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Author Correction: Setting a baseline for global urban virome surveillance in sewage.
Published in:
2021
By:
- Nieuwenhuijse, David F.;
- Oude Munnink, Bas B.;
- Phan, My V. T.;
- the Global Sewage Surveillance project consortium;
- Hendriksen, Rene S.;
- Bego, Artan;
- Rees, Catherine;
- Neilson, Elizabeth Heather;
- Coventry, Kris;
- Collignon, Peter;
- Allerberger, Franz;
- Rahube, Teddie O.;
- Oliveira, Guilherme;
- Ivanov, Ivan;
- Sopheak, Thet;
- Vuthy, Yith;
- Yost, Christopher K.;
- Tabo, Djim-adjim;
- Cuadros-Orellana, Sara;
- Ke, Changwen
Publication type:
Correction Notice
Metagenomic Sequencing for Surveillance of Food- and Waterborne Viral Diseases.
Published in:
Frontiers in Microbiology, 2017, v. 8, p. 1, doi. 10.3389/fmicb.2017.00230
By:
- Nieuwenhuijse, David F.;
- Koopmans, Marion P. G.
Publication type:
Article
Monitoring SARS-CoV-2 Circulation and Diversity through Community Wastewater Sequencing, the Netherlands and Belgium.
Published in:
2021
By:
- Izquierdo-Lara, Ray;
- Elsinga, Goffe;
- Heijnen, Leo;
- Munnink, Bas B. Oude;
- Schapendonk, Claudia M. E.;
- Nieuwenhuijse, David;
- Kon, Matthijs;
- Lu, Lu;
- Aarestrup, Frank M.;
- Lycett, Samantha;
- Medema, Gertjan;
- Koopmans, Marion P. G.;
- de Graaf, Miranda
Publication type:
journal article
Ongoing mpox outbreak in Kamituga, South Kivu province, associated with monkeypox virus of a novel Clade I sub-lineage, Democratic Republic of the Congo, 2024.
Published in:
Eurosurveillance (15607917), 2024, v. 29, n. 11, p. 2, doi. 10.2807/1560-7917.ES.2024.29.11.2400106
By:
- Murhula Masirika, Leandre;
- Udahemuka, Jean Claude;
- Schuele, Leonard;
- Ndishimye, Pacifique;
- Otani, Saria;
- Bengehya Mbiribindi, Justin;
- Marekani, Jean M.;
- Mambo, Léandre Mutimbwa;
- Malyamungu Bubala, Nadine;
- Boter, Marjan;
- Nieuwenhuijse, David F.;
- Lang, Trudie;
- Balyahamwabo Kalalizi, Ernest;
- Musabyimana, Jean Pierre;
- Aarestrup, Frank M.;
- Koopmans, Marion;
- Oude Munnink, Bas B.;
- Belesi Siangoli, Freddy
Publication type:
Article
Circulation, viral diversity and genomic rearrangement in mpox virus in the Netherlands during the 2022 outbreak and beyond.
Published in:
Journal of Medical Virology, 2024, v. 96, n. 1, p. 1, doi. 10.1002/jmv.29397
By:
- Schuele, Leonard;
- Boter, Marjan;
- Nieuwenhuijse, David F.;
- Götz, Hannelore;
- Fanoy, Ewout;
- de Vries, Henry;
- Vieyra, Bruno;
- Bavalia, Roisin;
- Hoornenborg, Elske;
- Molenkamp, Richard;
- Jonges, Marcel;
- van den Ouden, Anton;
- Simões, Margarida;
- van den Lubben, Mariken;
- Koopmans, Marion;
- Welkers, Matthijs R. A.;
- Oude Munnink, Bas B.
Publication type:
Article
A comparison of five Illumina, Ion Torrent, and nanopore sequencing technology-based approaches for whole genome sequencing of SARS-CoV-2.
Published in:
European Journal of Clinical Microbiology & Infectious Diseases, 2023, v. 42, n. 6, p. 701, doi. 10.1007/s10096-023-04590-0
By:
- Carbo, Ellen C.;
- Mourik, Kees;
- Boers, Stefan A.;
- Munnink, Bas Oude;
- Nieuwenhuijse, David;
- Jonges, Marcel;
- Welkers, Matthijs R. A.;
- Matamoros, Sebastien;
- van Harinxma thoe Slooten, Joost;
- Kraakman, Margriet E. M.;
- Karelioti, Evita;
- van der Meer, David;
- Veldkamp, Karin Ellen;
- Kroes, Aloys C. M.;
- Sidorov, Igor;
- de Vries, Jutte J. C.
Publication type:
Article
Identification of mutations in SARS-CoV-2 PCR primer regions.
Published in:
Scientific Reports, 2022, v. 12, n. 1, p. 1, doi. 10.1038/s41598-022-21953-3
By:
- Mentes, Anikó;
- Papp, Krisztián;
- Visontai, Dávid;
- Stéger, József;
- VEO Technical Working Group;
- Csabai, István;
- Cochrane, Guy;
- Rahman, Nadim;
- Cummins, Carla;
- Yuan, David Yu;
- Selvakumar, Sandeep;
- Mansurova, Milena;
- O'Cathail, Colman;
- Sokolov, Alexey;
- Thorne, Ross;
- Koopmans, Marion;
- Nieuwenhuijse, David;
- Oude-Munnink, Bas;
- Worp, Nathalie;
- Amid, Clara
Publication type:
Article
Adaptation, spread and transmission of SARS-CoV-2 in farmed minks and associated humans in the Netherlands.
Published in:
Nature Communications, 2021, v. 12, n. 1, p. 1, doi. 10.1038/s41467-021-27096-9
By:
- Lu, Lu;
- Sikkema, Reina S.;
- Velkers, Francisca C.;
- Nieuwenhuijse, David F.;
- Fischer, Egil A. J.;
- Meijer, Paola A.;
- Bouwmeester-Vincken, Noortje;
- Rietveld, Ariene;
- Wegdam-Blans, Marjolijn C. A.;
- Tolsma, Paulien;
- Koppelman, Marco;
- Smit, Lidwien A. M.;
- Hakze-van der Honing, Renate W.;
- van der Poel, Wim H. M.;
- van der Spek, Arco N.;
- Spierenburg, Marcel A. H.;
- Molenaar, Robert Jan;
- Rond, Jan de;
- Augustijn, Marieke;
- Woolhouse, Mark
Publication type:
Article
Systematic detection of co-infection and intra-host recombination in more than 2 million global SARS-CoV-2 samples.
Published in:
Nature Communications, 2024, v. 15, n. 1, p. 1, doi. 10.1038/s41467-023-43391-z
By:
- Pipek, Orsolya Anna;
- Medgyes-Horváth, Anna;
- Stéger, József;
- Papp, Krisztián;
- Visontai, Dávid;
- Koopmans, Marion;
- Nieuwenhuijse, David;
- Oude Munnink, Bas B.;
- VEO Technical Working Group;
- Cochrane, Guy;
- Rahman, Nadim;
- Cummins, Carla;
- Yuan, David Yu;
- Selvakumar, Sandeep;
- Mansurova, Milena;
- O'Cathail, Colman;
- Sokolov, Alexey;
- Thorne, Ross;
- Worp, Nathalie;
- Amid, Clara
Publication type:
Article
Assessing the Metabolic Diversity of Streptococcus from a Protein Domain Point of View.
Published in:
PLoS ONE, 2015, v. 10, n. 9, p. 1, doi. 10.1371/journal.pone.0137908
By:
- Saccenti, Edoardo;
- Nieuwenhuijse, David;
- Koehorst, Jasper J.;
- Martins dos Santos, Vitor A. P.;
- Schaap, Peter J.
Publication type:
Article
A Multi-Platform Flow Device for Microbial (Co-) Cultivation and Microscopic Analysis.
Published in:
PLoS ONE, 2012, v. 7, n. 5, p. 1, doi. 10.1371/journal.pone.0036982
By:
- Hesselman, Matthijn C.;
- Odoni, Dorett I.;
- Ryback, Brendan M.;
- de Groot, Suzette;
- van Heck, Ruben G. A.;
- Keijsers, Jaap;
- Kolkman, Pim;
- Nieuwenhuijse, David;
- van Nuland, Youri M.;
- Sebus, Erik;
- Spee, Rob;
- de Vries, Hugo;
- Wapenaar, Marten T.;
- Ingham, Colin J.;
- Schroën, Karin;
- dos Santos, Vítor A. P. Martins;
- Spaans, Sebastiaan K.;
- Hugenholtz, Floor;
- van Passel, Mark W. J.
Publication type:
Article
Global monitoring of antimicrobial resistance based on metagenomics analyses of urban sewage.
Published in:
Nature Communications, 2019, v. 10, n. 1, p. 1, doi. 10.1038/s41467-019-08853-3
By:
- Hendriksen, Rene S.;
- Munk, Patrick;
- Njage, Patrick;
- van Bunnik, Bram;
- McNally, Luke;
- Lukjancenko, Oksana;
- Röder, Timo;
- Nieuwenhuijse, David;
- Pedersen, Susanne Karlsmose;
- Kjeldgaard, Jette;
- Kaas, Rolf S.;
- Clausen, Philip Thomas Lanken Conradsen;
- Vogt, Josef Korbinian;
- Leekitcharoenphon, Pimlapas;
- van de Schans, Milou G. M.;
- Zuidema, Tina;
- de Roda Husman, Ana Maria;
- Rasmussen, Simon;
- Petersen, Bent;
- The Global Sewage Surveillance project consortium
Publication type:
Article
Studies into the mechanism of measles-associated immune suppression during a measles outbreak in the Netherlands.
Published in:
Nature Communications, 2018, v. 9, n. 1, p. 1, doi. 10.1038/s41467-018-07515-0
By:
- Laksono, Brigitta M.;
- de Vries, Rory D.;
- Verburgh, R. Joyce;
- Visser, Eline G.;
- de Jong, Alwin;
- Fraaij, Pieter L. A.;
- Ruijs, Wilhemina L. M.;
- Nieuwenhuijse, David F.;
- van den Ham, Henk-Jan;
- Koopmans, Marion P. G.;
- van Zelm, Menno C.;
- Osterhaus, Albert D. M. E.;
- de Swart, Rik L.
Publication type:
Article
Microcalorimetry: A Novel Application to Measure In Vitro Phage Susceptibility of Staphylococcus aureus in Human Serum.
Published in:
Viruses (1999-4915), 2023, v. 15, n. 1, p. 14, doi. 10.3390/v15010014
By:
- Molendijk, Michèle M.;
- Phan, My V. T.;
- Bode, Lonneke G. M.;
- Strepis, Nikolas;
- Prasad, Divyae K.;
- Worp, Nathalie;
- Nieuwenhuijse, David F.;
- Schapendonk, Claudia M. E.;
- Boekema, Bouke K. H. L.;
- Verbon, Annelies;
- Koopmans, Marion P. G.;
- Graaf, Miranda de;
- van Wamel, Willem J. B.
Publication type:
Article
viromeBrowser: A Shiny App for Browsing Virome Sequencing Analysis Results.
Published in:
Viruses (1999-4915), 2021, v. 13, n. 3, p. 437, doi. 10.3390/v13030437
By:
- Nieuwenhuijse, David F.;
- Oude Munnink, Bas B.;
- Koopmans, Marion P. G.;
- Marz, Manja;
- Ibrahim, Bashar;
- Hufsky, Franziska;
- Dijkman, Ronald;
- Ramette, Alban;
- Kelly, Jenna
Publication type:
Article
The International Virus Bioinformatics Meeting 2020.
Published in:
Viruses (1999-4915), 2020, v. 12, n. 12, p. 1398, doi. 10.3390/v12121398
By:
- Hufsky, Franziska;
- Beerenwinkel, Niko;
- Meyer, Irmtraud M.;
- Roux, Simon;
- Cook, Georgia May;
- Kinsella, Cormac M.;
- Lamkiewicz, Kevin;
- Marquet, Mike;
- Nieuwenhuijse, David F.;
- Olendraite, Ingrida;
- Paraskevopoulou, Sofia;
- Young, Francesca;
- Dijkman, Ronald;
- Ibrahim, Bashar;
- Kelly, Jenna;
- Le Mercier, Philippe;
- Marz, Manja;
- Ramette, Alban;
- Thiel, Volker;
- Freed, Eric O.
Publication type:
Article
Virus Metagenomics in Farm Animals: A Systematic Review.
Published in:
Viruses (1999-4915), 2020, v. 12, n. 1, p. 107, doi. 10.3390/v12010107
By:
- Kwok, Kirsty T. T.;
- Nieuwenhuijse, David F.;
- Phan, My V. T.;
- Koopmans, Marion P. G.
Publication type:
Article
Setting a baseline for global urban virome surveillance in sewage.
Published in:
Scientific Reports, 2020, v. 10, n. 1, p. 1, doi. 10.1038/s41598-020-69869-0
By:
- Nieuwenhuijse, David F.;
- Oude Munnink, Bas B.;
- Phan, My V. T.;
- the Global Sewage Surveillance project consortium;
- Hendriksen, Rene S.;
- Bego, Artan;
- Rees, Catherine;
- Neilson, Elizabeth Heather;
- Coventry, Kris;
- Collignon, Peter;
- Allerberger, Franz;
- Rahube, Teddie O.;
- Oliveira, Guilherme;
- Ivanov, Ivan;
- Sopheak, Thet;
- Vuthy, Yith;
- Yost, Christopher K.;
- Tabo, Djim-adjim;
- Cuadros-Orellana, Sara;
- Ke, Changwen
Publication type:
Article
Monkeypox Clade Ib virus introduction into Burundi: first findings, July to mid-August 2024.
Published in:
Eurosurveillance (15607917), 2024, v. 29, n. 42, p. 1, doi. 10.2807/1560-7917.ES.2024.29.42.2400666
By:
- Nzoyikorera, Néhémie;
- Nduwimana, Cassien;
- Schuele, Leonard;
- Nieuwenhuijse, David F.;
- Koopmans, Marion;
- Otani, Saria;
- Aarestrup, Frank M.;
- Ihorimbere, Théogène;
- Niyomwungere, Denis;
- Ndihokubwayo, Armstrong;
- Diawara, Idrissa;
- Niyomwungere, Alexis;
- Nizigiyimana, Dionis;
- Uwimana, Marie Noelle;
- Munnink, Bas B. Oude;
- Nyandwi, Joseph
Publication type:
Article
The increasing complexity of arbovirus serology: An in-depth systematic review on cross-reactivity.
Published in:
PLoS Neglected Tropical Diseases, 2023, v. 17, n. 9, p. 1, doi. 10.1371/journal.pntd.0011651
By:
- Kasbergen, Louella M. R.;
- Nieuwenhuijse, David F.;
- de Bruin, Erwin;
- Sikkema, Reina S.;
- Koopmans, Marion P. G.
Publication type:
Article
Induction of Cross-Clade Antibody and T-Cell Responses by a Modified Vaccinia Virus Ankara-Based Influenza A(H5N1) Vaccine in a Randomized Phase 1/2a Clinical Trial.
Published in:
2018
By:
- Vries, Rory D de;
- Altenburg, Arwen F;
- Nieuwkoop, Nella J;
- Bruin, Erwin de;
- Trierum, Stella E van;
- Pronk, Mark R;
- Lamers, Mart M;
- Richard, Mathilde;
- Nieuwenhuijse, David F;
- Koopmans, Marion P G;
- de Vries, Rory D;
- de Bruin, Erwin;
- van Trierum, Stella E;
- Kreijtz, Joost H C M;
- Fouchier, Ron A M;
- Osterhaus, Albert D M E;
- Sutter, Gerd;
- Rimmelzwaan, Guus F
Publication type:
journal article
Metavirome Sequencing to Evaluate Norovirus Diversity in Sewage and Related Bioaccumulated Oysters.
Published in:
Frontiers in Microbiology, 2019, p. 1, doi. 10.3389/fmicb.2019.02394
By:
- Strubbia, Sofia;
- Schaeffer, Julien;
- Oude Munnink, Bas B.;
- Besnard, Alban;
- Phan, My V. T.;
- Nieuwenhuijse, David F.;
- de Graaf, Miranda;
- Schapendonk, Claudia M. E.;
- Wacrenier, Candice;
- Cotten, Matthew;
- Koopmans, Marion P. G.;
- Le Guyader, Françoise S.
Publication type:
Article
Towards reliable whole genome sequencing for outbreak preparedness and response.
Published in:
BMC Genomics, 2022, v. 23, n. 1, p. 1, doi. 10.1186/s12864-022-08749-5
By:
- Nieuwenhuijse, David F.;
- van der Linden, Anne;
- Kohl, Robert H. G.;
- Sikkema, Reina S.;
- Koopmans, Marion P. G.;
- Oude Munnink, Bas B.
Publication type:
Article

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