ERC000033
ENA-CHECKLIST
2022-08-07T00:29:47Z
ENA-FIRST-PUBLIC
2022-08-07T00:29:47Z
ENA-LAST-UPDATE
SAMEA110467008
External Id
EPI_ISL_14257924
GISAID Accession ID
Dutch COVID-19 response team
INSDC center name
2022-08-07T00:29:47Z
INSDC first public
2022-08-07T00:29:47Z
INSDC last update
public
INSDC status
ERS12565036
SRA accession
Run711_BC56
Submitter Id
ERASMUS MC, UNIVERISTY MEDICAL CENTER
broker name
not provided
collecting institution
2022-07-15
collection date
Dutch COVID-19 response team
collector name
Human coronavirus 2019
common name
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.
description
Netherlands
geographic location (country and/or sea)
Zuid-Holland
geographic location (region and locality)
Human
host common name
not collected
host health state
Homo sapiens
host scientific name
not provided
host sex
restricted access
host subject id
hCoV-19/Netherlands/ZH-EMC-6563/2022
isolate
not collected
isolation source host-associated
Severe acute respiratory syndrome coronavirus 2
organism
active surveillance in response to outbreak
sample capture status
Severe acute respiratory syndrome coronavirus 2
scientific_name
Dutch COVID-19 response sample sequencing
title