Panoramic Parvovirus Strain Discovery Data Chain
| ParvoDB ID | PV020731 | GenBank Accession | KY072816 |
| Subfamily | Parvovirinae | Genus | Bocaparvovirus |
| Species | Bocaparvovirus primate1 | Sequence Length | 2870 |
| Definition | Human bocavirus isolate 03EI-03-00012 large non-structural protein (NS1) gene, partial cds; small non-structural protein (NP1) gene, complete cds; and large structural protein (VP1) and small structural protein (VP2) genes, partial cds. | Submission Date | 2016-11-02 |
| Strain Name | 03EI-03-00012 | Sampling Date | 2013-11-14 |
| Sampling Country | Vietnam | Location | Vietnam |
| Submitted By | Tran Tan,T., Hoang Minh Tu,V., Nguyen Thi Thu,H., Le Nguyen Truc,N., Nguyen To,A., Ha Manh,T., Ho Van,H., Nguyen Manh,T., Trinh Trung,K., Truong Huu,K., Le Nguyen Thanh,N., Nguyen Thanh,H., Nguyen Van Vinh,C., Thwaites,G., van Doorn,H.R. and Le Van,T. | Submitting Institution | Emerging Infections, Oxford University Clinical Research Unit, 764 Vo Van Kiet, Ho Chi Minh 700000, Vietnam |
| Original Host | Homo sapiens | Sample Type | swabs |
| 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 | Selected swabs | To collect clinical specimens for whole-genome sequencing. | 28090592 | View Related Publication |
| 2 | DNAse | To treat the samples and remove excess host DNA. | ||
| 3 | QIAamp viral RNA kit (QIAgen GmbH, Hilden, Germany) | To isolate viral nucleic acid (NA) from the supernatant. | ||
| 4 | Elution buffer (provided with the QIAamp kit) | To recover the isolated viral nucleic acid. | ||
| 5 | Super Script III kit (Invitrogen, Carlsbad, CA, USA) | To synthesize cDNA from the isolated viral nucleic acid. | ||
| 6 | FR26RV-Endoh primer | To prime the synthesis of cDNA. | ||
| 7 | exo-Klenow (Invitrogen) | To convert the cDNA to double-stranded DNA. | ||
| 8 | Platinum PCR supermix (Invitrogen) | To pre-amplify the double-stranded DNA. | ||
| 9 | FR20RV primer | Used in the pre-amplification of double-stranded DNA. | ||
| 10 | Nextera XT DNA sample preparation kit (Illumina, San Diego, CA, USA) | To prepare the PCR product for library preparation. | ||
| 11 | MiSeq reagent kits (Illumina) | To sequence the prepared DNA library on the Illumina MiSeq platform. |