Panoramic Parvovirus Strain Discovery Data Chain

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ParvoDB ID PV001161 GenBank Accession EF035488
Subfamily Parvovirinae Genus Bocaparvovirus
Species Bocaparvovirus primate1 Sequence Length 2016
Definition Human bocavirus strain JPBS05-52 VP1 protein gene, complete cds. Submission Date 2006-10-03
Strain Name JPBS05-52 Sampling Date from 2006-01 to 2007-01
Sampling Country Japan Location four hospitals (see Acknowledgments) in Hokkaido Prefecture, Japan. , Japan
Submitted By Endo,R., Ishiguro,N., Kikuta,H., Ma,X., Ebihara,T., Ishiko,H. and Ariga,T. Submitting Institution Dept. of Pediatrics, Hokkaido Univ. Graduate School of Medicine, Kita-15, Nishi-7, Kita-ku, Sapporo, Hokkaido 060-8638, Japan
Original Host None Sample Type nasopharyngeal swab and serum 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 SF900 II medium (Invitrogen, Carlsbad, CA) Culturing Sf9 insect cells 17699639 View Related Publication
2 Fetal bovine serum Supplementing Sf9 insect cell culture
3 EX-CELL 405 medium (JRH Biosciences, Lenexa, KS) Culturing Trichoplusia ni (Tn5) insect cells
4 Bac-to-Bac system (Invitrogen, Carlsbad, CA) Preparing VP1 proteins expressed in a baculovirus-insect cell system
5 BsmBI and XhoI Digesting PCR products as part of cloning into the baculovirus transfer vector
6 pFASTBAC HTa Baculovirus transfer vector for cloning
7 Escherichia coli DH10 Bac (Invitrogen, Carlsbad, CA) Host for the baculovirus expression vector
8 liposome-mediated transfection kit (Invitrogen, Carlsbad, CA) Transfecting recombinant bacmids into Sf9 cells
9 Acetone Fixing cell smears
10 Fluorescein isothiocyanate-conjugated rabbit anti-human IgG (Dako, Glostrup, Denmark) Incubating with cell smears for immunofluorescence assay
11 PBS-glycerin (1:1) Mounting stained preparations
12 Ni-NTA agarose (QIAGEN, Santa Clarita, CA) Purifying histidine-tagged proteins
13 Lysis buffer (50 mM potassium phosphate – 300 mM NaCl buffer [pH 8.0]) with 1% NP-40 and 20 mM imidazole Lysing cells for protein purification
14 Elution buffer (50 mM potassium phosphate – 300 mM NaCl buffer [pH 8.0]) with 1% NP-40 and 250 mM imidazole Eluting purified protein
15 Sodium dodecyl sulfate (SDS)–8% polyacrylamide gel Electrophoresing purified protein
16 Anti-six-histidine monoclonal antibody (BioDynamics Laboratory Inc., Tokyo, Japan) Binding to histidine-tagged fusion proteins for detection
17 Horseradish peroxidase-conjugated goat anti-IgG (Biosource International, Camarillo, CA) Detecting bound antibodies in Western blot
18 Goat anti-mouse Ig polyclonal antibodies (Biosource International, Camarillo, CA) Detecting bound antibodies in Western blot
19 Chemiluminescence assay reagent (ECL Plus Western blotting detection reagent; Amersham Pharmacia Biotech, Inc., Piscataway, NJ) Detecting proteins in Western blot
20 BigDye terminator cycle sequencing ready reaction kit (Perkin-Elmer Applied Biosystems, Tokyo, Japan) Sequencing PCR products
21 QIAamp blood mini kit (QIAGEN, Santa Clarita, CA) Extracting nucleic acids from serum samples
22 TaqMan gene expression master mix (Perkin-Elmer Applied Biosystems, Tokyo, Japan) Ampli?cation reaction mixture for real-time PCR
23 Human rhinovirus Testing for coinfection in nasopharyngeal swabs
24 Adenovirus Testing for coinfection in nasopharyngeal swabs
25 Horseradish peroxidase (HRP)-conjugated goat anti-human IgG Detecting antibodies in Western blot