characteristics.text: ERC000036
characteristics.characteristic: ENA-CHECKLIST
characteristics.text: 2023-04-05T18:29:14Z
characteristics.characteristic: ENA-FIRST-PUBLIC
characteristics.text: 2023-05-02T19:28:11Z
characteristics.characteristic: ENA-LAST-UPDATE
characteristics.text: SAMEA112879375
characteristics.characteristic: External Id
characteristics.text: Swedish University of Agricultural Sciences
characteristics.characteristic: INSDC center name
characteristics.text: 2023-04-05T18:29:14Z
characteristics.characteristic: INSDC first public
characteristics.text: 2023-05-02T19:28:11Z
characteristics.characteristic: INSDC last update
characteristics.text: public
characteristics.characteristic: INSDC status
characteristics.text: ERS14885988
characteristics.characteristic: SRA accession
characteristics.text: seec_wastewater_is_170_008
characteristics.characteristic: Submitter Id
characteristics.text: 0.5
characteristics.unit: L
characteristics.characteristic: amount or size of sample collected
characteristics.text: not provided
characteristics.characteristic: area of sampling site
characteristics.text: 2021-11-22
characteristics.characteristic: collection date
characteristics.text: Untreated wastewater was collected in Uppsala at Kungsängsverket over 1 week leading up to 2021-11-22. Daily samples were collected over 24 hours using a flow compensated sampler then combined flow-proportionally into a composite weekly sample. Viral genomic material was concentrated and extracted by the direct capture method using the Maxwell RSC Enviro Total Nucleic Acid Kit (Promega Corporation, Madison, WI, USA, Cat # AS1831) according to the manufacturer’s protocol (Promega, # TM663 Rev 4/22) at SEEC-SLU. Sequencing libraries were made using Ion AmpliSeq SARS-CoV-2 Insight Research Assay (Thermo Fisher Scientific, Waltham, MA, USA, Cat # A51306) and the SuperScript™ VILO™ cDNA Synthesis Kit (Thermo Fisher, # 11754050) according to the manufacturer’s protocols “Reverse transcribe RNA with the SuperScript™ VILO™ cDNA Synthesis Kit” (Thermo Fisher, # MAN0019277, Rev B.0, pp. 3-4) and “Prepare libraries on the Ion Chef™ Instrument” (Thermo Fisher, # MAN0024915 Rev B.0, Ch 4, pp. 42-43) at the National Genomic Infrastructure (NGI) at SciLifeLab in Uppsala, Sweden. Sequencing was performed on the Ion S5 XL System (Thermo Fisher, # A27214) multiplexing using Torrent Suite Software version 5.16.1 configured according to the manufacturer’s protocol (Thermo Fisher, # MAN0024915 Rev B.0, Ch 5) at NGI.
characteristics.characteristic: description
characteristics.text: Sweden
characteristics.characteristic: geographic location (country and/or sea)
characteristics.text: 59.84486
characteristics.unit: DD
characteristics.characteristic: geographic location (latitude)
characteristics.text: 17.65987
characteristics.unit: DD
characteristics.characteristic: geographic location (longitude)
characteristics.text: Uppsala
characteristics.characteristic: geographic location (region and locality)
characteristics.text: virus
characteristics.characteristic: investigation type
characteristics.text: Kungsängsverket
characteristics.characteristic: name of the sampling site
characteristics.text: Ion AmpliSeq SARS-CoV-2 Insight Research Assay with SuperScript™ VILO™ cDNA Synthesis Kit using Ion Chef™ (Thermo Fisher, # A51306, # 11754050, # MAN0019277, Rev B.0, pp. 3-4, # MAN0024915 Rev B.0, Ch 4, pp. 42-43)
characteristics.characteristic: nucleic acid amplification
characteristics.text: TNA concentration using Maxwell RSC Enviro Total Nucleic Acid Kit (Promega, # AS1831 & # TM663 Rev 4/22)
characteristics.characteristic: nucleic acid extraction
characteristics.text: wastewater metagenome
characteristics.characteristic: organism
characteristics.text: 180000
characteristics.characteristic: population size of the catchment area
characteristics.text: 2021-11-24
characteristics.characteristic: receipt date
characteristics.text: 1
characteristics.unit: day
characteristics.characteristic: sample storage duration
characteristics.text: not provided
characteristics.characteristic: sample storage location
characteristics.text: 2021-11-23
characteristics.characteristic: sample transportation date
characteristics.text: 1
characteristics.unit: day
characteristics.characteristic: sample transportation time
characteristics.text: 1 week period, flow-proportionally combined from daily samples, daily sampling over 24 hour period, using a flow compensated sampler
characteristics.characteristic: sampling time point
characteristics.text: wastewater metagenome
characteristics.characteristic: scientific_name
characteristics.text: wastewater treatment plant (municipal)
characteristics.characteristic: sewage type
characteristics.text: not provided
characteristics.characteristic: size of the catchment area
characteristics.text: 2697049
characteristics.characteristic: surveillance target
characteristics.text: Severe acute respiratory syndrome coronavirus 2
characteristics.characteristic: surveillance target (scientific name)
characteristics.text: 2021-W47 Uppsala Amplified SARS-CoV-2 RNA from wastewater
characteristics.characteristic: title