Panoramic Parvovirus Strain Discovery Data Chain
| ParvoDB ID | PV011660 | GenBank Accession | JQ346620 |
| Subfamily | Parvovirinae | Genus | Bocaparvovirus |
| Species | Bocaparvovirus primate1 | Sequence Length | 525 |
| Definition | Human bocavirus isolate JB09-006 capsid protein VP1 (VP1) gene, partial cds. | Submission Date | 2012-01-04 |
| Strain Name | JB09-006 | Sampling Date | 2011-12-01 |
| Sampling Country | Japan | Location | four hospitals (KKR Sapporo Medical Center, Hokkaido Social Insurance Hospital, Sapporo Kosei General Hospital, and Nemuro City Hospital) in Hokkaido, Japan, Japan |
| Submitted By | Koseki,N., Teramoto,S., Kaiho,M., Gomi-Endo,R., Yoshioka,M., Takahashi,Y., Nakayama,T., Sawada,H., Konno,M., Ushijima,H., Kikuta,H., Ariga,T. and Ishiguro,N. | Submitting Institution | Department of Pediatrics, Hokkaido University Graduate School of Medicine, N-15, W-7, Kita-ku, Sapporo, Hokkaido 060-8638, Japan |
| Original Host | Homo sapiens | Sample Type | nasopharyngeal swab 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 | Nasopharyngeal swab samples | Collected from children with respiratory tract infections for HBoV detection. | 22442328 | View Related Publication |
| 2 | DNA extraction reagent (according to Chomczynski’s protocol) | Extracting DNA from nasopharyngeal swab samples. | ||
| 3 | Pan-bocavirus nested PCR reagents | Targeting the VP1 region for detection of HBoVs. | ||
| 4 | BigDye Terminator cycle sequencing ready reaction kit (Perkin-Elmer Applied Biosystems, Tokyo, Japan) | Sequencing both sense and anti-sense strands of the second PCR products. | ||
| 5 | ABI Prism 310 genetic analyzer (Perkin-Elmer Applied Biosystems) | Analyzing the nucleotide sequences of the second PCR products. | ||
| 6 | DNA extracted from fecal specimens collected in Vietnam | Used as templates in the pan-bocavirus nested PCR. | ||
| 7 | Vector pT7Blue (Novagene, Inc., Madison, WI) | Cloning first-round PCR products of HBoV1 and HBoV2. | ||
| 8 | Vector pUC57 (Genscript, Piscataway, NJ) | Cloning synthesized regions of HBoV3 and HBoV4. | ||
| 9 | Positive control vectors (cloned HBoV1-4) | Used as positive controls for the nested PCR. | ||
| 10 | 13 respiratory virus PCR and reverse transcriptase PCR (RT-PCR) reagents | Assaying for the presence of 13 other respiratory viruses such as hRSV, hMPV, HRV, PIV1 to PIV3, FluA and FluB, HEV, HCoV, AdV, KIPyV, and WUPyV. |