ParvoDB ID PV007582 GenBank Accession KX962141
Subfamily Parvovirinae Genus Bocaparvovirus
Species Bocaparvovirus primate2 Sequence Length 463
Definition Human bocavirus 2 isolate HBoV-2/Egy/ZI-3 NS1 gene, partial cds. Submission Date 2016-10-04
Strain Name HBoV-2/Egy/ZI-3 Sampling Date 2014
Sampling Country Egypt Location three wastewater treatment plants Zenin (WWTP-1), Balaks (WWTP-2), and El Berka (WWTP-3) located in Greater Cairo, Egypt
Submitted By Hamza,I.A. and Hamza,H.A. Submitting Institution Environmental Virology Laboratory, Department of Water Pollution, National Research Centre, 33 EL Bohouth St., Dokki, Giza, Cairo 12622, Egypt
Original Host Homo sapiens Sample Type sewage 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 MgCl2 To prepare samples by adding 1 M MgCl2 to reach a final concentration of 0.05 M for each 1 l of samples. 28233174 View Related Publication
2 HA nitrocellulose membrane, 0.45 μm pore size, 142 mm diameter Used in the filtration process to concentrate viruses by the virus adsorption elution method.
3 0.5 mM H2SO4, pH 4 To rinse the membrane prior to virus recovery.
4 Organic elution buffer (3% beef extract, 0.05 M glycine pH 9.4) Used to elute viruses from the membrane.
5 QIAamp DNA Blood Mini Kit For viral nucleic acid extraction from concentrated suspension.
6 Murine norovirus Used as an internal control to identify the occurrence of PCR inhibition.
7 Nuclease free water Used as a negative control in qPCR assays.
8 Quantitect probe PCR kit with uracil-N-glycosylase (UNG) Used in real-time qPCR reactions.
9 SYBR green Used in SYBR green qPCR assay for HBoV-2, 3, and 4 quantification.
10 StrataClone PCR cloning kit Used for cloning PCR fragments into the pSC-Aamp/kan vector for standard preparation.
11 QIAquick PCR Purification Kit Used to purify PCR products for standard preparation and sequencing.
12 Quant-iT dsDNA HS Assay (Invitrogen) Used to determine the nucleic acid concentrations of the purified products.
13 Avogadro’s constant Referenced for determining the number of DNA copies.
14 Rotorgene 3000 cycler system Used for the amplification and data analysis of real-time qPCR reactions.