Panoramic Parvovirus Strain Discovery Data Chain
| ParvoDB ID | PV002510 | GenBank Accession | KC013338 |
| Subfamily | Parvovirinae | Genus | Erythroparvovirus |
| Species | Erythroparvovirus primate1 | Sequence Length | 4462 |
| Definition | Human parvovirus B19 isolate 09BRSP3933 non-structural protein NS1 and 7.5 kDa protein genes, complete cds; nonfunctional minor capsid protein VP1 gene, partial sequence; X protein gene, complete cds; and nonfunctional major capsid protein VP2 gene, partial sequence. | Submission Date | 2012-10-29 |
| Strain Name | 09BRSP3933 | Sampling Date | 2009 |
| 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. |