of early anti-Dengue immune responses
4 Bio-Rad, Hercules, USA ELISA reader Reading absorbance at 450nm for ELISA assays
5 Bio-Rad Laboratories, Inc.; Hercules, California, USA ZDC multiplex qPCR assay Detection of viral RNAs for Zika, Dengue, Chikungunya viruses
6 Millipore, Burlington, MA, USA 0.45 μm filter Filtration to enrich for viral particle-associated nucleic acids by removing human cellular debris
7 Ambion, Life Technologies, USA Turbo DNase Digestion of non-encapsidated human nucleic acids
8 Epicentre, USA Baseline-ZERO Digestion of non-encapsidated human nucleic acids
9 Novagen, Germany Benzonase Digestion of non-encapsidated human nucleic acids
10 Promega, USA RNase One Digestion of non-encapsidated human nucleic acids
11 Applied Biosystems, Life Technologies, USA MagMAXTM Viral RNA Isolation kit Extraction of viral nucleic acids
12 Invitrogen Superscript III Reverse transcription for cDNA synthesis
13 New England Biolabs Klenow DNA polymerase Second strand DNA synthesis for cDNA amplification
14 Applied Biosystems, Waltham, MA, USA Amplitaq GoldDNA polymerase LD PCR amplification of cDNA
15 Invitrogen, USA Quant-iTDNA HS Assay Kit Quantification of DNA
16 Invitrogen, USA Qubit fluorometer Measurement of DNA concentration
17 Nextera kit Conversion of DNA to Illumina sequencing-compatible libraries
18 Illumina HiSeq 4000 Sequencing of DNA libraries