Panoramic Parvovirus Strain Discovery Data Chain

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ParvoDB ID PV002507 GenBank Accession KC013335
Subfamily Parvovirinae Genus Erythroparvovirus
Species Erythroparvovirus primate1 Sequence Length 3529
Definition Human parvovirus B19 isolate 08BRSP3007 non-structural protein NS1 gene, partial cds; 7.5 kDa protein gene, complete cds; minor capsid protein VP1 gene, partial cds; X protein gene, complete cds; and major capsid protein VP2 gene, partial cds. Submission Date 2012-10-29
Strain Name 08BRSP3007 Sampling Date 2008
Sampling Country Brazil Location Brazil
Submitted By da Costa,A.C., Bendit,I., de Oliveira,A.C.S., Kallas,E.G., Sabino,E.C. and Sanabani,S.S. Submitting Institution Institute of Tropical Medicine, Sao Paulo, Virology Lab, University of Sao Paulo, Sao Paulo, Brazil., Av.Dr. Eneas Carvalho de Aguiar, 470 - 2 andar - Cerqueira Cesar, Sao Paulo, Sao Paulo 05403-000, Brazil
Original Host Homo sapiens Sample Type marrow 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 QIAamp DNA Blood Mini Kit (Qiagen, Hilden, Germany) Extract genomic DNA from bone marrow samples. 23167493 View Related Publication
2 Positive and negative controls (healthy donor polymorphonuclear leucocytes) Included in each PCR assay to validate results.
3 PCR primers and protocols described by Toan et al. Used for the amplification and sequencing of complete coding NS1/VP1/VP2 region.
4 Nested specific-genotype-3 primers (P1f, E3_n5r, E3_n1f, P5r, 103-OF, 103-OR, 101-OF1, 104-OR) Amplify two overlapping fragments that cover the entire coding NS1/VP1/VP2 region.
5 High-fidelity Taq platinum DNA polymerase (Invitrogen, Carlsbad, CA) Enzyme used in the first-round PCR for fragment amplification.
6 QIAquick PCR Purification Kit (Qiagen, Hilden, Germany) Purify amplified PCR products.
7 PCR inner primers and additional internal specific primers (for sequencing) Direct sequencing of the purified PCR products on both strands.
8 PRISM Big Dye Terminator Cycle Sequencing Ready Reaction Kit (Applied Biosystems/Perkin-Elmer, Foster City, CA) Cycle sequencing of the PCR products.
9 Automated sequencer (ABI 3130, Applied Biosystems) Instrument used for sequencing the purified PCR products.