Cargando…

Towards reliable whole genome sequencing for outbreak preparedness and response

BACKGROUND: To understand the dynamics of infectious diseases, genomic epidemiology is increasingly advocated, with a need for rapid generation of genetic sequences during outbreaks for public health decision making. Here, we explore the use of metagenomic sequencing compared to specific amplicon- a...

Descripción completa

Detalles Bibliográficos
Autores principales:	Nieuwenhuijse, David F., van der Linden, Anne, Kohl, Robert H. G., Sikkema, Reina S., Koopmans, Marion P. G., Oude Munnink, Bas B.
Formato:	Online Artículo Texto
Lenguaje:	English
Publicado:	BioMed Central 2022
Materias:	Research Article
Acceso en línea:	https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9361258/ https://www.ncbi.nlm.nih.gov/pubmed/35945497 http://dx.doi.org/10.1186/s12864-022-08749-5

Ejemplares similares

A64 Viral sequence classification using deep learning algorithms
por: Nieuwenhuijse, David, et al.
Publicado: (2019)

viromeBrowser: A Shiny App for Browsing Virome Sequencing Analysis Results
por: Nieuwenhuijse, David F., et al.
Publicado: (2021)

Author Correction: The next phase of SARS-CoV-2 surveillance: real-time molecular epidemiology
por: Oude Munnink, Bas B., et al.
Publicado: (2021)

A mixed-methods approach to elucidate SARS-CoV-2 transmission routes and clustering in outbreaks in native workers and labour migrants in the fruit and vegetable packaging industry in South Holland, the Netherlands, May to July 2020
por: Boogaard, Laura H., et al.
Publicado: (2021)

Transmission of SARS-CoV-2 among healthcare workers and patients in a teaching hospital in the Netherlands confirmed by whole-genome sequencing
por: Paltansing, S., et al.
Publicado: (2021)

Author Correction: Rapid SARS-CoV-2 whole-genome sequencing and analysis for informed public health decision-making in the Netherlands
por: Oude Munnink, Bas B., et al.
Publicado: (2020)

Are presymptomatic SARS-CoV-2 infections in nursing home residents unrecognised symptomatic infections? Sequence and metadata from weekly testing in an extensive nursing home outbreak
por: van den Besselaar, Judith H, et al.
Publicado: (2021)

Combining epidemiological data and whole genome sequencing to understand SARS-CoV-2 transmission dynamics in a large tertiary care hospital during the first COVID-19 wave in The Netherlands focusing on healthcare workers
por: Haanappel, Cynthia P., et al.
Publicado: (2023)

Looking back on the COVID-19 pandemic in an elite sports team using whole genome sequencing
por: Shamier, Marc.C., et al.
Publicado: (2023)

Setting a baseline for global urban virome surveillance in sewage
por: Nieuwenhuijse, David F., et al.
Publicado: (2020)

Author Correction: Setting a baseline for global urban virome surveillance in sewage
por: Nieuwenhuijse, David F., et al.
Publicado: (2021)

Diminished amplification of SARS-CoV-2 ORF1ab in a commercial dual-target qRT-PCR diagnostic assay
por: Popping, Stephanie, et al.
Publicado: (2022)

The increasing complexity of arbovirus serology: An in-depth systematic review on cross-reactivity
por: Kasbergen, Louella M. R., et al.
Publicado: (2023)

Genomic monitoring to understand the emergence and spread of Usutu virus in the Netherlands, 2016–2018
por: Oude Munnink, B. Bas, et al.
Publicado: (2020)

Rapid response screening for emerging zoonotic pathogens, barriers and opportunities: A study for enhanced preparedness of the Netherlands
por: Streng, Kiki, et al.
Publicado: (2023)

Sotrovimab Resistance and Viral Persistence After Treatment of Immunocompromised Patients Infected With the Severe Acute Respiratory Syndrome Coronavirus 2 Omicron Variant
por: Huygens, Sammy, et al.
Publicado: (2022)

Metavirome Sequencing to Evaluate Norovirus Diversity in Sewage and Related Bioaccumulated Oysters
por: Strubbia, Sofia, et al.
Publicado: (2019)

Antigenic Variation of Avian Influenza A(H5N6) Viruses, Guangdong Province, China, 2014–2018
por: Bai, Ru, et al.
Publicado: (2019)

Complete Genome Sequences of Six Measles Virus Strains
por: Phan, My V. T., et al.
Publicado: (2018)

Metagenomic Sequencing for Surveillance of Food- and Waterborne Viral Diseases
por: Nieuwenhuijse, David F., et al.
Publicado: (2017)

Monitoring SARS-CoV-2 Circulation and Diversity through Community Wastewater Sequencing, the Netherlands and Belgium
por: Izquierdo-Lara, Ray, et al.
Publicado: (2021)

SARS-CoV-2 in lions, gorillas and zookeepers in the Rotterdam Zoo, the Netherlands, a One Health investigation, November 2021
por: Dusseldorp, Florien, et al.
Publicado: (2023)

Exploring utility of genomic epidemiology to trace origins of highly pathogenic influenza A/H7N9 in Guangdong
por: Bai, Ru, et al.
Publicado: (2020)

Preparing for Emerging Zoonotic Viruses
por: Sikkema, Reina S., et al.
Publicado: (2021)

One Health training and research activities in Western Europe
por: Sikkema, Reina, et al.
Publicado: (2016)

COVID-19: first long-term care facility outbreak in the Netherlands following cross-border introduction from Germany, March 2020
por: van Hensbergen, Mitch, et al.
Publicado: (2021)

Evaluation of the use of alternative sample types for mosquito-borne flavivirus surveillance: Using Usutu virus as a model
por: Atama, Nnomzie C., et al.
Publicado: (2022)

Characterization of Posa and Posa-like virus genomes in fecal samples from humans, pigs, rats, and bats collected from a single location in Vietnam
por: Oude Munnink, Bas B., et al.
Publicado: (2017)

Novel opportunities for NGS-based one health surveillance of foodborne viruses
por: Desdouits, Marion, et al.
Publicado: (2020)

Detection of West Nile virus in a common whitethroat (Curruca communis) and Culex mosquitoes in the Netherlands, 2020
por: Sikkema, Reina S, et al.
Publicado: (2020)

Complete Genome Characterization of Two Wild-Type Measles Viruses from Vietnamese Infants during the 2014 Outbreak
por: Oude Munnink, Bas B., et al.
Publicado: (2016)

Viruses Causing Gastroenteritis: The Known, The New and Those Beyond
por: Oude Munnink, Bas B., et al.
Publicado: (2016)

A comparison of five Illumina, Ion Torrent, and nanopore sequencing technology-based approaches for whole genome sequencing of SARS-CoV-2
por: Carbo, Ellen C., et al.
Publicado: (2023)

Genome Sequences of a Novel Vietnamese Bat Bunyavirus
por: Oude Munnink, Bas B., et al.
Publicado: (2016)

Why psychiatry is different - challenges and difficulties in managing a nosocomial outbreak of coronavirus disease (COVID-19) in hospital care
por: Rovers, J. J. E., et al.
Publicado: (2020)

Transmission of SARS-CoV-2 on mink farms between humans and mink and back to humans
por: Oude Munnink, Bas B., et al.
Publicado: (2021)

Pandemics– One Health preparedness for the next
por: Aarestrup, Frank M., et al.
Publicado: (2021)

Population-based screening in a municipality after a primary school outbreak of the SARS-CoV-2 Alpha variant, the Netherlands, December 2020–February 2021
por: van Beek, Janko, et al.
Publicado: (2022)

Pathology and Pathogenesis of Eurasian Blackbirds (Turdus merula) Naturally Infected with Usutu Virus
por: Giglia, Giuseppe, et al.
Publicado: (2021)

MERS-CoV in Camels but Not Camel Handlers, Sudan, 2015 and 2017
por: Farag, Elmoubasher, et al.
Publicado: (2019)

Cannot write session to /tmp/vufind_sessions/sess_fhk4kn9cn9j8vsn1tdv2l3l3n7