Predicting the evolution of complex phage-host interactions

CORDIS fornisce collegamenti ai risultati finali pubblici e alle pubblicazioni dei progetti ORIZZONTE.

I link ai risultati e alle pubblicazioni dei progetti del 7° PQ, così come i link ad alcuni tipi di risultati specifici come dataset e software, sono recuperati dinamicamente da .OpenAIRE .

Pubblicazioni

A social niche breadth score reveals niche range strategies of generalists and specialists

Autori: F.A. Bastiaan von Meijenfeldt, Paulien Hogeweg, and Bas E. Dutilh
Pubblicato in: Nature Ecology & Evolution, Numero 7, 2023, Pagina/e 768–781, ISSN 2397-334X
Editore: Springer Nature
DOI: 10.1038/s41559-023-02027-7

Stability of the human gut virome and effect of gluten-free diet

Autori: Sanzhima Garmaeva, Anastasia Gulyaeva, Trishla Sinha, Andrey N. Shkoporov, Adam G. Clooney, Stephen R. Stockdale, Johanne E. Spreckels, Thomas D. S. Sutton, Lorraine A. Draper, Bas E. Dutilh, Cisca Wijmenga, Alexander Kurilshikov, Jingyuan Fu, Colin Hill, Alexandra Zhernakova
Pubblicato in: Cell Reports, Numero Volume 35, Numero 7, 2021, ISSN 2211-1247
Editore: Cell Press
DOI: 10.1016/j.celrep.2021.109132

Changes to virus taxonomy and the ICTV Statutes ratified by the International Committee on Taxonomy of Viruses (2023)

Autori: Francisco Murilo Zerbini, Stuart G. Siddell, Elliot J. Lefkowitz, Arcady R. Mushegian, Evelien M. Adriaenssens, Poliane Alfenas‑Zerbini, Donald M. Dempsey, Bas E. Dutilh, María Laura García, R. Curtis Hendrickson, Sandra Junglen, Mart Krupovic, Jens H. Kuhn, Amy J. Lambert, Małgorzata Łobocka, Hanna M. Oksanen, David L. Robertson, Luisa Rubino, Sead Sabanadzovic, Peter Simmonds, Donald B. Sm
Pubblicato in: Archives of Virology, Numero 168, 2023, ISSN 0304-8608
Editore: Springer Verlag
DOI: 10.1007/s00705-023-05797-4

Phylogeny and disease associations of a widespread and ancient intestinal bacteriophage lineage

Autori: Patrick A. de Jonge, Bert-Jan H. van den Born, Aeilko H. Zwinderman, Max Nieuwdorp, Bas E. Dutilh, Hilde Herrema
Pubblicato in: Nature Communications, Numero 15, 2024, ISSN 2041-1723
Editore: Nature Publishing Group
DOI: 10.1038/s41467-024-50777-0

High viral abundance and low diversity are associated with increased CRISPR-Cas prevalence across microbial ecosystems

Autori: Sean Meaden, Ambarish Biswas, Ksenia Arkhipova, Sergio E.Morales, Bas E.Dutilh, Edze R.Westra, Peter C.Fineran
Pubblicato in: Current Biology, Numero Volume 32, Numero 1, 2022, Pagina/e 220-227.e5, ISSN 0960-9822
Editore: Cell Press
DOI: 10.1016/j.cub.2021.10.038

A Prioritized and Validated Resource of Mitochondrial Proteins in Plasmodium Identifies Unique Biology

Autori: Selma L. van Esveld, Lisette Meerstein-Kessel, Cas Boshoven, Jochem F. Baaij, Konstantin Barylyuk, Jordy P. M. Coolen, Joeri van Strien, Ronald A. J. Duim, Bas E. Dutilh, Daniel R. Garza, Marijn Letterie, Nicholas I. Proellochs, Michelle N. de Ridder, Prashanna Balaji Venkatasubramanian, Laura E. de Vries, Ross F. Waller, Taco W. A. Kooij, Martijn A. Huynen
Pubblicato in: mSphere, Numero Volume 6, Numero 5, 2021, ISSN 2379-5042
Editore: American Society for Microbiology
DOI: 10.1128/msphere.00614-21

Prophages are associated with extensive CRISPR–Cas auto-immunity

Autori: Franklin L. Nobrega, Hielke Walinga, Bas E. Dutilh, Stan J. J. Brouns
Pubblicato in: Nucleic Acids Research, Numero Volume 48, Numero 21, 2020, Pagina/e 12074–12084, ISSN 1362-4962
Editore: Oxford University Press
DOI: 10.1093/nar/gkaa1071

Nutrition or nature: using elementary flux modes to disentangle the complex forces shaping prokaryote pan-genomes

Autori: Daniel R. Garza; F. A. Bastiaan von Meijenfeldt; Bram van Dijk; Annemarie Boleij; Martijn A. Huynen; Bas E. Dutilh
Pubblicato in: BMC Ecology and Evolution, Numero 22, 2022, ISSN 2730-7182
Editore: BioMed Central, part of Springer Nature
DOI: 10.1186/s12862-022-02052-3

Chemical characteristics vectors map the chemical space of natural biomes from untargeted mass spectrometry data

Autori: Pilleriin Peets, Aristeidis Litos, Kai Dührkop, Daniel R. Garza, Justin J. J. van der Hooft, Sebastian Böcker, Bas E. Dutilh
Pubblicato in: Journal of Cheminformatics, Numero 17, 2025, ISSN 1758-2946
Editore: Chemistry Central
DOI: 10.1186/s13321-025-01031-2

Benchmarking bioinformatic virus identification tools using real-world metagenomic data across biomes

Autori: Ling-Yi Wu, Yasas Wijesekara, Gonçalo J. Piedade, Nikolaos Pappas, Corina P. D. Brussaard, Bas E. Dutilh
Pubblicato in: Genome Biology, Numero 25, 2024, ISSN 1474-760X
Editore: BioMed Central Ltd, Springer Nature
DOI: 10.1186/s13059-024-03236-4

The bacterial sulfur cycle in expanding dysoxic and euxinic marine waters

Autori: Daan M. van Vliet, F. A. Bastiaan von Meijenfeldt, Bas E. Dutilh, Laura Villanueva, Jaap S. Sinninghe Damsté, Alfons J.M. Stams, Irene Sánchez-Andrea
Pubblicato in: Environmental Microbiology, Numero Volume 203, Numero 6, 2020, Pagina/e 2834-2857, ISSN 1462-2920
Editore: Society for Applied Microbiology and John Wiley & Sons Ltd
DOI: 10.1111/1462-2920.15265

Finding functional associations between prokaryotic virus orthologous groups: a proof of concept

Autori: Nikolaos Pappas; Bas E. Dutilh
Pubblicato in: BMC Bioinformatics, 2021, ISSN 1471-2105
Editore: BioMed Central
DOI: 10.1186/s12859-021-04343-w

Ultraconserved bacteriophage genome sequence identified in 1300-year-old human palaeofaeces

Autori: Piotr Rozwalak, Jakub Barylski, Yasas Wijesekara, Bas E. Dutilh, Andrzej Zielezinski
Pubblicato in: Nature Communications, 2024, ISSN 2041-1723
Editore: Nature Publishing Group
DOI: 10.1101/2023.06.01.543182

Identical sequences found in distant genomes reveal frequent horizontal transfer across the bacterial domain.

Autori: Sheinman, Michael; Arkhipova, Ksenia; Arndt, Peter F.; Dutilh, Bas E.; Hermsen, Rutger; Massip, Florian; Theoretical Biology and Bioinformatics; Sub Theoretical Biology; Sub Bioinformatics
Pubblicato in: eLife, Numero 1, 2021, ISSN 2050-084X
Editore: eLife Sciences Publications
DOI: 10.7554/elife.62719

Optimized bacterial DNA isolation method for microbiome analysis of human tissues

Autori: Carlijn E. Bruggeling, Daniel R. Garza, Soumia Achouiti, Wouter Mes, Bas E. Dutilh, Annemarie Boleij
Pubblicato in: MicrobiologyOpen, Numero Volume 10, Numero 3, 2021, ISSN 2045-8827
Editore: John Wiley and Sons Inc.
DOI: 10.1002/mbo3.1191

Improving Genome-Scale Metabolic Models of Incomplete Genomes with Deep Learning

Autori: Meine D. Boer, Chrats Melkonian, Haris Zafeiropoulos, Andreas F. Haas, Daniel Garza, Bas Dutilh
Pubblicato in: iScience, 2023, ISSN 2589-0042
Editore: Cell Press
DOI: 10.2139/ssrn.4535250

Changes to virus taxonomy and the ICTV Statutes ratified by the International Committee on Taxonomy of Viruses (2024)

Autori: Peter Simmonds, Evelien M. Adriaenssens, Elliot J. Lefkowitz, Hanna M. Oksanen, Stuart G. Siddell, Francisco Murilo Zerbini, Poliane Alfenas-Zerbini, Frank O. Aylward, Donald M. Dempsey, Bas E. Dutilh, Juliana Freitas-Astúa, María Laura García, R. Curtis Hendrickson, Holly R. Hughes, Sandra Junglen, Mart Krupovic, Jens H. Kuhn, Amy J. Lambert, Małgorzata Łobocka, Arcady R. Mushegian, Judit Pe
Pubblicato in: Archives of Virology, Numero 169, 2024, ISSN 0304-8608
Editore: Springer Verlag
DOI: 10.1007/s00705-024-06143-y

Graphite: painting genomes using a colored de Bruijn graph

Autori: Rick Beeloo, Aldert L Zomer, Sebastian Deorowicz, Bas E Dutilh
Pubblicato in: NAR Genomics and Bioinformatics, Numero 6, 2024, ISSN 2631-9268
Editore: Oxford University Press
DOI: 10.1093/nargab/lqae142

Perspective on taxonomic classification of uncultivated viruses.

Autori: Bas E. Dutilh; Arvind Varsani; Arvind Varsani; Yigang Tong; Peter Simmonds; Sead Sabanadzovic; Luisa Rubino; Simon Roux; Alejandro Reyes Muñoz; Cédric Lood; Elliot J. Lefkowitz; Jens H. Kuhn; Mart Krupovic; Robert Edwards; J. Rodney Brister; Evelien M. Adriaenssens; Matthew B. Sullivan
Pubblicato in: Current Opinion in Virology, 2021, ISSN 1879-6257
Editore: Elsevier BV
DOI: 10.1016/j.coviro.2021.10.011

Taxonomic resolution of different 16S rRNA variable regions varies strongly across plant-associated bacteria

Autori: Katarina Hrovat, Bas E Dutilh, Marnix H Medema, Chrats Melkonian
Pubblicato in: ISME Communications, Numero 4, 2024, ISSN 2730-6151
Editore: Oxford academic
DOI: 10.1093/ismeco/ycae034

Unveiling the Kadaknath Gut Microbiome: Early Growth Phase Spatiotemporal Diversity

Autori: Amruta Nair, Swapnil Prakash Doijad, Mangesh Vasant Suryavanshi, Anwesha Dey, Satya Veer Singh Malik, Bas E. Dutilh, Sukhadeo Baliram Barbuddhe
Pubblicato in: Microbiology Research, Numero 16, 2025, Pagina/e 54, ISSN 2036-7481
Editore: MDPI AG
DOI: 10.3390/microbiolres16030054

Gut virome profiling identifies a widespread bacteriophage family associated with metabolic syndrome

Autori: Patrick A. de Jonge, Koen Wortelboer, Torsten P.M. Scheithauer, Bert-Jan H. van den Born, Aeilko H. Zwinderman, Franklin L. Nobrega, Bas E. Dutilh, Max Nieuwdorp, Hilde Herrema
Pubblicato in: Nature Communications, Numero 13, 2022, Pagina/e 3594, ISSN 2041-1723
Editore: Nature Publishing Group
DOI: 10.1038/s41467-022-31390-5

Abolishment of morphology-based taxa and change to binomial species names: 2022 taxonomy update of the ICTV bacterial viruses subcommittee

Autori: Dann Turner; Andrey N. Shkoporov; Cédric Lood; Andrew D. Millard; Bas E. Dutilh; Poliane Alfenas-Zerbini; Leonardo J. van Zyl; Ramy K. Aziz; Hanna M. Oksanen; Minna M. Poranen; Andrew M. Kropinski; Jakub Barylski; J Rodney Brister; Nina Chanisvili; Rob A. Edwards; François Enault; Annika Gillis; Petar Knezevic; Mart Krupovic; Ipek Kurtböke; Alla Kushkina; Rob Lavigne; Susan Lehman; Malgorzata L
Pubblicato in: Archives of Virology, Numero 168/74, 2023, ISSN 1432-8798
Editore: Springer Nature
DOI: 10.1007/s00705-022-05694-2

Evolutionary Study of the Crassphage Virus at Gene Level

Autori: Alessandro Rossi, Laura Treu, Stefano Toppo, Henrike Zschach, Stefano Campanaro, Bas E. Dutilh
Pubblicato in: Viruses, Numero Volume 12, Numero 9, 2021, ISSN 1999-4915
Editore: Multidisciplinary Digital Publishing Institute (MDPI)
DOI: 10.3390/v12091035

Production of inactivated gram-positive and gram-negative species with preserved cellular morphology and integrity

Autori: Rahwa Taddese, Clara Belzer, Steven Aalvink, Marien I. de Jonge, Iris D. Nagtegaal, Bas E. Dutilh, Annemarie Boleij
Pubblicato in: Journal of Microbiological Methods, Numero Volume 184, 2021, ISSN 0167-7012
Editore: Elsevier BV
DOI: 10.1016/j.mimet.2021.106208

Rational Design of Profile HMMs for Sensitive and Specific Sequence Detection with Case Studies Applied to Viruses, Bacteriophages, and Casposons

Autori: Liliane S. Oliveira, Alejandro Reyes, Bas E. Dutilh, Arthur Gruber
Pubblicato in: Viruses, Numero 15/2/519, 2023, ISSN 1999-4915
Editore: Multidisciplinary Digital Publishing Institute (MDPI)
DOI: 10.3390/v15020519

Tunturi virus isolates and metagenome-assembled viral genomes provide insights into the virome of Acidobacteriota in Arctic tundra soils

Autori: Tatiana Demina, Heli Marttila, Igor S Pessi, Minna K Mannisto, Bas E Dutilh, Simon Roux, Jenni Hultman
Pubblicato in: Microbiome, 2025, ISSN 2049-2618
Editore: BioMed Central
DOI: 10.1101/2024.08.08.607240

Bridging the membrane lipid divide: bacteria of the FCB group superphylum have the potential to synthesize archaeal ether lipids

Autori: Laura Villanueva, A. Bastiaan von Meijenfeldt, Alexander B. Westbye, Subhash Yadav, Ellen C. Hopmans, Bas E. Dutilh, Jaap S. Sinninghe Damsté
Pubblicato in: The ISME Journal, Numero 15, 2021, Pagina/e 168 - 182, ISSN 1751-7370
Editore: International Society for Microbial Ecology
DOI: 10.1038/s41396-020-00772-2

RaFAH: Host prediction for viruses of Bacteria and Archaea based on protein content

Autori: Felipe Hernandes Coutinho, Asier Zaragoza-Solas, Mario López-Pérez, Jakub Barylski, Andrzej Zielezinski, Bas E. Dutilh, Robert Edwards, Francisco Rodriguez-Valera
Pubblicato in: Patterns, Numero Volume 2, Numero 7, 2021, ISSN 2666-3899
Editore: Cell Press Elsevier Inc.
DOI: 10.1016/j.patter.2021.100274

Development of Styrene Maleic Acid Lipid Particles as a Tool for Studies of Phage-Host Interactions

Autori: Patrick A. de Jonge, Dieuwke J. C. Smit Sibinga, Oliver A. Boright, Ana Rita Costa, Franklin L. Nobrega, Stan J. J. Brouns, Bas E. Dutilh
Pubblicato in: Journal of Virology, Numero Vol. 94, No. 23, 2020, ISSN 1098-5514
Editore: American Society for Microbiology
DOI: 10.1128/jvi.01559-20

Bacterial Viruses Subcommittee and Archaeal Viruses Subcommittee of the ICTV: update of taxonomy changes in 2021

Autori: Krupovic, Mart; Turner, Dann; Morozova, Vera; Dyall-Smith, Mike; Oksanen, Hanna M.; Edwards, Rob; Dutilh, Bas E.; Lehman, Susan M.; Reyes, Alejandro; Baquero, Diana P.; Sullivan, Matthew B.; Uchiyama, Jumpei; Nakavuma, Jesca; Barylski, Jakub; Young, Mark J.; Du, Shishen; Alfenas-Zerbini, Poliane; Kushkina, Alla; Kropinski, Andrew M.; Kurtboke, Ipek; Brister, J. Rodney; Lood, Cedric; Sarkar, B. L.;
Pubblicato in: Archives of Virology, Numero 166, 2021, Pagina/e 3239–3244, ISSN 0304-8608
Editore: Springer Verlag
DOI: 10.1007/s00705-021-05205-9

IPHoP: An integrated machine learning framework to maximize host prediction for metagenome-derived viruses of archaea and bacteria

Autori: Simon Roux, Antonio Pedro Camargo, Felipe H. Coutinho, Shareef M. Dabdoub, Bas E. Dutilh, Stephen Nayfach, Andrew Tritt
Pubblicato in: PLoS Biology, Numero 21, 2023, ISSN 1545-7885
Editore: PLoS
DOI: 10.1371/journal.pbio.3002083

Growth rate is a dominant factor predicting the rhizosphere effect

Autori: José L López, Arista Fourie, Sanne W M Poppeliers, Nikolaos Pappas, Juan J Sánchez-Gil, Ronnie de Jonge, Bas E Dutilh
Pubblicato in: The ISME Journal, Numero 17, 2024, Pagina/e 1396-1405, ISSN 1751-7362
Editore: Nature Publishing Group
DOI: 10.1038/s41396-023-01453-6

Lifestyle of sponge symbiont phages by host prediction and correlative microscopy

Autori: M. T. Jahn, T. Lachnit, S. M. Markert, C. Stigloher, L. Pita, M. Ribes, B. E. Dutilh, U. Hentschel
Pubblicato in: The ISME Journal, Numero 15, 2021, Pagina/e 2001 - 2011, ISSN 1751-7370
Editore: International Society for Microbial Ecology
DOI: 10.1038/s41396-021-00900-6

Differentiating between viruses and virus species by writing their names correctly

Autori: Francisco Murilo Zerbini, Stuart G. Siddell, Arcady R. Mushegian, Peter J. Walker, Elliot J. Lefkowitz, Evelien M. Adriaenssens, Poliane Alfenas‑Zerbini, Bas E. Dutilh, María Laura García, Sandra Junglen, Mart Krupovic, Jens H. Kuhn, Amy J. Lambert, Małgorzata Łobocka, Hanna M. Oksanen, David L. Robertson, Luisa Rubino, Sead Sabanadzovic, Peter Simmonds, Nobuhiro Suzuki, Koenraad Van Doorsla
Pubblicato in: Archives of Virology, Numero 167, 2022, Pagina/e 1231–1234, ISSN 0304-8608
Editore: Springer Verlag
DOI: 10.1007/s00705-021-05323-4

A global survey of host, aquatic, and soil microbiomes reveals shared abundance and genomic features between bacterial and fungal generalists

Autori: Daniel Loos, Ailton Pereira da Costa Filho, Bas E. Dutilh, Amelia E. Barber, Gianni Panagiotou
Pubblicato in: Cell Reports, 2024, ISSN 2211-1247
Editore: Cell Press
DOI: 10.1101/2022.11.15.515575

A metagenomic portrait of the microbial community responsible for two decades of bioremediation of poly-contaminated groundwater

Autori: Ernestina Hauptfeld, Jordi Pelkmans, Terry T. Huisman, Armin Anocic, Basten L. Snoek, F. A. Bastiaan von Meijenfeldt, Jan Gerritse, Johan van Leeuwen, Gert Leurink, Arie van Lit, Ruud van Uffelen, Margot C. Koster, Bas E. Dutilh
Pubblicato in: Water Research, Numero Volume 221, 2022, ISSN 1879-2448
Editore: Elsevier Inc.
DOI: 10.1016/j.watres.2022.118767

Bacterial Oncotraits Rather than Spatial Organization Are Associated with Dysplasia in Ulcerative Colitis

Autori: Carlijn E Bruggeling, Maarten te Groen, Daniel R Garza, Famke van Heeckeren tot Overlaer, Joyce P M Krekels, Basma-Chick Sulaiman, Davy Karel, Athreyu Rulof, Anne R Schaaphok, Daniel L A H Hornikx, Iris D Nagtegaal, Bas E Dutilh, Frank Hoentjen, Annemarie Boleij
Pubblicato in: Journal of Crohn's and Colitis, Numero 17, 2024, Pagina/e 1870-1881, ISSN 1873-9946
Editore: Elsevier Science
DOI: 10.1093/ecco-jcc/jjad092

SpeSpeNet: an interactive and user-friendly tool to create and explore microbial correlation networks

Autori: Abraham L van Eijnatten, Luc van Zon, Eleni Manousou, Margarita Bikineeva, E R Jasper Wubs, Wim H van der Putten, Elly Morriën, Bas E Dutilh, L Basten Snoek
Pubblicato in: ISME Communications, 2025, ISSN 2730-6151
Editore: Oxford University Press (OUP)
DOI: 10.1093/ismeco/ycaf036

Novel high-resolution targeted sequencing of the cervicovaginal microbiome

Autori: Karolina M. Andralojc; Mariano A. Molina; Mengjie Qiu; Bram Spruijtenburg; Menno Rasing; Bernard Pater; Martijn A. Huynen; Bas E. Dutilh; Thomas H. A. Ederveen; Duaa Elmelik; Albert G. Siebers; Diede Loopik; Ruud L. M. Bekkers; William P. J. Leenders; Willem J. G. Melchers
Pubblicato in: BMC Biology, 2021, ISSN 1741-7007
Editore: BioMed Central
DOI: 10.1186/s12915-021-01204-z

Adsorption Sequencing as a Rapid Method to Link Environmental Bacteriophages to Hosts

Autori: Patrick A.de Jonge, F. A. Bastiaan von Meijenfeldt, Ana Rita Costa, Franklin L. Nobrega, Stan J. J. Brouns, Bas E. Dutilh
Pubblicato in: iScience, Numero Volume 23, Numero 9, 2021, ISSN 2589-0042
Editore: Cell Press Elsevier Inc.
DOI: 10.1016/j.isci.2020.101439

Guidelines for public database submission of uncultivated virus genome sequences for taxonomic classification

Autori: Evelien M. Adriaenssens, Simon Roux, J. Rodney Brister, Ilene Karsch-Mizrachi, Jens H. Kuhn, Arvind Varsani, Tong Yigang, Alejandro Reyes, Cédric Lood, Elliot J. Lefkowitz, Matthew B. Sullivan, Robert A. Edwards, Peter Simmonds, Luisa Rubino, Sead Sabanadzovic, Mart Krupovic, Bas E. Dutilh
Pubblicato in: Nature Biotechnology, Numero 41, 2023, Pagina/e 898-902, ISSN 1087-0156
Editore: Nature Publishing Group
DOI: 10.1038/s41587-023-01844-2

Structural color in the bacterial domain: The ecogenomics of a 2-dimensional optical phenotype

Autori: Aldert Zomer, Colin J. Ingham, F. A. Bastiaan von Meijenfeldt, Álvaro Escobar Doncel, Gea T. van de Kerkhof, Raditijo Hamidjaja, Sanne Schouten, Lukas Schertel, Karin H. Müller, Laura Catón, Richard L. Hahnke, Henk Bolhuis, Silvia Vignolini, Bas E. Dutilh
Pubblicato in: Proceedings of the National Academy of Sciences, Numero 121, 2024, ISSN 0027-8424
Editore: National Academy of Sciences
DOI: 10.1073/pnas.2309757121

Guidance for creating individual and batch latinized binomial virus species names

Autori: Thomas S. Postler, Luisa Rubino, Evelien M. Adriaenssens, Bas E. Dutilh, Balázs Harrach, Sandra Junglen, Andrew M. Kropinski, Mart Krupovic, Jiro Wada, Anya Crane, Jens H. Kuhn, Arcady Mushegian, Jānis Rūmnieks, Sead Sabanadzovic, Peter Simmonds, Arvind Varsani, F. Murilo Zerbini, Julie Callanan, Lorraine A. Draper, Colin Hill, Stephen R. Stockdale
Pubblicato in: Journal of General Virology, Numero 103/12, 2022, ISSN 1465-2099
Editore: Microbiology Society
DOI: 10.1099/jgv.0.001800

Four principles to establish a universal virus taxonomy

Autori: Peter Simmonds; Evelien M. Adriaenssens; F. Murilo Zerbini; Nicola G. A. Abrescia; Pakorn Aiewsakun; Poliane Alfenas-Zerbini; Yiming Bao; Jakub Barylski; Christian Drosten; Siobain Duffy; W. Paul Duprex; Bas E. Dutilh; Santiago F. Elena; Maria Laura García; Sandra Junglen; Aris Katzourakis; Eugene V. Koonin; Mart Krupovic; Jens H. Kuhn; Amy J. Lambert; Elliot J. Lefkowitz; Małgorzata Łobocka; C
Pubblicato in: Plos Biology, Numero 21/2, 2023, ISSN 1545-7885
Editore: PLOS
DOI: 10.1371/journal.pbio.3001922

Identifying and tracking mobile elements in evolving compost communities yields insights into the nanobiome

Autori: Bram van Dijk, Pauline Buffard, Andrew D Farr, Franz Giersdorf, Jeroen Meijer, Bas E Dutilh, Paul B Rainey
Pubblicato in: ISME Communications, Numero 3, 2024, ISSN 2730-6151
Editore: Springer Nature
DOI: 10.1038/s43705-023-00294-w

Virus Taxonomy and the role of the International Committee on Taxonomy of Viruses (ICTV)

Autori: Stuart G. Siddell, Donald B. Smith, Evelien Adriaenssens, Poliane Alfenas-Zerbini, Bas E. Dutilh, Maria Laura Garcia, Sandra Junglen, Mart Krupovic, Jens H. Kuhn, Amy J. Lambert, Elliot J. Lefkowitz, Małgorzata Łobocka, Arcady R. Mushegian, Hanna M. Oksanen, David L. Robertsonn, Luisa Rubino, Sead Sabanadzovic, Peter Simmonds, Nobuhiro Suzuki, Koenraad Van Doorslaer, Anne-Mieke Vandamme, Arvi
Pubblicato in: Journal of General Virology, Numero Vol. 104, Numero 5, 2023, ISSN 1465-2099
Editore: Microbiology Society
DOI: 10.1099/jgv.0.001840

Seasonal dynamics and diversity of Antarctic marine viruses reveal a novel viral seascape

Autori: Gonçalo J. Piedade, Max E. Schön, Cédric Lood, Mikhail V. Fofanov, Ella M. Wesdorp, Tristan E.G. Biggs, Lingyi Wu, Henk Bolhuis, Matthias G. Fischer, Natalya Yutin, Bas E. Dutilh, Corina P. D. Brussaard
Pubblicato in: Nature Communications, 2024, ISSN 2041-1723
Editore: Nature Publishing Group
DOI: 10.21203/rs.3.rs-3778832/v1

Integration of taxonomic signals from MAGs and contigs improves read annotation and taxonomic profiling of metagenomes

Autori: Ernestina Hauptfeld, Nikolaos Pappas, Sandra van Iwaarden, Basten L. Snoek, Andrea Aldas-Vargas, Bas E. Dutilh, FA Bastiaan von Meijenfeldt
Pubblicato in: Nature Communications, 2023, ISSN 2041-1723
Editore: Nature Publishing Group
DOI: 10.1101/2023.03.22.533753

Quantifying the Impact of Human Leukocyte Antigen on the Human Gut Microbiota

Autori: Stijn P. Andeweg, Can Keşmir, Bas E. Dutilh
Pubblicato in: mSphere, Numero Volume 6, Numero 4, 2021, ISSN 2379-5042
Editore: American Society for Microbiology
DOI: 10.1128/msphere.00476-21

Changes to virus taxonomy and the Statutes ratified by the International Committee on Taxonomy of Viruses (2020).

Autori: Walker, Peter J; Siddell, Stuart G; Lefkowitz, Elliot J; Mushegian, Arcady R; Adriaenssens, Evelien M; Dempsey, Donald M; Dutilh, Bas E; Harrach, Balázs; Harrison, Robert L; Hendrickson, R Curtis; Junglen, Sandra; Knowles, Nick J; Kropinski, Andrew M; Krupovic, Mart; Kuhn, Jens H; Nibert, Max; Orton, Richard J; Rubino, Luisa; Sabanadzovic, Sead; Simmonds, Peter; Smith, Donald B; Varsani, Arvind;
Pubblicato in: Archives of Virology, 2021, ISSN 0304-8608
Editore: Springer Verlag
DOI: 10.1007/s00705-020-04752-x

Recent changes to virus taxonomy ratified by the International Committee on Taxonomy of Viruses (2022)

Autori: Peter J. Walker; Stuart G. Siddell; Elliot J. Lefkowitz; Arcady R. Mushegian; Evelien M. Adriaenssens; Poliane Alfenas-Zerbini; Donald M. Dempsey; Bas E. Dutilh; María Laura García; R. Curtis Hendrickson; Sandra Junglen; Mart Krupovic; Jens H. Kuhn; Amy J. Lambert; Małgorzata Łobocka; Hanna M. Oksanen; Richard J. Orton; David L. Robertson; Luisa Rubino; Sead Sabanadzovic; Peter Simmonds; Donal
Pubblicato in: Archives of Virology, Numero 167, 2022, ISSN 1432-8798
Editore: Springer Nature
DOI: 10.1007/s00705-022-05516-5

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Autori: Bruggeling, C.E.
Pubblicato in: Numero 1, 2023
Editore: Radboud University

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