status: PUBLIC

tag: attribute

characteristic: ENA first public

characteristic: ENA last update

characteristic: ENA-CHECKLIST

characteristic: External Id

characteristic: GISAID Accession ID

text: Dutch COVID-19 response team

characteristic: INSDC center alias

text: Dutch COVID-19 response team

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

tag: Namespace:Dutch COVID-19 response team

characteristic: Submitter Id

text: Submission account for department of Viroscience’s Research Teams, ErasmusMC

characteristic: broker name

text: not provided

characteristic: collecting institution

characteristic: collection date

text: Dutch COVID-19 response team

characteristic: collector name

text: Human coronavirus 2019

characteristic: common name

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 24 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: Zuid-Holland

characteristic: geographic location (region and locality)

text: Human

characteristic: host common name

text: not collected

characteristic: host health state

text: Homo sapiens

characteristic: host scientific name

text: not provided

characteristic: host sex

text: restricted access

characteristic: host subject id

characteristic: isolate

text: not collected

characteristic: isolation source host associated

text: Severe acute respiratory syndrome coronavirus 2

characteristic: organism

text: ReCoDID COVID-19 pilot study

characteristic: project name

text: active surveillance in response to outbreak

characteristic: sample capture status

characteristic: sample derived from

text: Dutch COVID-19 response sample sequencing

characteristic: title

type: derived from


characteristic: ENA first public

characteristic: ENA last update

characteristic: ENA-CHECKLIST

characteristic: External Id

characteristic: GISAID Accession ID

text: Dutch COVID-19 response team

characteristic: INSDC center alias

text: Dutch COVID-19 response team

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

characteristic: broker name

text: not provided

characteristic: collecting institution

characteristic: collection date

text: Dutch COVID-19 response team

characteristic: collector name

text: Human coronavirus 2019

text: Netherlands

text: not collected

text: Human

text: not collected

text: Homo sapiens

text: not provided

text: restricted access

text: not collected

text: ReCoDID COVID-19 pilot study