Panoramic Parvovirus Strain Discovery Data Chain

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ParvoDB ID PV025720 GenBank Accession EF117276
Subfamily Parvovirinae Genus Bocaparvovirus
Species Bocaparvovirus primate1 Sequence Length 202
Definition Human bocavirus isolate SO4627_05 NP-1 gene, partial cds. Submission Date 2006-11-13
Strain Name SO4627_05 Sampling Date from 2004-09 to 2006-08
Sampling Country Spain Location the Severo Ochoa hospital in Leganés (Madrid), Spain
Submitted By Pozo,F., Garcia-Garcia,M., Calvo,C., Cuesta,I., Perez-Brena,P. and Casas,I. Submitting Institution Virology Service, Instituto De Salud Carlos III, Carr Majadahona-Pozuelo Km2, Majadahonda, Madrid 28220, Espana
Original Host None Sample Type NPA specimens, Urine and stool 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 BioRobot M48 workstation Automated nucleic acid extractor. 17904416 View Related Publication
2 MagAttract Virus Mini M48 Kit (Qiagen, Hilden, Germany) Extraction of nucleic acids from NPA specimens.
3 HBOV1f primer First round HBoV amplification forward primer.
4 HBOV1r primer First round HBoV amplification reverse primer.
5 RTS primer Internal control amplification forward primer.
6 RTA primer Internal control amplification reverse primer.
7 Taq polymerase (Amplitaq, Perkin-Elmer Cetus) DNA polymerase for PCR.
8 (NH4)2SO4 Ammonium sulfate for PCR buffer.
9 Tris–HCl Tris buffer for PCR.
10 MgCl2 Magnesium chloride for PCR.
11 dNTPs Nucleotide mixture for PCR.
12 Peltier Thermal Cycler PTC-200 (MJ Research) Thermal cycler for PCR amplification.
13 HBOV2f primer Nested HBoV amplification forward primer.
14 HBOV2r primer Nested HBoV amplification reverse primer.
15 NS3 primer Nested internal control amplification forward primer.
16 NA2 primer Nested internal control amplification reverse primer.
17 Agarose For gel electrophoresis.
18 TBE buffer Buffer for gel electrophoresis.
19 Ethidium bromide Stain for visualizing DNA bands under UV light.
20 Plasmid DNA (pCR4-TOPO) Plasmid containing the first round HBoV amplified product for sensitivity testing.
21 TOPO-TA Cloning Kit with One Shot TOP10 Chemically Competent E. coli (Invitrogen) Cloning of the HBoV amplified product.
22 QIAprep Spin Miniprep Kit (Qiagen) Extraction and purification of plasmids.
23 QIAquick PCR Purification Kit (Qiagen) Purification of PCR products before sequencing.
24 BigDye Terminator Cycle Sequencing Kit (Applied Biosystems) Sequencing of PCR products.