Panoramic Parvovirus Strain Discovery Data Chain

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ParvoDB ID PV023903 GenBank Accession KJ492897
Subfamily Parvovirinae Genus Bocaparvovirus
Species Bocaparvovirus primate1 Sequence Length 312
Definition Human bocavirus isolate Rus-Nsc10-N1344 non-structural protein 1 (NS1) gene, partial cds. Submission Date 2014-02-22
Strain Name Rus-Nsc10-N1344 Sampling Date 2010-12
Sampling Country Russia Location South-Western Siberia, Asian Russia, Russia
Submitted By Tyumentsev,A.I., Tikunov,A.Y., Babkin,I.V., Netesov,S.V. and Tikunova,N.V. Submitting Institution Siberian Branch of Russian Academy of Sciences, Institute of Chemical Biology and Fundamental Medicine, Lavrentego Avenue 8, Novosibirsk 630090, Russia
Original Host Homo sapiens Sample Type 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 AmpliSens RIBO-sorb extraction kit Viral nucleic acid isolation from stool suspensions. 26602159 View Related Publication
2 DreamTaq Green PCR Master Mix Used for the semi-nested polymerase chain reaction (PCR).
3 HBoV2-sf2 primer First round of PCR.
4 HBoV2-sr1 primer First round of PCR.
5 HBoV2-sr2 primer Second round of PCR.
6 AmpliSens Reverta-L reverse-transcription kit Screening for the presence of nucleic acids of enteric viruses and bacteria.
7 AmpliSens Rotavirus/Norovirus/Astrovirus-FL PCR kit Detection of group A human rotavirus (HRVA), human norovirus genogroup II (HNoV GII), and human astrovirus (HAstV) RNAs.
8 AmpliSens Enterovirus-FL PCR kit Detection of enterovirus RNAs.
9 RCVP6-F and RCVP6-R primers Identification of group C human rotavirus (HRVC).
10 AmpliSens age-screen-FL PCR kit Detection of human adenovirus F (HAdV-F) DNA.
11 AmpliSens Shigella spp. and EIEC/Salmonella spp./Campylobacter spp.-FL PCR kits Detection of DNA from Salmonella spp., Campylobacter spp., Shigella spp., and enteroinvasive Escherichia coli (EIEC).
12 SeaKem GTG-agarose Purification of PCR products by electrophoresis.
13 BigDyeTerminator v. 3.1 Cycle Sequencing kit Sanger sequencing reaction.
1 Stool collection tubes Collection and transfer of stool samples for lab analysis. 30414977 View Related Publication
2 Phosphate-buffered saline with glycerol (15%) Dilution buffer for stool samples.
3 AmpliSensRIBO-sorb extraction kit Total viral nucleic acid extraction.
4 AmpliSensReverta-L reverse-transcription kit Synthesis of complementary DNA.
5 DreamTaq Green PCR Master Mix (Thermo Scientific, Lithuania) PCR assays.
6 Mon244/245 primers Detection of HAstV by amplifying a 413-bp fragment of the ORF2.
7 Agarose gel with ethidium bromide Electrophoresis separation and visualization of PCR products.
8 Gel Doc XR+Imager System (Bio-Rad Laboratories, Inc.) Examination of electrophoresis results.
9 Beg9/End9 primers Amplification and sequencing of the VP7 gene of RVA.
10 4Con3 and 4Con2 primers Sequencing of the VP4 gene of RVA.
11 VP6F/VP6R and End6 primers Sequencing of partial VP6 gene of RVA.
12 JV12/JV13, CVR Sequencing of NoV including the ORF1/ORF2 overlapping region.
13 Mon381F/383R primers Sequencing of NoV capsid genotype.
14 BigDyeTerminator v.3.1 Cycle Sequencing Kit Determination of nucleotide sequences.
15 ABI 3500 Genetic Analyzer (Applied Biosystems, CA, USA) Sequencing analysis.
16 SeaKem GTG-agarose gel (Lonza, ME, USA) Purification of PCR products.