text: BIMSB

text: public

text: ArrayExpress

characteristic: broker name

text: blood vessel endothelial cell

text: house mouse

text: Protocols: The cell suspensions containing sorted BECs (7AAD-Ter119-CD45-PDPN-CD31+) were processed for single-cell RNA sequencing (scRNAseq) using the Chromium Single Cell 3’ library and Gel Bead Kit v2 (10X Genomics) according to the manufacturers guidelines. Single-cell RNA sequencing The cell suspensions containing sorted BECs (7AAD-Ter119-CD45-PDPN-CD31+) were processed for single-cell RNA sequencing (scRNAseq) using the Chromium Single Cell 3’ library and Gel Bead Kit v2 (10X Genomics) according to the manufacturers guidelines. The cell suspensions containing sorted BECs (7AAD-Ter119-CD45-PDPN-CD31+) were processed for single-cell RNA sequencing (scRNAseq) using the Chromium Single Cell 3’ library and Gel Bead Kit v2 (10X Genomics) according to the manufacturers guidelines.

text: normal

characteristic: disease

text: wild type genotype

characteristic: genotype

characteristic: immunophenotype

text: mouse 1

characteristic: individual

text: Mus musculus

text: Mus musculus

text: lymph node

characteristic: organism part

text: Mus musculus

characteristic: strain


status: PUBLIC

tag: attribute

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: BIMSB

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: ArrayExpress

text: blood vessel endothelial cell

characteristic: cell type

text: house mouse

characteristic: common name

characteristic: description

text: lymphoma

text: wild type genotype

text: tumour induction by transfer of E-Myc cells

characteristic: growth condition

text: mouse 2

text: Mus musculus

characteristic: organism

text: Mus musculus

text: lymph node

text: Mus musculus

characteristic: title


text: Enterobacter cloacae

characteristic: ArrayExpress-Species

text: SC

text: public

text: Enterobacter cloacae

text: Enterobacter cloacae

text: Enterobacter cloacae


characteristic: ENA-CHECKLIST

characteristic: GISAID Accession ID

text: OH-PACT consortium

text: public

tag: Namespace:OH-PACT consortium

text: ERASMUS MC, UNIVERISTY MEDICAL CENTER

characteristic: broker name

text: not provided

characteristic: collecting institution

characteristic: collection date

text: OH-PACT consortium

characteristic: collector name

text: Human coronavirus 2019

text: A SARS-CoV-2 specific multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 48 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome.

text: Netherlands

characteristic: geographic location (country and/or sea)

text: Noord-Brabant

characteristic: geographic location (region and locality)

text: Mink

characteristic: host common name

text: not collected

characteristic: host health state

text: Neovison vison

characteristic: host scientific name

text: not provided

characteristic: host sex

text: not provided

characteristic: host subject id

text: hCoV-19/mink/Netherlands/NB-EMC-55-19/2020

characteristic: isolate

text: not collected

characteristic: isolation source host associated

text: Severe acute respiratory syndrome coronavirus 2

text: active surveillance in response to outbreak

characteristic: sample capture status

text: OH-PACT consortium sample sequencing


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: OH-PACT consortium

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: ERASMUS MC, UNIVERISTY MEDICAL CENTER

text: not provided

text: OH-PACT consortium

text: Human coronavirus 2019

characteristic: common name

characteristic: description

text: Netherlands

text: Noord-Brabant

text: Mink

text: not collected

text: Neovison vison

text: not provided

text: not provided

text: hCoV-19/mink/Netherlands/NB-EMC-62-6/2020

text: not collected

characteristic: organism

text: OH-PACT consortium sample sequencing

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: GISAID Accession ID

text: OH-PACT consortium

text: public

text: ERASMUS MC, UNIVERISTY MEDICAL CENTER

characteristic: broker name

text: not provided

characteristic: collecting institution

characteristic: collection date

text: OH-PACT consortium

characteristic: collector name

text: Human coronavirus 2019

text: Netherlands

characteristic: geographic location (country and/or sea)

text: Noord-Brabant

characteristic: geographic location (region and locality)

text: Mink

characteristic: host common name

text: not collected

characteristic: host health state

text: Neovison vison

characteristic: host scientific name

text: not provided

characteristic: host sex

text: not provided

characteristic: host subject id

text: hCoV-19/mink/Netherlands/NB-EMC-14-41/2020

text: not collected

text: OH-PACT consortium sample sequencing


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: OH-PACT consortium

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: ERASMUS MC, UNIVERISTY MEDICAL CENTER

text: not provided

text: OH-PACT consortium

text: Human coronavirus 2019

characteristic: common name

text: Netherlands

text: Limburg

text: Mink

text: not collected

text: Neovison vison

text: not provided

text: not provided

text: hCoV-19/mink/Netherlands/NB-EMC-41-5/2020

characteristic: isolate

text: not collected

characteristic: isolation source host associated

characteristic: sample capture status

text: OH-PACT consortium sample sequencing


characteristic: ENA-CHECKLIST

characteristic: GISAID Accession ID

text: OH-PACT consortium

text: public

text: ERASMUS MC, UNIVERISTY MEDICAL CENTER

characteristic: broker name

text: not provided

characteristic: collecting institution

characteristic: collection date

text: OH-PACT consortium

characteristic: collector name

text: Human coronavirus 2019

characteristic: description

text: Netherlands

characteristic: geographic location (country and/or sea)

text: Noord-Brabant

characteristic: geographic location (region and locality)

text: Mink

characteristic: host common name

text: not collected

characteristic: host health state

text: Neovison vison

text: not provided

text: not provided

text: hCoV-19/mink/Netherlands/NB-EMC-28-7/2020

text: not collected

characteristic: organism

text: OH-PACT consortium sample sequencing

characteristic: title


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: OH-PACT consortium

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: ERASMUS MC, UNIVERISTY MEDICAL CENTER

text: not provided

text: OH-PACT consortium

text: Human coronavirus 2019

characteristic: common name

text: Netherlands

text: Noord-Brabant

text: Mink

text: not collected

text: Neovison vison

characteristic: host scientific name

text: not provided

characteristic: host sex

text: not provided

characteristic: host subject id

text: hCoV-19/mink/Netherlands/NB-EMC-56-6/2020

text: not collected

text: OH-PACT consortium sample sequencing


characteristic: ENA-CHECKLIST

characteristic: GISAID Accession ID

text: OH-PACT consortium

text: public

text: ERASMUS MC, UNIVERISTY MEDICAL CENTER

characteristic: broker name

text: not provided

characteristic: collecting institution

characteristic: collection date

text: OH-PACT consortium

characteristic: collector name

text: Human coronavirus 2019

characteristic: description

text: Netherlands

characteristic: geographic location (country and/or sea)

text: Noord-Brabant

characteristic: geographic location (region and locality)

text: Mink

characteristic: host common name

text: not collected

text: Neovison vison

text: not provided

text: not provided

text: hCoV-19/mink/Netherlands/NB-EMC-42-13/2020

characteristic: isolate

text: not collected

characteristic: isolation source host associated

characteristic: sample capture status

text: OH-PACT consortium sample sequencing


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: OH-PACT consortium

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: ERASMUS MC, UNIVERISTY MEDICAL CENTER

text: not provided

text: OH-PACT consortium

text: Human coronavirus 2019

characteristic: common name

text: Netherlands

text: Noord-Brabant

text: Mink

text: not collected

characteristic: host health state

text: Neovison vison

text: not provided

text: not provided

text: hCoV-19/mink/Netherlands/NB-EMC-10-13/2020

text: not collected

characteristic: organism

text: OH-PACT consortium sample sequencing

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: GISAID Accession ID

text: OH-PACT consortium

text: public

text: ERASMUS MC, UNIVERISTY MEDICAL CENTER

characteristic: broker name

text: not provided

characteristic: collecting institution

characteristic: collection date

text: OH-PACT consortium

characteristic: collector name

text: Human coronavirus 2019

characteristic: description

text: Netherlands

characteristic: geographic location (country and/or sea)

text: Noord-Brabant

characteristic: geographic location (region and locality)

text: Mink

characteristic: host common name

text: not collected

text: Neovison vison

characteristic: host scientific name

text: not provided

characteristic: host sex

text: not provided

characteristic: host subject id

text: hCoV-19/mink/Netherlands/NB-EMC-54-5/2020

text: not collected

text: OH-PACT consortium sample sequencing


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: OH-PACT consortium

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: ERASMUS MC, UNIVERISTY MEDICAL CENTER

text: not provided

text: OH-PACT consortium

text: Human coronavirus 2019

characteristic: common name

text: Netherlands

text: Noord-Brabant

text: Mink

text: not collected

text: Neovison vison

text: not provided

text: not provided

text: hCoV-19/mink/Netherlands/NB-EMC-14-25/2020

characteristic: isolate

text: not collected

characteristic: isolation source host associated

characteristic: sample capture status

text: OH-PACT consortium sample sequencing


characteristic: ENA-CHECKLIST

characteristic: GISAID Accession ID

text: OH-PACT consortium

text: public

text: ERASMUS MC, UNIVERISTY MEDICAL CENTER

characteristic: broker name

text: not provided

characteristic: collecting institution

characteristic: collection date

text: OH-PACT consortium

characteristic: collector name

text: Human coronavirus 2019

characteristic: description

text: Netherlands

characteristic: geographic location (country and/or sea)

text: Noord-Brabant

characteristic: geographic location (region and locality)

text: Mink

characteristic: host common name

text: not collected

characteristic: host health state

text: Neovison vison

text: not provided

text: not provided

text: hCoV-19/mink/Netherlands/NB-EMC-6-7/2020

text: not collected

characteristic: organism

text: OH-PACT consortium sample sequencing

characteristic: title


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: OH-PACT consortium

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: ERASMUS MC, UNIVERISTY MEDICAL CENTER

text: not provided

text: OH-PACT consortium

text: Human coronavirus 2019

characteristic: common name

text: Netherlands

text: Noord-Brabant

text: Mink

text: not collected

text: Neovison vison

characteristic: host scientific name

text: not provided

characteristic: host sex

text: not provided

characteristic: host subject id

text: hCoV-19/mink/Netherlands/NB-EMC-21-5/2020

text: not collected

text: OH-PACT consortium sample sequencing


characteristic: ENA-CHECKLIST

characteristic: GISAID Accession ID

text: OH-PACT consortium

text: public

text: ERASMUS MC, UNIVERISTY MEDICAL CENTER

characteristic: broker name

text: not provided

characteristic: collecting institution

characteristic: collection date

text: OH-PACT consortium

characteristic: collector name

text: Human coronavirus 2019

characteristic: description

text: Netherlands

characteristic: geographic location (country and/or sea)

text: Noord-Brabant

characteristic: geographic location (region and locality)

text: Mink

characteristic: host common name

text: not collected

text: Neovison vison

text: not provided

text: not provided

text: hCoV-19/mink/Netherlands/NB-EMC-21-1/2020

characteristic: isolate

text: not collected

characteristic: isolation source host associated

characteristic: sample capture status

text: OH-PACT consortium sample sequencing


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: OH-PACT consortium

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: ERASMUS MC, UNIVERISTY MEDICAL CENTER

text: not provided

text: OH-PACT consortium

text: Human coronavirus 2019

characteristic: common name

text: Netherlands

text: Limburg

text: Mink

text: not collected

characteristic: host health state

text: Neovison vison

text: not provided

text: not provided

text: hCoV-19/mink/Netherlands/NB-EMC-67-19/2020

text: not collected

characteristic: organism

text: OH-PACT consortium sample sequencing

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: GISAID Accession ID

text: OH-PACT consortium

text: public

text: ERASMUS MC, UNIVERISTY MEDICAL CENTER

characteristic: broker name

text: not provided

characteristic: collecting institution

characteristic: collection date

text: OH-PACT consortium

characteristic: collector name

text: Human coronavirus 2019

text: A SARS-CoV-2 specific multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 48 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome.

characteristic: description

text: Netherlands

characteristic: geographic location (country and/or sea)

text: Noord-Brabant

characteristic: geographic location (region and locality)

text: Mink

characteristic: host common name

text: not collected

text: Neovison vison

characteristic: host scientific name

text: not provided

characteristic: host sex

text: not provided

characteristic: host subject id

text: hCoV-19/mink/Netherlands/NB-EMC-51-20/2020

text: not collected

text: OH-PACT consortium sample sequencing


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: OH-PACT consortium

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: ERASMUS MC, UNIVERISTY MEDICAL CENTER

text: not provided

text: OH-PACT consortium

text: Human coronavirus 2019

characteristic: common name

text: Netherlands

text: Noord-Brabant

text: Mink

text: not collected

text: Neovison vison

text: not provided

text: not provided

text: hCoV-19/mink/Netherlands/NB-EMC-13-10/2020

characteristic: isolate

text: not collected

characteristic: isolation source host associated

text: Severe acute respiratory syndrome coronavirus 2

characteristic: sample capture status

text: OH-PACT consortium sample sequencing


characteristic: ENA-CHECKLIST

characteristic: GISAID Accession ID

text: OH-PACT consortium

text: public

text: ERASMUS MC, UNIVERISTY MEDICAL CENTER

characteristic: broker name

text: not provided

characteristic: collecting institution

characteristic: collection date

text: OH-PACT consortium

characteristic: collector name

text: Human coronavirus 2019

characteristic: description

text: Netherlands

characteristic: geographic location (country and/or sea)

text: Noord-Brabant

characteristic: geographic location (region and locality)

text: Mink

characteristic: host common name

text: not collected

characteristic: host health state

text: Neovison vison

text: not provided

text: not provided

text: hCoV-19/mink/Netherlands/NB-EMC-56-7/2020

text: not collected

characteristic: organism

text: active surveillance in response to outbreak

text: OH-PACT consortium sample sequencing

characteristic: title


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: OH-PACT consortium

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: ERASMUS MC, UNIVERISTY MEDICAL CENTER

text: not provided

text: OH-PACT consortium

text: Human coronavirus 2019

characteristic: common name

text: Netherlands

text: Noord-Brabant

text: Mink

text: not collected

text: Neovison vison

characteristic: host scientific name

text: not provided

characteristic: host sex

text: not provided

characteristic: host subject id

text: hCoV-19/mink/Netherlands/NB-EMC-36-3/2020

text: not collected

text: OH-PACT consortium sample sequencing


characteristic: ENA-CHECKLIST

characteristic: GISAID Accession ID

text: OH-PACT consortium

text: public

text: ERASMUS MC, UNIVERISTY MEDICAL CENTER

characteristic: broker name

text: not provided

characteristic: collecting institution

characteristic: collection date

text: OH-PACT consortium

characteristic: collector name

text: Human coronavirus 2019

characteristic: description

text: Netherlands

characteristic: geographic location (country and/or sea)

text: Noord-Brabant

characteristic: geographic location (region and locality)

text: Mink

characteristic: host common name

text: not collected

text: Neovison vison

text: not provided

text: not provided

text: hCoV-19/mink/Netherlands/NB-EMC-23-2/2020

characteristic: isolate

text: not collected

characteristic: isolation source host associated

characteristic: sample capture status

text: OH-PACT consortium sample sequencing


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: OH-PACT consortium

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: ERASMUS MC, UNIVERISTY MEDICAL CENTER

text: not provided

text: OH-PACT consortium

text: Human coronavirus 2019

characteristic: common name

text: Netherlands

text: Noord-Brabant

text: Mink

text: not collected

characteristic: host health state

text: Neovison vison

text: not provided

text: not provided

text: hCoV-19/mink/Netherlands/NB-EMC-59-6/2020

text: not collected

characteristic: organism

text: OH-PACT consortium sample sequencing

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: GISAID Accession ID

text: OH-PACT consortium

text: public

text: ERASMUS MC, UNIVERISTY MEDICAL CENTER

characteristic: broker name

text: not provided

characteristic: collecting institution

characteristic: collection date

text: OH-PACT consortium

characteristic: collector name

text: Human coronavirus 2019

characteristic: description

text: Netherlands

characteristic: geographic location (country and/or sea)

text: Limburg

characteristic: geographic location (region and locality)

text: Mink

characteristic: host common name

text: not collected

text: Neovison vison

characteristic: host scientific name

text: not provided

characteristic: host sex

text: not provided

characteristic: host subject id

text: hCoV-19/mink/Netherlands/NB-EMC-68-1/2020

text: not collected

text: OH-PACT consortium sample sequencing


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: OH-PACT consortium

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: ERASMUS MC, UNIVERISTY MEDICAL CENTER

text: not provided

text: OH-PACT consortium

text: Human coronavirus 2019

characteristic: common name

text: Netherlands

text: Noord-Brabant

text: Mink

text: not collected

text: Neovison vison

text: not provided

text: not provided

text: hCoV-19/mink/Netherlands/NB-EMC-23-1/2020

characteristic: isolate

text: not collected

characteristic: isolation source host associated

characteristic: sample capture status

text: OH-PACT consortium sample sequencing


characteristic: ENA-CHECKLIST

characteristic: GISAID Accession ID

text: OH-PACT consortium

text: public

text: ERASMUS MC, UNIVERISTY MEDICAL CENTER

characteristic: broker name

text: not provided

characteristic: collecting institution

characteristic: collection date

text: OH-PACT consortium

characteristic: collector name

text: Human coronavirus 2019

characteristic: description

text: Netherlands

characteristic: geographic location (country and/or sea)

text: Noord-Brabant

characteristic: geographic location (region and locality)

text: Mink

characteristic: host common name

text: not collected

characteristic: host health state

text: Neovison vison

text: not provided

text: not provided

text: hCoV-19/mink/Netherlands/NB-EMC-28-2/2020

text: not collected

characteristic: organism

text: OH-PACT consortium sample sequencing

characteristic: title


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: OH-PACT consortium

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: ERASMUS MC, UNIVERISTY MEDICAL CENTER

text: not provided

text: OH-PACT consortium

text: Human coronavirus 2019

characteristic: common name

text: Netherlands

text: Noord-Brabant

text: Mink

text: not collected

text: Neovison vison

characteristic: host scientific name

text: not provided

characteristic: host sex

text: not provided

characteristic: host subject id

text: hCoV-19/mink/Netherlands/NB-EMC-18-20/2020

text: not collected

text: OH-PACT consortium sample sequencing


characteristic: ENA-CHECKLIST

characteristic: GISAID Accession ID

text: OH-PACT consortium

text: public

text: ERASMUS MC, UNIVERISTY MEDICAL CENTER

characteristic: broker name

text: not provided

characteristic: collecting institution

characteristic: collection date

text: OH-PACT consortium

characteristic: collector name

text: Human coronavirus 2019

characteristic: description

text: Netherlands

characteristic: geographic location (country and/or sea)

text: Noord-Brabant

characteristic: geographic location (region and locality)

text: Mink

characteristic: host common name

text: not collected

text: Neovison vison

text: not provided

text: not provided

text: hCoV-19/mink/Netherlands/NB-EMC-57-2/2020

characteristic: isolate

text: not collected

characteristic: isolation source host associated

characteristic: sample capture status

text: OH-PACT consortium sample sequencing


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: OH-PACT consortium

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: ERASMUS MC, UNIVERISTY MEDICAL CENTER

text: not provided

text: OH-PACT consortium

text: Human coronavirus 2019

characteristic: common name

text: Netherlands

text: Noord-Brabant

text: Mink

text: not collected

characteristic: host health state

text: Neovison vison

text: not provided

text: not provided

text: hCoV-19/mink/Netherlands/NB-EMC-13-9/2020

text: not collected

characteristic: organism

text: OH-PACT consortium sample sequencing

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: GISAID Accession ID

text: OH-PACT consortium

text: public

text: ERASMUS MC, UNIVERISTY MEDICAL CENTER

characteristic: broker name

text: not provided

characteristic: collecting institution

characteristic: collection date

text: OH-PACT consortium

characteristic: collector name

text: Human coronavirus 2019

characteristic: description

text: Netherlands

characteristic: geographic location (country and/or sea)

text: Noord-Brabant

characteristic: geographic location (region and locality)

text: Mink

characteristic: host common name

text: not collected

text: Neovison vison

characteristic: host scientific name

text: not provided

characteristic: host sex

text: not provided

characteristic: host subject id

text: hCoV-19/mink/Netherlands/NB-EMC-11-3/2020

text: not collected

text: OH-PACT consortium sample sequencing


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: OH-PACT consortium

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: ERASMUS MC, UNIVERISTY MEDICAL CENTER

text: not provided

text: OH-PACT consortium

text: Human coronavirus 2019

characteristic: common name

text: Netherlands

text: Noord-Brabant

text: Mink

text: not collected

text: Neovison vison

text: not provided

text: not provided

text: hCoV-19/mink/Netherlands/NB-EMC-7-6/2020

characteristic: isolate

text: not collected

characteristic: isolation source host associated

characteristic: sample capture status

text: OH-PACT consortium sample sequencing


characteristic: ENA-CHECKLIST

characteristic: GISAID Accession ID

text: OH-PACT consortium

text: public

text: ERASMUS MC, UNIVERISTY MEDICAL CENTER

characteristic: broker name

text: not provided

characteristic: collecting institution

characteristic: collection date

text: OH-PACT consortium

characteristic: collector name

text: Human coronavirus 2019

text: A SARS-CoV-2 specific multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 48 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome.

characteristic: description

text: Netherlands

characteristic: geographic location (country and/or sea)

text: Noord-Brabant

characteristic: geographic location (region and locality)

text: Mink

characteristic: host common name

text: not collected

characteristic: host health state

text: Neovison vison

text: not provided

text: not provided

text: hCoV-19/mink/Netherlands/NB-EMC-6-14/2020

text: not collected

characteristic: organism

text: OH-PACT consortium sample sequencing

characteristic: title


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: OH-PACT consortium

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: ERASMUS MC, UNIVERISTY MEDICAL CENTER

text: not provided

text: OH-PACT consortium

text: Human coronavirus 2019

characteristic: common name

text: Netherlands

text: Noord-Brabant

text: Mink

text: not collected

text: Neovison vison

characteristic: host scientific name

text: not provided

characteristic: host sex

text: not provided

characteristic: host subject id

text: hCoV-19/mink/Netherlands/NB-EMC-58-2/2020

text: not collected

text: OH-PACT consortium sample sequencing


characteristic: ENA-CHECKLIST

characteristic: GISAID Accession ID

text: OH-PACT consortium

text: public

text: ERASMUS MC, UNIVERISTY MEDICAL CENTER

characteristic: broker name

text: not provided

characteristic: collecting institution

characteristic: collection date

text: OH-PACT consortium

characteristic: collector name

text: Human coronavirus 2019

characteristic: description

text: Netherlands

characteristic: geographic location (country and/or sea)

text: Noord-Brabant

characteristic: geographic location (region and locality)

text: Mink

characteristic: host common name

text: not collected

text: Neovison vison

text: not provided

text: not provided

text: hCoV-19/mink/Netherlands/NB-EMC-13-11/2020

characteristic: isolate

text: not collected

characteristic: isolation source host associated

text: Severe acute respiratory syndrome coronavirus 2

characteristic: sample capture status

text: OH-PACT consortium sample sequencing


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: OH-PACT consortium

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: ERASMUS MC, UNIVERISTY MEDICAL CENTER

text: not provided

text: OH-PACT consortium

text: Human coronavirus 2019

characteristic: common name

text: Netherlands

text: Noord-Brabant

text: Mink

text: not collected

characteristic: host health state

text: Neovison vison

text: not provided

text: not provided

text: hCoV-19/mink/Netherlands/NB-EMC-50-18/2020

text: not collected

characteristic: organism

text: active surveillance in response to outbreak

text: OH-PACT consortium sample sequencing

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: GISAID Accession ID

text: OH-PACT consortium

text: public

text: ERASMUS MC, UNIVERISTY MEDICAL CENTER

characteristic: broker name

text: not provided

characteristic: collecting institution

characteristic: collection date

text: OH-PACT consortium

characteristic: collector name

text: Human coronavirus 2019

characteristic: description

text: Netherlands

characteristic: geographic location (country and/or sea)

text: Limburg

characteristic: geographic location (region and locality)

text: Mink

characteristic: host common name

text: not collected

text: Neovison vison

characteristic: host scientific name

text: not provided

characteristic: host sex

text: not provided

characteristic: host subject id

text: hCoV-19/mink/Netherlands/NB-EMC-53-16/2020

text: not collected

text: OH-PACT consortium sample sequencing


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: OH-PACT consortium

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: ERASMUS MC, UNIVERISTY MEDICAL CENTER

text: not provided

text: OH-PACT consortium

text: Human coronavirus 2019

characteristic: common name

text: Netherlands

text: Limburg

text: Mink

text: not collected

text: Neovison vison

text: not provided

text: not provided

text: hCoV-19/mink/Netherlands/NB-EMC-39-5/2020

characteristic: isolate

text: not collected

characteristic: isolation source host associated

characteristic: sample capture status

text: OH-PACT consortium sample sequencing


characteristic: ENA-CHECKLIST

characteristic: GISAID Accession ID

text: OH-PACT consortium

text: public

text: ERASMUS MC, UNIVERISTY MEDICAL CENTER

characteristic: broker name

text: not provided

characteristic: collecting institution

characteristic: collection date

text: OH-PACT consortium

characteristic: collector name

text: Human coronavirus 2019

characteristic: description

text: Netherlands

characteristic: geographic location (country and/or sea)

text: Noord-Brabant

characteristic: geographic location (region and locality)

text: Mink

characteristic: host common name

text: not collected

characteristic: host health state

text: Neovison vison

text: not provided

text: not provided

text: hCoV-19/mink/Netherlands/NB-EMC-62-4/2020

text: not collected

characteristic: organism

text: OH-PACT consortium sample sequencing

characteristic: title


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: OH-PACT consortium

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: ERASMUS MC, UNIVERISTY MEDICAL CENTER

text: not provided

text: OH-PACT consortium

text: Human coronavirus 2019

characteristic: common name

text: Netherlands

text: Limburg

text: Mink

text: not collected

text: Neovison vison

characteristic: host scientific name

text: not provided

characteristic: host sex

text: not provided

characteristic: host subject id

text: hCoV-19/mink/Netherlands/NB-EMC-68-4/2020

text: not collected

text: OH-PACT consortium sample sequencing


characteristic: ENA-CHECKLIST

characteristic: GISAID Accession ID

text: OH-PACT consortium

text: public

text: ERASMUS MC, UNIVERISTY MEDICAL CENTER

characteristic: broker name

text: not provided

characteristic: collecting institution

characteristic: collection date

text: OH-PACT consortium

characteristic: collector name

text: Human coronavirus 2019

characteristic: description

text: Netherlands

characteristic: geographic location (country and/or sea)

text: Noord-Brabant

characteristic: geographic location (region and locality)

text: Mink

characteristic: host common name

text: not collected

text: Neovison vison

text: not provided

text: not provided

text: hCoV-19/mink/Netherlands/NB-EMC-18-14/2020

characteristic: isolate

text: not collected

characteristic: isolation source host associated

characteristic: sample capture status

text: OH-PACT consortium sample sequencing


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: OH-PACT consortium

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: ERASMUS MC, UNIVERISTY MEDICAL CENTER

text: not provided

text: OH-PACT consortium

text: Human coronavirus 2019

characteristic: common name

text: Netherlands

text: Noord-Brabant

text: Mink

text: not collected

characteristic: host health state

text: Neovison vison

text: not provided

text: not provided

text: hCoV-19/mink/Netherlands/NB-EMC-9-1/2020

text: not collected

characteristic: organism

text: OH-PACT consortium sample sequencing

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: GISAID Accession ID

text: OH-PACT consortium

text: public

text: ERASMUS MC, UNIVERISTY MEDICAL CENTER

characteristic: broker name

text: not provided

characteristic: collecting institution

characteristic: collection date

text: OH-PACT consortium

characteristic: collector name

text: Human coronavirus 2019

characteristic: description

text: Netherlands

characteristic: geographic location (country and/or sea)

text: Noord-Brabant

characteristic: geographic location (region and locality)

text: Mink

characteristic: host common name

text: not collected

text: Neovison vison

characteristic: host scientific name

text: not provided

characteristic: host sex

text: not provided

characteristic: host subject id

text: hCoV-19/mink/Netherlands/NB-EMC-23-5/2020

text: not collected

text: OH-PACT consortium sample sequencing


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: OH-PACT consortium

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: ERASMUS MC, UNIVERISTY MEDICAL CENTER

text: not provided

text: OH-PACT consortium

text: Human coronavirus 2019

characteristic: common name

text: Netherlands

text: Noord-Brabant

text: Mink

text: not collected

text: Neovison vison

text: not provided

text: not provided

text: hCoV-19/mink/Netherlands/NB-EMC-52-1/2020

characteristic: isolate

text: not collected

characteristic: isolation source host associated

characteristic: sample capture status

text: OH-PACT consortium sample sequencing


characteristic: ENA-CHECKLIST

characteristic: GISAID Accession ID

text: OH-PACT consortium

text: public

text: ERASMUS MC, UNIVERISTY MEDICAL CENTER

characteristic: broker name

text: not provided

characteristic: collecting institution

characteristic: collection date

text: OH-PACT consortium

characteristic: collector name

text: Human coronavirus 2019

characteristic: description

text: Netherlands

characteristic: geographic location (country and/or sea)

text: Noord-Brabant

characteristic: geographic location (region and locality)

text: Mink

characteristic: host common name

text: not collected

characteristic: host health state

text: Neovison vison

text: not provided

text: not provided

text: hCoV-19/mink/Netherlands/NB-EMC-10-2/2020

text: not collected

characteristic: organism

text: OH-PACT consortium sample sequencing

characteristic: title


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: OH-PACT consortium

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: ERASMUS MC, UNIVERISTY MEDICAL CENTER

text: not provided

text: OH-PACT consortium

text: Human coronavirus 2019

characteristic: common name

text: Netherlands

text: Noord-Brabant

text: Mink

text: not collected

text: Neovison vison

characteristic: host scientific name

text: not provided

characteristic: host sex

text: not provided

characteristic: host subject id

text: hCoV-19/mink/Netherlands/NB-EMC-60-2/2020

text: not collected

text: OH-PACT consortium sample sequencing


characteristic: ENA-CHECKLIST

characteristic: GISAID Accession ID

text: OH-PACT consortium

text: public

text: ERASMUS MC, UNIVERISTY MEDICAL CENTER

characteristic: broker name

text: not provided

characteristic: collecting institution

characteristic: collection date

text: OH-PACT consortium

characteristic: collector name

text: Human coronavirus 2019

text: A SARS-CoV-2 specific multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 48 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome.

characteristic: description

text: Netherlands

characteristic: geographic location (country and/or sea)

text: Noord-Brabant

characteristic: geographic location (region and locality)

text: Mink

characteristic: host common name

text: not collected

text: Neovison vison

text: not provided

text: not provided

text: hCoV-19/mink/Netherlands/NB-EMC-44-7/2020

characteristic: isolate

text: not collected

characteristic: isolation source host associated

characteristic: sample capture status

text: OH-PACT consortium sample sequencing


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: OH-PACT consortium

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: ERASMUS MC, UNIVERISTY MEDICAL CENTER

text: not provided

text: OH-PACT consortium

text: Human coronavirus 2019

characteristic: common name

text: Netherlands

text: Noord-Brabant

text: Mink

text: not collected

characteristic: host health state

text: Neovison vison

text: not provided

text: not provided

text: hCoV-19/mink/Netherlands/NB-EMC-7-2/2020

text: not collected

characteristic: organism

text: OH-PACT consortium sample sequencing

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: GISAID Accession ID

text: OH-PACT consortium

text: public

text: ERASMUS MC, UNIVERISTY MEDICAL CENTER

characteristic: broker name

text: not provided

characteristic: collecting institution

characteristic: collection date

text: OH-PACT consortium

characteristic: collector name

text: Human coronavirus 2019

characteristic: description

text: Netherlands

characteristic: geographic location (country and/or sea)

text: Noord-Brabant

characteristic: geographic location (region and locality)

text: Mink

characteristic: host common name

text: not collected

text: Neovison vison

characteristic: host scientific name

text: not provided

characteristic: host sex

text: not provided

characteristic: host subject id

text: hCoV-19/mink/Netherlands/NB-EMC-11-1/2020

text: not collected

text: OH-PACT consortium sample sequencing


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: OH-PACT consortium

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: ERASMUS MC, UNIVERISTY MEDICAL CENTER

text: not provided

text: OH-PACT consortium

text: Human coronavirus 2019

characteristic: common name

text: Netherlands

text: Noord-Brabant

text: Mink

text: not collected

text: Neovison vison

text: not provided

text: not provided

text: hCoV-19/mink/Netherlands/NB-EMC-65-10/2020

characteristic: isolate

text: not collected

characteristic: isolation source host associated

text: Severe acute respiratory syndrome coronavirus 2

characteristic: sample capture status

text: OH-PACT consortium sample sequencing


characteristic: ENA-CHECKLIST

characteristic: GISAID Accession ID

text: OH-PACT consortium

text: public

text: ERASMUS MC, UNIVERISTY MEDICAL CENTER

characteristic: broker name

text: not provided

characteristic: collecting institution

characteristic: collection date

text: OH-PACT consortium

characteristic: collector name

text: Human coronavirus 2019

characteristic: description

text: Netherlands

characteristic: geographic location (country and/or sea)

text: Noord-Brabant

characteristic: geographic location (region and locality)

text: Mink

characteristic: host common name

text: not collected

characteristic: host health state

text: Neovison vison

text: not provided

text: not provided

text: hCoV-19/mink/Netherlands/NB-EMC-33-5/2020

text: not collected

characteristic: organism

text: active surveillance in response to outbreak

text: OH-PACT consortium sample sequencing

characteristic: title


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: OH-PACT consortium

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: ERASMUS MC, UNIVERISTY MEDICAL CENTER

text: not provided

text: OH-PACT consortium

text: Human coronavirus 2019

characteristic: common name

text: Netherlands

text: Noord-Brabant

text: Mink

text: not collected

text: Neovison vison

characteristic: host scientific name

text: not provided

characteristic: host sex

text: not provided

characteristic: host subject id

text: hCoV-19/mink/Netherlands/NB-EMC-57-5/2020

text: not collected

text: OH-PACT consortium sample sequencing


characteristic: ENA-CHECKLIST

characteristic: GISAID Accession ID

text: OH-PACT consortium

text: public

text: ERASMUS MC, UNIVERISTY MEDICAL CENTER

characteristic: broker name

text: not provided

characteristic: collecting institution

characteristic: collection date

text: OH-PACT consortium

characteristic: collector name

text: Human coronavirus 2019

characteristic: description

text: Netherlands

characteristic: geographic location (country and/or sea)

text: Limburg

characteristic: geographic location (region and locality)

text: Mink

characteristic: host common name

text: not collected

text: Neovison vison

text: not provided

text: not provided

text: hCoV-19/mink/Netherlands/NB-EMC-12-37/2020

characteristic: isolate

text: not collected

characteristic: isolation source host associated

characteristic: sample capture status

text: OH-PACT consortium sample sequencing


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: OH-PACT consortium

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: ERASMUS MC, UNIVERISTY MEDICAL CENTER

text: not provided

text: OH-PACT consortium

text: Human coronavirus 2019

characteristic: common name

text: Netherlands

text: Noord-Brabant

text: Mink

text: not collected

characteristic: host health state

text: Neovison vison

text: not provided

text: not provided

text: hCoV-19/mink/Netherlands/NB-EMC-18-15/2020

text: not collected

characteristic: organism

text: OH-PACT consortium sample sequencing

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: GISAID Accession ID

text: OH-PACT consortium

text: public

text: ERASMUS MC, UNIVERISTY MEDICAL CENTER

characteristic: broker name

text: not provided

characteristic: collecting institution

characteristic: collection date

text: OH-PACT consortium

characteristic: collector name

text: Human coronavirus 2019

characteristic: description

text: Netherlands

characteristic: geographic location (country and/or sea)

text: Noord-Brabant

characteristic: geographic location (region and locality)

text: Mink

characteristic: host common name

text: not collected

text: Neovison vison

characteristic: host scientific name

text: not provided

characteristic: host sex

text: not provided

characteristic: host subject id

text: hCoV-19/mink/Netherlands/NB-EMC-16-14/2020

text: not collected

text: OH-PACT consortium sample sequencing


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: OH-PACT consortium

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: ERASMUS MC, UNIVERISTY MEDICAL CENTER

text: not provided

text: OH-PACT consortium

text: Human coronavirus 2019

characteristic: common name

text: Netherlands

text: Noord-Brabant

text: Mink

text: not collected

text: Neovison vison

text: not provided

text: not provided

text: hCoV-19/mink/Netherlands/NB-EMC-61-3/2020

characteristic: isolate

text: not collected

characteristic: isolation source host associated

characteristic: sample capture status

text: OH-PACT consortium sample sequencing


characteristic: ENA-CHECKLIST

characteristic: GISAID Accession ID

text: OH-PACT consortium

text: public

text: ERASMUS MC, UNIVERISTY MEDICAL CENTER

characteristic: broker name

text: not provided

characteristic: collecting institution

characteristic: collection date

text: OH-PACT consortium

characteristic: collector name

text: Human coronavirus 2019

characteristic: description

text: Netherlands

characteristic: geographic location (country and/or sea)

text: Noord-Brabant

characteristic: geographic location (region and locality)

text: Mink

characteristic: host common name

text: not collected

characteristic: host health state

text: Neovison vison

text: not provided

text: not provided

text: hCoV-19/mink/Netherlands/NB-EMC-64-3/2020

text: not collected

characteristic: organism

text: OH-PACT consortium sample sequencing

characteristic: title


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: OH-PACT consortium

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: ERASMUS MC, UNIVERISTY MEDICAL CENTER

text: not provided

text: OH-PACT consortium

text: Human coronavirus 2019

characteristic: common name

text: Netherlands

text: Noord-Brabant

text: Mink

text: not collected

text: Neovison vison

characteristic: host scientific name

text: not provided

characteristic: host sex

text: not provided

characteristic: host subject id

text: hCoV-19/mink/Netherlands/NB-EMC-49-1/2020

text: not collected

text: OH-PACT consortium sample sequencing


characteristic: ENA-CHECKLIST

characteristic: GISAID Accession ID

text: OH-PACT consortium

text: public

text: ERASMUS MC, UNIVERISTY MEDICAL CENTER

characteristic: broker name

text: not provided

characteristic: collecting institution

characteristic: collection date

text: OH-PACT consortium

characteristic: collector name

text: Human coronavirus 2019

characteristic: description

text: Netherlands

characteristic: geographic location (country and/or sea)

text: Noord-Brabant

characteristic: geographic location (region and locality)

text: Mink

characteristic: host common name

text: not collected

text: Neovison vison

text: not provided

text: not provided

text: hCoV-19/mink/Netherlands/NB-EMC-19-15/2020

characteristic: isolate

text: not collected

characteristic: isolation source host associated

characteristic: sample capture status

text: OH-PACT consortium sample sequencing


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: OH-PACT consortium

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: ERASMUS MC, UNIVERISTY MEDICAL CENTER

text: not provided

text: OH-PACT consortium

text: Human coronavirus 2019

characteristic: common name

text: Netherlands

text: Noord-Brabant

text: Mink

text: not collected

characteristic: host health state

text: Neovison vison

text: not provided

text: not provided

text: hCoV-19/mink/Netherlands/NB-EMC-33-3/2020

text: not collected

characteristic: organism

text: OH-PACT consortium sample sequencing

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: GISAID Accession ID

text: OH-PACT consortium

text: public

text: ERASMUS MC, UNIVERISTY MEDICAL CENTER

characteristic: broker name

text: not provided

characteristic: collecting institution

characteristic: collection date

text: OH-PACT consortium

characteristic: collector name

text: Human coronavirus 2019

text: A SARS-CoV-2 specific multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 48 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome.

characteristic: description

text: Netherlands

characteristic: geographic location (country and/or sea)

text: Noord-Brabant

characteristic: geographic location (region and locality)

text: Mink

characteristic: host common name

text: not collected

text: Neovison vison

characteristic: host scientific name

text: not provided

characteristic: host sex

text: not provided

characteristic: host subject id

text: hCoV-19/mink/Netherlands/NB-EMC-20-4/2020

text: not collected

text: OH-PACT consortium sample sequencing


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: OH-PACT consortium

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: ERASMUS MC, UNIVERISTY MEDICAL CENTER

text: not provided

text: OH-PACT consortium

text: Human coronavirus 2019

characteristic: common name

text: Netherlands

text: Noord-Brabant

text: Mink

text: not collected

text: Neovison vison

text: not provided

text: not provided

text: hCoV-19/mink/Netherlands/NB-EMC-35-5/2020

characteristic: isolate

text: not collected

characteristic: isolation source host associated

characteristic: sample capture status

text: OH-PACT consortium sample sequencing


characteristic: ENA-CHECKLIST

characteristic: GISAID Accession ID

text: OH-PACT consortium

text: public

text: ERASMUS MC, UNIVERISTY MEDICAL CENTER

characteristic: broker name

text: not provided

characteristic: collecting institution

characteristic: collection date

text: OH-PACT consortium

characteristic: collector name

text: Human coronavirus 2019

characteristic: description

text: Netherlands

characteristic: geographic location (country and/or sea)

text: Noord-Brabant

characteristic: geographic location (region and locality)

text: Mink

characteristic: host common name

text: not collected

characteristic: host health state

text: Neovison vison

text: not provided

text: not provided

text: hCoV-19/mink/Netherlands/NB-EMC-55-6/2020

text: not collected

characteristic: organism

text: OH-PACT consortium sample sequencing

characteristic: title


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: OH-PACT consortium

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: ERASMUS MC, UNIVERISTY MEDICAL CENTER

text: not provided

text: OH-PACT consortium

text: Human coronavirus 2019

characteristic: common name

text: Netherlands

text: Noord-Brabant

text: Mink

text: not collected

text: Neovison vison

characteristic: host scientific name

text: not provided

characteristic: host sex

text: not provided

characteristic: host subject id

text: hCoV-19/mink/Netherlands/NB-EMC-6-3/2020

text: not collected

text: OH-PACT consortium sample sequencing


characteristic: ENA-CHECKLIST

characteristic: GISAID Accession ID

text: OH-PACT consortium

text: public

text: ERASMUS MC, UNIVERISTY MEDICAL CENTER

characteristic: broker name

text: not provided

characteristic: collecting institution

characteristic: collection date

text: OH-PACT consortium

characteristic: collector name

text: Human coronavirus 2019

characteristic: description

text: Netherlands

characteristic: geographic location (country and/or sea)

text: Noord-Brabant

characteristic: geographic location (region and locality)

text: Mink

characteristic: host common name

text: not collected

text: Neovison vison

text: not provided

text: not provided

text: hCoV-19/mink/Netherlands/NB-EMC-45-4/2020

characteristic: isolate

text: not collected

characteristic: isolation source host associated

text: Severe acute respiratory syndrome coronavirus 2

characteristic: sample capture status

text: OH-PACT consortium sample sequencing


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: OH-PACT consortium

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: ERASMUS MC, UNIVERISTY MEDICAL CENTER

text: not provided

text: OH-PACT consortium

text: Human coronavirus 2019

characteristic: common name

text: Netherlands

text: Noord-Brabant

text: Mink

text: not collected

characteristic: host health state

text: Neovison vison

text: not provided

text: not provided

text: hCoV-19/mink/Netherlands/NB-EMC-6-18/2020

text: not collected

characteristic: organism

text: active surveillance in response to outbreak

text: OH-PACT consortium sample sequencing

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: GISAID Accession ID

text: OH-PACT consortium

text: public

text: ERASMUS MC, UNIVERISTY MEDICAL CENTER

characteristic: broker name

text: not provided

characteristic: collecting institution

characteristic: collection date

text: OH-PACT consortium

characteristic: collector name

text: Human coronavirus 2019

characteristic: description

text: Netherlands

characteristic: geographic location (country and/or sea)

text: Noord-Brabant

characteristic: geographic location (region and locality)

text: Mink

characteristic: host common name

text: not collected

text: Neovison vison

characteristic: host scientific name

text: not provided

characteristic: host sex

text: not provided

characteristic: host subject id

text: hCoV-19/mink/Netherlands/NB-EMC-13-4/2020

text: not collected

text: OH-PACT consortium sample sequencing


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: OH-PACT consortium

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: ERASMUS MC, UNIVERISTY MEDICAL CENTER

text: not provided

text: OH-PACT consortium

text: Human coronavirus 2019

characteristic: common name

text: Netherlands

text: Noord-Brabant

text: Mink

text: not collected

text: Neovison vison

text: not provided

text: not provided

text: hCoV-19/mink/Netherlands/NB-EMC-58-1/2020

characteristic: isolate

text: not collected

characteristic: isolation source host associated

characteristic: sample capture status

text: OH-PACT consortium sample sequencing


characteristic: ENA-CHECKLIST

characteristic: GISAID Accession ID

text: OH-PACT consortium

text: public

text: ERASMUS MC, UNIVERISTY MEDICAL CENTER

characteristic: broker name

text: not provided

characteristic: collecting institution

characteristic: collection date

text: OH-PACT consortium

characteristic: collector name

text: Human coronavirus 2019

characteristic: description

text: Netherlands

characteristic: geographic location (country and/or sea)

text: Noord-Brabant

characteristic: geographic location (region and locality)

text: Mink

characteristic: host common name

text: not collected

characteristic: host health state

text: Neovison vison

text: not provided

text: not provided

text: hCoV-19/mink/Netherlands/NB-EMC-15-11/2020

text: not collected

characteristic: organism

text: OH-PACT consortium sample sequencing

characteristic: title


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: OH-PACT consortium

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: ERASMUS MC, UNIVERISTY MEDICAL CENTER

text: not provided

text: OH-PACT consortium

text: Human coronavirus 2019

characteristic: common name

text: Netherlands

text: Noord-Brabant

text: Mink

text: not collected

text: Neovison vison

characteristic: host scientific name

text: not provided

characteristic: host sex

text: not provided

characteristic: host subject id

text: hCoV-19/mink/Netherlands/NB-EMC-25-12/2020

text: not collected

text: OH-PACT consortium sample sequencing


characteristic: ENA-CHECKLIST

characteristic: GISAID Accession ID

text: OH-PACT consortium

text: public

text: ERASMUS MC, UNIVERISTY MEDICAL CENTER

characteristic: broker name

text: not provided

characteristic: collecting institution

characteristic: collection date

text: OH-PACT consortium

characteristic: collector name

text: Human coronavirus 2019

characteristic: description

text: Netherlands

characteristic: geographic location (country and/or sea)

text: Noord-Brabant

characteristic: geographic location (region and locality)

text: Mink

characteristic: host common name

text: not collected

text: Neovison vison

text: not provided

text: not provided

text: hCoV-19/mink/Netherlands/NB-EMC-23-3/2020

characteristic: isolate

text: not collected

characteristic: isolation source host associated

characteristic: sample capture status

text: OH-PACT consortium sample sequencing


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: OH-PACT consortium

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: ERASMUS MC, UNIVERISTY MEDICAL CENTER

text: not provided

text: OH-PACT consortium

text: Human coronavirus 2019

characteristic: common name

text: Netherlands

text: Noord-Brabant

text: Mink

text: not collected

characteristic: host health state

text: Neovison vison

text: not provided

text: not provided

text: hCoV-19/mink/Netherlands/NB-EMC-31-18/2020

text: not collected

characteristic: organism

text: OH-PACT consortium sample sequencing

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: GISAID Accession ID

text: OH-PACT consortium

text: public

text: ERASMUS MC, UNIVERISTY MEDICAL CENTER

characteristic: broker name

text: not provided

characteristic: collecting institution

characteristic: collection date

text: OH-PACT consortium

characteristic: collector name

text: Human coronavirus 2019

characteristic: description

text: Netherlands

characteristic: geographic location (country and/or sea)

text: Noord-Brabant

characteristic: geographic location (region and locality)

text: Mink

characteristic: host common name

text: not collected

text: Neovison vison

characteristic: host scientific name

text: not provided

characteristic: host sex

text: not provided

characteristic: host subject id

text: hCoV-19/mink/Netherlands/NB-EMC-47-2/2020

text: not collected

text: OH-PACT consortium sample sequencing


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: OH-PACT consortium

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: ERASMUS MC, UNIVERISTY MEDICAL CENTER

text: not provided

text: OH-PACT consortium

text: Human coronavirus 2019

characteristic: common name

text: Netherlands

text: Noord-Brabant

text: Mink

text: not collected

text: Neovison vison

text: not provided

text: not provided

text: hCoV-19/mink/Netherlands/NB-EMC-6-15/2020

characteristic: isolate

text: not collected

characteristic: isolation source host associated

characteristic: sample capture status

text: OH-PACT consortium sample sequencing


characteristic: ENA-CHECKLIST

characteristic: GISAID Accession ID

text: OH-PACT consortium

text: public

text: ERASMUS MC, UNIVERISTY MEDICAL CENTER

characteristic: broker name

text: not provided

characteristic: collecting institution

characteristic: collection date

text: OH-PACT consortium

characteristic: collector name

text: Human coronavirus 2019

text: A SARS-CoV-2 specific multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 48 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome.

characteristic: description

text: Netherlands

characteristic: geographic location (country and/or sea)

text: Noord-Brabant

characteristic: geographic location (region and locality)

text: Mink

characteristic: host common name

text: not collected

characteristic: host health state

text: Neovison vison

text: not provided

text: not provided

text: hCoV-19/mink/Netherlands/NB-EMC-18-17/2020

text: not collected

characteristic: organism

text: OH-PACT consortium sample sequencing

characteristic: title


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: OH-PACT consortium

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: ERASMUS MC, UNIVERISTY MEDICAL CENTER

text: not provided

text: OH-PACT consortium

text: Human coronavirus 2019

characteristic: common name

text: Netherlands

text: Noord-Brabant

text: Mink

text: not collected

text: Neovison vison

characteristic: host scientific name

text: not provided

characteristic: host sex

text: not provided

characteristic: host subject id

text: hCoV-19/mink/Netherlands/NB-EMC-64-1/2020

text: not collected

text: OH-PACT consortium sample sequencing


characteristic: ENA-CHECKLIST

characteristic: GISAID Accession ID

text: OH-PACT consortium

text: public

text: ERASMUS MC, UNIVERISTY MEDICAL CENTER

characteristic: broker name

text: not provided

characteristic: collecting institution

characteristic: collection date

text: OH-PACT consortium

characteristic: collector name

text: Human coronavirus 2019

characteristic: description

text: Netherlands

characteristic: geographic location (country and/or sea)

text: Limburg

characteristic: geographic location (region and locality)

text: Mink

characteristic: host common name

text: not collected

text: Neovison vison

text: not provided

text: not provided

text: hCoV-19/mink/Netherlands/NB-EMC-34-4/2020

characteristic: isolate

text: not collected

characteristic: isolation source host associated

characteristic: sample capture status

text: OH-PACT consortium sample sequencing


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: OH-PACT consortium

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: ERASMUS MC, UNIVERISTY MEDICAL CENTER

text: not provided

text: OH-PACT consortium

text: Human coronavirus 2019

characteristic: common name

text: Netherlands

text: Limburg

text: Mink

text: not collected

characteristic: host health state

text: Neovison vison

text: not provided

text: not provided

text: hCoV-19/mink/Netherlands/NB-EMC-32-18/2020

text: not collected

characteristic: organism

text: OH-PACT consortium sample sequencing

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: GISAID Accession ID

text: OH-PACT consortium

text: public

text: ERASMUS MC, UNIVERISTY MEDICAL CENTER

characteristic: broker name

text: not provided

characteristic: collecting institution

characteristic: collection date

text: OH-PACT consortium

characteristic: collector name

text: Human coronavirus 2019

characteristic: description

text: Netherlands

characteristic: geographic location (country and/or sea)

text: Noord-Brabant

characteristic: geographic location (region and locality)

text: Mink

characteristic: host common name

text: not collected

text: Neovison vison

characteristic: host scientific name

text: not provided

characteristic: host sex

text: not provided

characteristic: host subject id

text: hCoV-19/mink/Netherlands/NB-EMC-38-40/2020

text: not collected

text: OH-PACT consortium sample sequencing


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: OH-PACT consortium

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: ERASMUS MC, UNIVERISTY MEDICAL CENTER

text: not provided

text: OH-PACT consortium

text: Human coronavirus 2019

characteristic: common name

text: Netherlands

text: Noord-Brabant

text: Mink

text: not collected

text: Neovison vison

text: not provided

text: not provided

text: hCoV-19/mink/Netherlands/NB-EMC-25-11/2020

characteristic: isolate

text: not collected

characteristic: isolation source host associated

text: Severe acute respiratory syndrome coronavirus 2

characteristic: sample capture status

text: OH-PACT consortium sample sequencing


characteristic: ENA-CHECKLIST

characteristic: GISAID Accession ID

text: OH-PACT consortium

text: public

text: ERASMUS MC, UNIVERISTY MEDICAL CENTER

characteristic: broker name

text: not provided

characteristic: collecting institution

characteristic: collection date

text: OH-PACT consortium

characteristic: collector name

text: Human coronavirus 2019

characteristic: description

text: Netherlands

characteristic: geographic location (country and/or sea)

text: Noord-Brabant

characteristic: geographic location (region and locality)

text: Mink

characteristic: host common name

text: not collected

characteristic: host health state

text: Neovison vison

text: not provided

text: not provided

text: hCoV-19/mink/Netherlands/NB-EMC-7-1/2020

text: not collected

characteristic: organism

text: active surveillance in response to outbreak

text: OH-PACT consortium sample sequencing

characteristic: title


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: OH-PACT consortium

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: ERASMUS MC, UNIVERISTY MEDICAL CENTER

text: not provided

text: OH-PACT consortium

text: Human coronavirus 2019

characteristic: common name

text: Netherlands

text: Noord-Brabant

text: Mink

text: not collected

text: Neovison vison

characteristic: host scientific name

text: not provided

characteristic: host sex

text: not provided

characteristic: host subject id

text: hCoV-19/mink/Netherlands/NB-EMC-61-2/2020

text: not collected

text: OH-PACT consortium sample sequencing


characteristic: ENA-CHECKLIST

characteristic: GISAID Accession ID

text: OH-PACT consortium

text: public

text: ERASMUS MC, UNIVERISTY MEDICAL CENTER

characteristic: broker name

text: not provided

characteristic: collecting institution

characteristic: collection date

text: OH-PACT consortium

characteristic: collector name

text: Human coronavirus 2019

characteristic: description

text: Netherlands

characteristic: geographic location (country and/or sea)

text: Noord-Brabant

characteristic: geographic location (region and locality)

text: Mink

characteristic: host common name

text: not collected

text: Neovison vison

text: not provided

text: not provided

text: hCoV-19/mink/Netherlands/NB-EMC-60-4/2020

characteristic: isolate

text: not collected

characteristic: isolation source host associated

characteristic: sample capture status

text: OH-PACT consortium sample sequencing


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: OH-PACT consortium

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: ERASMUS MC, UNIVERISTY MEDICAL CENTER

text: not provided

text: OH-PACT consortium

text: Human coronavirus 2019

characteristic: common name

text: Netherlands

text: Noord-Brabant

text: Mink

text: not collected

characteristic: host health state

text: Neovison vison

text: not provided

text: not provided

text: hCoV-19/mink/Netherlands/NB-EMC-64-7/2020

text: not collected

characteristic: organism

text: OH-PACT consortium sample sequencing

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: GISAID Accession ID

text: OH-PACT consortium

text: public

text: ERASMUS MC, UNIVERISTY MEDICAL CENTER

characteristic: broker name

text: not provided

characteristic: collecting institution

characteristic: collection date

text: OH-PACT consortium

characteristic: collector name

text: Human coronavirus 2019

characteristic: description

text: Netherlands

characteristic: geographic location (country and/or sea)

text: Noord-Brabant

characteristic: geographic location (region and locality)

text: Mink

characteristic: host common name

text: not collected

text: Neovison vison

characteristic: host scientific name

text: not provided

characteristic: host sex

text: not provided

characteristic: host subject id

text: hCoV-19/mink/Netherlands/NB-EMC-50-2/2020

text: not collected

text: OH-PACT consortium sample sequencing


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: OH-PACT consortium

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: ERASMUS MC, UNIVERISTY MEDICAL CENTER

text: not provided

text: OH-PACT consortium

text: Human coronavirus 2019

characteristic: common name

text: Netherlands

text: Noord-Brabant

text: Mink

text: not collected

text: Neovison vison

text: not provided

text: not provided

text: hCoV-19/mink/Netherlands/NB-EMC-17-10/2020

characteristic: isolate

text: not collected

characteristic: isolation source host associated

characteristic: sample capture status

text: OH-PACT consortium sample sequencing


characteristic: ENA-CHECKLIST

characteristic: GISAID Accession ID

text: OH-PACT consortium

text: public

text: ERASMUS MC, UNIVERISTY MEDICAL CENTER

characteristic: broker name

text: not provided

characteristic: collecting institution

characteristic: collection date

text: OH-PACT consortium

characteristic: collector name

text: Human coronavirus 2019

characteristic: description

text: Netherlands

characteristic: geographic location (country and/or sea)

text: Noord-Brabant

characteristic: geographic location (region and locality)

text: Mink

characteristic: host common name

text: not collected

characteristic: host health state

text: Neovison vison

text: not provided

text: not provided

text: hCoV-19/mink/Netherlands/NB-EMC-64-2/2020

text: not collected

characteristic: organism

text: OH-PACT consortium sample sequencing

characteristic: title


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: OH-PACT consortium

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: ERASMUS MC, UNIVERISTY MEDICAL CENTER

text: not provided

text: OH-PACT consortium

text: Human coronavirus 2019

characteristic: common name

text: Netherlands

text: Limburg

text: Mink

text: not collected

text: Neovison vison

characteristic: host scientific name

text: not provided

characteristic: host sex

text: not provided

characteristic: host subject id

text: hCoV-19/mink/Netherlands/NB-EMC-39-2/2020

text: not collected

text: OH-PACT consortium sample sequencing


characteristic: ENA-CHECKLIST

characteristic: GISAID Accession ID

text: OH-PACT consortium

text: public

text: ERASMUS MC, UNIVERISTY MEDICAL CENTER

characteristic: broker name

text: not provided

characteristic: collecting institution

characteristic: collection date

text: OH-PACT consortium

characteristic: collector name

text: Human coronavirus 2019

text: A SARS-CoV-2 specific multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 48 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome.

characteristic: description

text: Netherlands

characteristic: geographic location (country and/or sea)

text: Limburg

characteristic: geographic location (region and locality)

text: Mink

characteristic: host common name

text: not collected

text: Neovison vison

text: not provided

text: not provided

text: hCoV-19/mink/Netherlands/NB-EMC-41-6/2020

characteristic: isolate

text: not collected

characteristic: isolation source host associated

characteristic: sample capture status

text: OH-PACT consortium sample sequencing


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: OH-PACT consortium

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: ERASMUS MC, UNIVERISTY MEDICAL CENTER

text: not provided

text: OH-PACT consortium

text: Human coronavirus 2019

characteristic: common name

text: Netherlands

text: Noord-Brabant

text: Mink

text: not collected

characteristic: host health state

text: Neovison vison

text: not provided

text: not provided

text: hCoV-19/mink/Netherlands/NB-EMC-36-2/2020

text: not collected

characteristic: organism

text: OH-PACT consortium sample sequencing

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: GISAID Accession ID

text: OH-PACT consortium

text: public

text: ERASMUS MC, UNIVERISTY MEDICAL CENTER

characteristic: broker name

text: not provided

characteristic: collecting institution

characteristic: collection date

text: OH-PACT consortium

characteristic: collector name

text: Human coronavirus 2019

characteristic: description

text: Netherlands

characteristic: geographic location (country and/or sea)

text: Noord-Brabant

characteristic: geographic location (region and locality)

text: Mink

characteristic: host common name

text: not collected

text: Neovison vison

characteristic: host scientific name

text: not provided

characteristic: host sex

text: not provided

characteristic: host subject id

text: hCoV-19/mink/Netherlands/NB-EMC-57-4/2020

text: not collected

text: OH-PACT consortium sample sequencing


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: OH-PACT consortium

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: ERASMUS MC, UNIVERISTY MEDICAL CENTER

text: not provided

text: OH-PACT consortium

text: Human coronavirus 2019

characteristic: common name

text: Netherlands

text: Noord-Brabant

text: Mink

text: not collected

text: Neovison vison

text: not provided

text: not provided

text: hCoV-19/mink/Netherlands/NB-EMC-52-4/2020

characteristic: isolate

text: not collected

characteristic: isolation source host associated

characteristic: sample capture status

text: OH-PACT consortium sample sequencing


characteristic: ENA-CHECKLIST

characteristic: GISAID Accession ID

text: OH-PACT consortium

text: public

text: ERASMUS MC, UNIVERISTY MEDICAL CENTER

characteristic: broker name

text: not provided

characteristic: collecting institution

characteristic: collection date

text: OH-PACT consortium

characteristic: collector name

text: Human coronavirus 2019

characteristic: description

text: Netherlands

characteristic: geographic location (country and/or sea)

text: Noord-Brabant

characteristic: geographic location (region and locality)

text: Mink

characteristic: host common name

text: not collected

characteristic: host health state

text: Neovison vison

text: not provided

text: not provided

text: hCoV-19/mink/Netherlands/NB-EMC-20-3/2020

text: not collected

characteristic: organism

text: OH-PACT consortium sample sequencing

characteristic: title


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: OH-PACT consortium

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: ERASMUS MC, UNIVERISTY MEDICAL CENTER

text: not provided

text: OH-PACT consortium

text: Human coronavirus 2019

characteristic: common name

text: Netherlands

text: Noord-Brabant

text: Mink

text: not collected

text: Neovison vison

characteristic: host scientific name

text: not provided

characteristic: host sex

text: not provided

characteristic: host subject id

text: hCoV-19/mink/Netherlands/NB-EMC-26-5/2020

text: not collected

text: OH-PACT consortium sample sequencing


characteristic: ENA-CHECKLIST

characteristic: GISAID Accession ID

text: OH-PACT consortium

text: public

text: ERASMUS MC, UNIVERISTY MEDICAL CENTER

characteristic: broker name

text: not provided

characteristic: collecting institution

characteristic: collection date

text: OH-PACT consortium

characteristic: collector name

text: Human coronavirus 2019

characteristic: description

text: Netherlands

characteristic: geographic location (country and/or sea)

text: Noord-Brabant

characteristic: geographic location (region and locality)

text: Mink

characteristic: host common name

text: not collected

text: Neovison vison

text: not provided

text: not provided

text: hCoV-19/mink/Netherlands/NB-EMC-5-13/2020

characteristic: isolate

text: not collected

characteristic: isolation source host associated

text: Severe acute respiratory syndrome coronavirus 2

characteristic: sample capture status

text: OH-PACT consortium sample sequencing


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: OH-PACT consortium

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: ERASMUS MC, UNIVERISTY MEDICAL CENTER

text: not provided

text: OH-PACT consortium

text: Human coronavirus 2019

characteristic: common name

text: Netherlands

text: Noord-Brabant

text: Mink

text: not collected

characteristic: host health state

text: Neovison vison

text: not provided

text: not provided

text: hCoV-19/mink/Netherlands/NB-EMC-44-3/2020

text: not collected

characteristic: organism

text: active surveillance in response to outbreak

text: OH-PACT consortium sample sequencing

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: GISAID Accession ID

text: OH-PACT consortium

text: public

text: ERASMUS MC, UNIVERISTY MEDICAL CENTER

characteristic: broker name

text: not provided

characteristic: collecting institution

characteristic: collection date

text: OH-PACT consortium

characteristic: collector name

text: Human coronavirus 2019

characteristic: description

text: Netherlands

characteristic: geographic location (country and/or sea)

text: Limburg

characteristic: geographic location (region and locality)

text: Mink

characteristic: host common name

text: not collected

text: Neovison vison

characteristic: host scientific name

text: not provided

characteristic: host sex

text: not provided

characteristic: host subject id

text: hCoV-19/mink/Netherlands/NB-EMC-32-7/2020

text: not collected

text: OH-PACT consortium sample sequencing


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: OH-PACT consortium

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: ERASMUS MC, UNIVERISTY MEDICAL CENTER

text: not provided

text: OH-PACT consortium

text: Human coronavirus 2019

characteristic: common name

text: Netherlands

text: Noord-Brabant

text: Mink

text: not collected

text: Neovison vison

text: not provided

text: not provided

text: hCoV-19/mink/Netherlands/NB-EMC-57-1/2020

characteristic: isolate

text: not collected

characteristic: isolation source host associated

characteristic: sample capture status

text: OH-PACT consortium sample sequencing


characteristic: ENA-CHECKLIST

characteristic: GISAID Accession ID

text: OH-PACT consortium

text: public

text: ERASMUS MC, UNIVERISTY MEDICAL CENTER

characteristic: broker name

text: not provided

characteristic: collecting institution

characteristic: collection date

text: OH-PACT consortium

characteristic: collector name

text: Human coronavirus 2019

characteristic: description

text: Netherlands

characteristic: geographic location (country and/or sea)

text: Noord-Brabant

characteristic: geographic location (region and locality)

text: Mink

characteristic: host common name

text: not collected

characteristic: host health state

text: Neovison vison

text: not provided

text: not provided

text: hCoV-19/mink/Netherlands/NB-EMC-59-8/2020

text: not collected

characteristic: organism

text: OH-PACT consortium sample sequencing

characteristic: title


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: OH-PACT consortium

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: ERASMUS MC, UNIVERISTY MEDICAL CENTER

text: not provided

text: OH-PACT consortium

text: Human coronavirus 2019

characteristic: common name

text: Netherlands

text: Noord-Brabant

text: Mink

text: not collected

text: Neovison vison

characteristic: host scientific name

text: not provided

characteristic: host sex

text: not provided

characteristic: host subject id

text: hCoV-19/mink/Netherlands/NB-EMC-7-10/2020

text: not collected

text: OH-PACT consortium sample sequencing


characteristic: ENA-CHECKLIST

characteristic: GISAID Accession ID

text: OH-PACT consortium

text: public

text: ERASMUS MC, UNIVERISTY MEDICAL CENTER

characteristic: broker name

text: not provided

characteristic: collecting institution

characteristic: collection date

text: OH-PACT consortium

characteristic: collector name

text: Human coronavirus 2019

characteristic: description

text: Netherlands

characteristic: geographic location (country and/or sea)

text: Noord-Brabant

characteristic: geographic location (region and locality)

text: Mink

characteristic: host common name

text: not collected

text: Neovison vison

text: not provided

text: not provided

text: hCoV-19/mink/Netherlands/NB-EMC-58-5/2020

characteristic: isolate

text: not collected

characteristic: isolation source host associated

characteristic: sample capture status

text: OH-PACT consortium sample sequencing


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: OH-PACT consortium

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: ERASMUS MC, UNIVERISTY MEDICAL CENTER

text: not provided

text: OH-PACT consortium

text: Human coronavirus 2019

characteristic: common name

text: Netherlands

text: Limburg

text: Mink

text: not collected

characteristic: host health state

text: Neovison vison

text: not provided

text: not provided

text: hCoV-19/mink/Netherlands/NB-EMC-53-9/2020

text: not collected

characteristic: organism

text: OH-PACT consortium sample sequencing

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: GISAID Accession ID

text: OH-PACT consortium

text: public

text: ERASMUS MC, UNIVERISTY MEDICAL CENTER

characteristic: broker name

text: not provided

characteristic: collecting institution

characteristic: collection date

text: OH-PACT consortium

characteristic: collector name

text: Human coronavirus 2019

text: A SARS-CoV-2 specific multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 48 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome.

characteristic: description

text: Netherlands

characteristic: geographic location (country and/or sea)

text: Noord-Brabant

characteristic: geographic location (region and locality)

text: Mink

characteristic: host common name

text: not collected

text: Neovison vison

characteristic: host scientific name

text: not provided

characteristic: host sex

text: not provided

characteristic: host subject id

text: hCoV-19/mink/Netherlands/NB-EMC-20-1/2020

text: not collected

text: OH-PACT consortium sample sequencing


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: OH-PACT consortium

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: ERASMUS MC, UNIVERISTY MEDICAL CENTER

text: not provided

text: OH-PACT consortium

text: Human coronavirus 2019

characteristic: common name

text: Netherlands

text: Noord-Brabant

text: Mink

text: not collected

text: Neovison vison

text: not provided

text: not provided

text: hCoV-19/mink/Netherlands/NB-EMC-52-5/2020

characteristic: isolate

text: not collected

characteristic: isolation source host associated

characteristic: sample capture status

text: OH-PACT consortium sample sequencing


characteristic: ENA-CHECKLIST

characteristic: GISAID Accession ID

text: OH-PACT consortium

text: public

text: ERASMUS MC, UNIVERISTY MEDICAL CENTER

characteristic: broker name

text: not provided

characteristic: collecting institution

characteristic: collection date

text: OH-PACT consortium

characteristic: collector name

text: Human coronavirus 2019

characteristic: description

text: Netherlands

characteristic: geographic location (country and/or sea)

text: Limburg

characteristic: geographic location (region and locality)

text: Mink

characteristic: host common name

text: not collected

characteristic: host health state

text: Neovison vison

text: not provided

text: not provided

text: hCoV-19/mink/Netherlands/NB-EMC-12-13/2020

text: not collected

characteristic: organism

text: OH-PACT consortium sample sequencing

characteristic: title


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: OH-PACT consortium

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: ERASMUS MC, UNIVERISTY MEDICAL CENTER

text: not provided

text: OH-PACT consortium

text: Human coronavirus 2019

characteristic: common name

text: Netherlands

text: Noord-Brabant

text: Mink

text: not collected

text: Neovison vison

characteristic: host scientific name

text: not provided

characteristic: host sex

text: not provided

characteristic: host subject id

text: hCoV-19/mink/Netherlands/NB-EMC-40-3/2020

text: not collected

text: OH-PACT consortium sample sequencing


characteristic: ENA-CHECKLIST

characteristic: GISAID Accession ID

text: OH-PACT consortium

text: public

text: ERASMUS MC, UNIVERISTY MEDICAL CENTER

characteristic: broker name

text: not provided

characteristic: collecting institution

characteristic: collection date

text: OH-PACT consortium

characteristic: collector name

text: Human coronavirus 2019

characteristic: description

text: Netherlands

characteristic: geographic location (country and/or sea)

text: Noord-Brabant

characteristic: geographic location (region and locality)

text: Mink

characteristic: host common name

text: not collected

text: Neovison vison

text: not provided

text: not provided

text: hCoV-19/mink/Netherlands/NB-EMC-14-37/2020

characteristic: isolate

text: not collected

characteristic: isolation source host associated

characteristic: sample capture status

text: OH-PACT consortium sample sequencing


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: OH-PACT consortium

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: ERASMUS MC, UNIVERISTY MEDICAL CENTER

text: not provided

text: OH-PACT consortium

text: Human coronavirus 2019

characteristic: common name

text: Netherlands

text: Noord-Brabant

text: Mink

text: not collected

characteristic: host health state

text: Neovison vison

text: not provided

text: not provided

text: hCoV-19/mink/Netherlands/NB-EMC-26-2/2020

text: not collected

characteristic: organism

text: OH-PACT consortium sample sequencing

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: GISAID Accession ID

text: OH-PACT consortium

text: public

text: ERASMUS MC, UNIVERISTY MEDICAL CENTER

characteristic: broker name

text: not provided

characteristic: collecting institution

characteristic: collection date

text: OH-PACT consortium

characteristic: collector name

text: Human coronavirus 2019

characteristic: description

text: Netherlands

characteristic: geographic location (country and/or sea)

text: Limburg

characteristic: geographic location (region and locality)

text: Mink

characteristic: host common name

text: not collected

text: Neovison vison

characteristic: host scientific name

text: not provided

characteristic: host sex

text: not provided

characteristic: host subject id

text: hCoV-19/mink/Netherlands/NB-EMC-34-5/2020

text: not collected

text: OH-PACT consortium sample sequencing


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: OH-PACT consortium

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: ERASMUS MC, UNIVERISTY MEDICAL CENTER

text: not provided

text: OH-PACT consortium

text: Human coronavirus 2019

characteristic: common name

text: Netherlands

text: Limburg

text: Mink

text: not collected

text: Neovison vison

text: not provided

text: not provided

text: hCoV-19/mink/Netherlands/NB-EMC-41-1/2020

characteristic: isolate

text: not collected

characteristic: isolation source host associated

text: Severe acute respiratory syndrome coronavirus 2

characteristic: sample capture status

text: OH-PACT consortium sample sequencing