The role of the virome in shaping the gut ecosystem during the first year of life

Información del proyecto

BabyVir

Identificador del acuerdo de subvención: 715772

DOI

10.3030/715772

Proyecto cerrado

Fecha de la firma de la CE 20 Febrero 2017

Fecha de inicio 1 Abril 2017

Fecha de finalización 30 Junio 2023

Financiado con arreglo a

• EXCELLENT SCIENCE - European Research Council (ERC)

Coste total

€ 1 499 881,00

Aportación de la UE

€ 1 499 881,00

Coordinado por

ACADEMISCH ZIEKENHUIS GRONINGEN
Netherlands

CORDIS proporciona enlaces a los documentos públicos y las publicaciones de los proyectos de los programas marco HORIZONTE.

Los enlaces a los documentos y las publicaciones de los proyectos del Séptimo Programa Marco, así como los enlaces a algunos tipos de resultados específicos, como conjuntos de datos y «software», se obtienen dinámicamente de OpenAIRE .

Publicaciones

Peer reviewed articles (28)

Environmental factors shaping the gut microbiome in a Dutch population.

Autores: Gacesa R, Kurilshikov A, Vich Vila A, Sinha T, Klaassen MAY, Bolte LA, Andreu-Sánchez S, Chen L, Collij V, Hu S, Dekens JAM, Lenters VC, Björk JR, Swarte JC, Swertz MA, Jansen BH, Gelderloos-Arends J, Jankipersadsing S, Hofker M, Vermeulen RCH, Sanna S, Harmsen HJM, Wijmenga C, Fu J, Zhernakova A, Weersma RK.
Publicado en: Nature, 2022, ISSN 0028-0836
Editor: Nature Publishing Group
DOI: 10.1038/s41586-022-04567-7

Role of the gut microbiome in mediating lactose intolerance symptoms.

Autores: Brandao Gois MF, Sinha T, Spreckels JE, Vich Vila A, Bolte LA, Weersma RK, Wijmenga C, Fu J, Zhernakova A, Kurilshikov A.
Publicado en: Gut, 2021, ISSN 0017-5749
Editor: BMJ Publishing Group
DOI: 10.1136/gutjnl-2020-323911

Diversity and Ecology of Caudoviricetes Phages with Genome Terminal Repeats in Fecal Metagenomes from Four Dutch Cohorts.

Autores: Gulyaeva A, Garmaeva S, Kurilshikov A, Vich Vila A, Riksen NP, Netea MG, Weersma RK, Fu J, Zhernakova A.
Publicado en: Viruses, 2022, ISSN 1999-4915
Editor: Multidisciplinary Digital Publishing Institute (MDPI)
DOI: 10.3390/v14102305

Milk and bugs educate infant immune systems.

Autores: Spreckels JE, Zhernakova A.
Publicado en: Immunity, 2021, ISSN 1074-7613
Editor: Cell Press
DOI: 10.1016/j.immuni.2021.07.013

Phage display sequencing reveals that genetic, environmental, and intrinsic factors influence variation of human antibody epitope repertoire.

Autores: Andreu-Sánchez S, Bourgonje AR, Vogl T, Kurilshikov A, Leviatan S, Ruiz-Moreno AJ, Hu S, Sinha T, Vich Vila A, Klompus S, Kalka IN, de Leeuw K, Arends S, Jonkers I, Withoff S; Lifelines Cohort Study; Brouwer E, Weinberger A, Wijmenga C, Segal E, Weersma RK, Fu J, Zhernakova A.
Publicado en: Immunity, 2023, ISSN 1074-7613
Editor: Cell Press
DOI: 10.1016/j.immuni.2023.04.003

Influence of the microbiome, diet and genetics on inter-individual variation in the human plasma metabolome.

Autores: Chen L, Zhernakova DV, Kurilshikov A, Andreu-Sánchez S, Wang D, Augustijn HE, Vich Vila A; Lifelines Cohort Study; Weersma RK, Medema MH, Netea MG, Kuipers F, Wijmenga C, Zhernakova A, Fu J
Publicado en: Nature Medicine, 2022, ISSN 1078-8956
Editor: Nature Publishing Group
DOI: 10.1038/s41591-022-02014-8

Analysis of 1135 gut metagenomes identifies sex-specific resistome profiles

Autores: Trishla Sinha, Arnau Vich Vila, Sanzhima Garmaeva, Soesma A. Jankipersadsing, Floris Imhann, Valerie Collij, Marc Jan Bonder, Xiaofang Jiang, Thomas Gurry, Eric J. Alm, Mauro D’Amato, Rinse K. Weersma, Sicco Scherjon, Cisca Wijmenga, Jingyuan Fu, Alexander Kurilshikov, Alexandra Zhernakova
Publicado en: Gut Microbes, 2018, Página(s) 1-9, ISSN 1949-0976
Editor: Landes Bioscience
DOI: 10.1080/19490976.2018.1528822

Individual variations in cardiovascular-disease-related protein levels are driven by genetics and gut microbiome

Autores: Daria V. Zhernakova, Trang H. Le, Alexander Kurilshikov, Biljana Atanasovska, Marc Jan Bonder, Serena Sanna, Annique Claringbould, Urmo Võsa, Patrick Deelen, Lude Franke, Rudolf A. de Boer, Folkert Kuipers, Mihai G. Netea, Marten H. Hofker, Cisca Wijmenga, Alexandra Zhernakova, Jingyuan Fu
Publicado en: Nature Genetics, Edición 50/11, 2018, Página(s) 1524-1532, ISSN 1061-4036
Editor: Nature Publishing Group
DOI: 10.1038/s41588-018-0224-7

Pharmacomicrobiomics: a novel route towards personalized medicine?

Autores: Marwah Doestzada, Arnau Vich Vila, Alexandra Zhernakova, Debby P. Y. Koonen, Rinse K. Weersma, Daan J. Touw, Folkert Kuipers, Cisca Wijmenga, Jingyuan Fu
Publicado en: Protein & Cell, Edición 9/5, 2018, Página(s) 432-445, ISSN 1674-800X
Editor: Springer Verlag
DOI: 10.1007/s13238-018-0547-2

Meta-analysis of human genome-microbiome association studies: the MiBioGen consortium initiative

Autores: Jun Wang, Alexander Kurilshikov, Djawad Radjabzadeh, Williams Turpin, Kenneth Croitoru, Marc Jan Bonder, Matthew A. Jackson, Carolina Medina-Gomez, Fabian Frost, Georg Homuth, Malte Rühlemann, David Hughes, Han-na Kim, Tim D. Spector, Jordana T. Bell, Claire J. Steves, Nicolas Timpson, Andre Franke, Cisca Wijmenga, Katie Meyer, Tim Kacprowski, Lude Franke, Andrew D. Paterson, Jeroen Raes, Robert
Publicado en: Microbiome, Edición 6/1, 2018, ISSN 2049-2618
Editor: Springer Nature
DOI: 10.1186/s40168-018-0479-3

A system biology perspective on environment–host–microbe interactions

Autores: Lianmin Chen, Sanzhima Garmaeva, Alexandra Zhernakova, Jingyuan Fu, Cisca Wijmenga
Publicado en: Human Molecular Genetics, Edición 27/R2, 2018, Página(s) R187-R194, ISSN 0964-6906
Editor: Oxford University Press
DOI: 10.1093/hmg/ddy137

Bioinformatics Meets Virology: The European Virus Bioinformatics Center’s Second Annual Meeting

Autores: Bashar Ibrahim, Ksenia Arkhipova, Arno Andeweg, Susana Posada-Céspedes, François Enault, Arthur Gruber, Eugene Koonin, Anne Kupczok, Philippe Lemey, Alice McHardy, Dino McMahon, Brett Pickett, David Robertson, Richard Scheuermann, Alexandra Zhernakova, Mark Zwart, Alexander Schönhuth, Bas Dutilh, Manja Marz
Publicado en: Viruses, Edición 10/5, 2018, Página(s) 256, ISSN 1999-4915
Editor: Multidisciplinary Digital Publishing Institute (MDPI)
DOI: 10.3390/v10050256

Detection of stable community structures within gut microbiota co-occurrence networks from different human populations

Autores: Matthew A. Jackson, Marc Jan Bonder, Zhana Kuncheva, Jonas Zierer, Jingyuan Fu, Alexander Kurilshikov, Cisca Wijmenga, Alexandra Zhernakova, Jordana T. Bell, Tim D. Spector, Claire J. Steves
Publicado en: PeerJ, Edición 6, 2018, Página(s) e4303, ISSN 2167-8359
Editor: PeerJ
DOI: 10.7717/peerj.4303

The influence of proton pump inhibitors and other commonly used medication on the gut microbiota

Autores: Floris Imhann, Arnau Vich Vila, Marc Jan Bonder, Ailine G. Lopez Manosalva, Debby P.Y. Koonen, Jingyuan Fu, Cisca Wijmenga, Alexandra Zhernakova, Rinse K. Weersma
Publicado en: Gut Microbes, Edición 8/4, 2017, Página(s) 351-358, ISSN 1949-0976
Editor: Landes Bioscience
DOI: 10.1080/19490976.2017.1284732

Gut microbiome structure and metabolic activity in inflammatory bowel disease

Autores: Eric A. Franzosa, Alexandra Sirota-Madi, Julian Avila-Pacheco, Nadine Fornelos, Henry J. Haiser, Stefan Reinker, Tommi Vatanen, A. Brantley Hall, Himel Mallick, Lauren J. McIver, Jenny S. Sauk, Robin G. Wilson, Betsy W. Stevens, Justin M. Scott, Kerry Pierce, Amy A. Deik, Kevin Bullock, Floris Imhann, Jeffrey A. Porter, Alexandra Zhernakova, Jingyuan Fu, Rinse K. Weersma, Cisca Wijmenga, Clary B.
Publicado en: Nature Microbiology, Edición 4/2, 2019, Página(s) 293-305, ISSN 2058-5276
Editor: Nature Publishing Group
DOI: 10.1038/s41564-018-0306-4

Studying the gut virome in the metagenomic era: challenges and perspectives

Autores: Sanzhima Garmaeva, Trishla Sinha, Alexander Kurilshikov, Jingyuan Fu, Cisca Wijmenga, Alexandra Zhernakova
Publicado en: BMC Biology, Edición 17/1, 2019, ISSN 1741-7007
Editor: BioMed Central
DOI: 10.1186/s12915-019-0704-y

Structural variation in the gut microbiome associates with host health

Autores: David Zeevi, Tal Korem, Anastasia Godneva, Noam Bar, Alexander Kurilshikov, Maya Lotan-Pompan, Adina Weinberger, Jingyuan Fu, Cisca Wijmenga, Alexandra Zhernakova, Eran Segal
Publicado en: Nature, Edición 568/7750, 2019, Página(s) 43-48, ISSN 0028-0836
Editor: Nature Publishing Group
DOI: 10.1038/s41586-019-1065-y

Causal relationships among the gut microbiome, short-chain fatty acids and metabolic diseases

Autores: Serena Sanna, Natalie R. van Zuydam, Anubha Mahajan, Alexander Kurilshikov, Arnau Vich Vila, Urmo Võsa, Zlatan Mujagic, Ad A. M. Masclee, Daisy M. A. E. Jonkers, Marije Oosting, Leo A. B. Joosten, Mihai G. Netea, Lude Franke, Alexandra Zhernakova, Jingyuan Fu, Cisca Wijmenga, Mark I. McCarthy
Publicado en: Nature Genetics, Edición 51/4, 2019, Página(s) 600-605, ISSN 1061-4036
Editor: Nature Publishing Group
DOI: 10.1038/s41588-019-0350-x

Gut Microbial Associations to Plasma Metabolites Linked to Cardiovascular Phenotypes and Risk

Autores: Alexander Kurilshikov, Inge C.L. van den Munckhof, Lianmin Chen, Marc J. Bonder, Kiki Schraa, Joost H.W. Rutten, Niels P. Riksen, Jacqueline de Graaf, Marije Oosting, Serena Sanna, Leo A.B. Joosten, Marinette van der Graaf, Tessa Brand, Debby P.Y. Koonen, Martijn van Faassen, P. Eline Slagboom, Ramnik J. Xavier, Folkert Kuipers, Marten H. Hofker, Cisca Wijmenga, Mihai G. Netea, Alexandra Zhernakov
Publicado en: Circulation Research, Edición 124/12, 2019, Página(s) 1808-1820, ISSN 0009-7330
Editor: Lippincott Williams & Wilkins Ltd.
DOI: 10.1161/circresaha.118.314642

Global phylogeography and ancient evolution of the widespread human gut virus crAssphage

Autores: Robert A. Edwards, Alejandro A. Vega, Holly M. Norman, Maria Ohaeri, Kyle Levi, Elizabeth A. Dinsdale, Ondrej Cinek, Ramy K. Aziz, Katelyn McNair, Jeremy J. Barr, Kyle Bibby, Stan J. J. Brouns, Adrian Cazares, Patrick A. de Jonge, Christelle Desnues, Samuel L. Díaz Muñoz, Peter C. Fineran, Alexander Kurilshikov, Rob Lavigne, Karla Mazankova, David T. McCarthy, Franklin L. Nobrega, Alejandro Reye
Publicado en: Nature Microbiology, Edición 4/10, 2019, Página(s) 1727-1736, ISSN 2058-5276
Editor: Nature Publishing Group
DOI: 10.1038/s41564-019-0494-6

The neuroactive potential of the human gut microbiota in quality of life and depression

Autores: Mireia Valles-Colomer, Gwen Falony, Youssef Darzi, Ettje F. Tigchelaar, Jun Wang, Raul Y. Tito, Carmen Schiweck, Alexander Kurilshikov, Marie Joossens, Cisca Wijmenga, Stephan Claes, Lukas Van Oudenhove, Alexandra Zhernakova, Sara Vieira-Silva, Jeroen Raes
Publicado en: Nature Microbiology, Edición 4/4, 2019, Página(s) 623-632, ISSN 2058-5276
Editor: Nature Publishing Group
DOI: 10.1038/s41564-018-0337-x

SLC39A8 missense variant is associated with Crohn's disease but does not have a major impact on gut microbiome composition in healthy subjects

Autores: Valerie Collij, Floris Imhann, Arnau Vich Vila, Jingyuan Fu, Gerard Dijkstra, Eleonora A. M. Festen, Michiel D. Voskuil, Mark J. Daly, Ramnik J. Xavier, Cisca Wijmenga, Alexandra Zhernakova, Rinse K. Weersma
Publicado en: PLOS ONE, Edición 14/1, 2019, Página(s) e0211328, ISSN 1932-6203
Editor: Public Library of Science
DOI: 10.1371/journal.pone.0211328

Gut microbiome composition and its relation to joint pain and inflammation

Autores: C.G. Boer, D. Radjabzadeh, C. Medina-Gomez, S. Garmaeva, D. Schiphof, P. Arp, T. Koet, A. Kurilshikov, J. Fu, A.M. Ikram, S. Bierma-Zeinstra, A.G. Uitterlinden, R. Kraaij, A. Zhernakova, J.B. van Meurs
Publicado en: Osteoarthritis and Cartilage, Edición 27, 2019, Página(s) S26, ISSN 1063-4584
Editor: W. B. Saunders Co., Ltd.
DOI: 10.1016/j.joca.2019.02.040

Gut microbiota composition and functional changes in inflammatory bowel disease and irritable bowel syndrome

Autores: Arnau Vich Vila, Floris Imhann, Valerie Collij, Soesma A. Jankipersadsing, Thomas Gurry, Zlatan Mujagic, Alexander Kurilshikov, Marc Jan Bonder, Xiaofang Jiang, Ettje F. Tigchelaar, Jackie Dekens, Vera Peters, Michiel D. Voskuil, Marijn C. Visschedijk, Hendrik M. van Dullemen, Daniel Keszthelyi, Morris A. Swertz, Lude Franke, Rudi Alberts, Eleonora A. M. Festen, Gerard Dijkstra, Ad A. M. Masclee,
Publicado en: Science Translational Medicine, Edición 10/472, 2018, Página(s) eaap8914, ISSN 1946-6234
Editor: American Association for the Advancement of Science
DOI: 10.1126/scitranslmed.aap8914

Effect of host genetics on the gut microbiome in 7,738 participants of the Dutch Microbiome Project

Autores: Lopera-Maya EA, Kurilshikov A, van der Graaf A, Hu S, Andreu-Sánchez S, Chen L, Vila AV, Gacesa R, Sinha T, Collij V, Klaassen MAY, Bolte LA, Gois MFB, Neerincx PBT, Swertz MA; LifeLines Cohort Study; Harmsen HJM, Wijmenga C, Fu J, Weersma RK, Zhernakova A, Sanna S.
Publicado en: Nature Genetics, 2022, ISSN 1061-4036
Editor: Nature Publishing Group
DOI: 10.1038/s41588-021-00992-y

The maternal gut microbiome during pregnancy and its role in maternal and infant health.

Autores: Sinha T, Brushett S, Prins J, Zhernakova A.
Publicado en: Current Opinion in Microbiology, 2023, ISSN 1369-5274
Editor: Elsevier BV
DOI: 10.1016/j.mib.2023.102309

Discovery, diversity, and functional associations of crAss-like phages in human gut metagenomes from four Dutch cohorts.

Autores: Gulyaeva A, Garmaeva S, Ruigrok RAAA, Wang D, Riksen NP, Netea MG, Wijmenga C, Weersma RK, Fu J, Vila AV, Kurilshikov A, Zhernakova A.
Publicado en: Cell Reports, 2022, ISSN 2211-1247
Editor: Cell Press
DOI: 10.1016/j.celrep.2021.110204

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

Autores: 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
Publicado en: Cell Reports, 2021, ISSN 2211-1247
Editor: Cell Press
DOI: 10.1016/j.celrep.2021.109132

Other (1)

Mother-Infant Gut Viruses and their Bacterial Hosts: Transmission Patterns and Dynamics during Pregnancy and Early Life

Autores: Sanzhima Garmaeva, Trishla Sinha, Anastasia Gulyaeva, Nataliia Kuzub, Johanne E Spreckels, Sergio Andreu-Sánchez, Ranko Gacesa, Arnau Vich Vila, Siobhan Brushett, Marloes Kruk, Lifelines NEXT cohort study, Jackie Dekens, Jan Sikkema, Folkert Kuipers, Andrey Shkoporov, Colin Hill, Sicco Scherjon, Cisca Wijmenga, Jingyuan Fu, Alexander Kurilshikov, Alexandra Zhernakova
Publicado en: 2023
Editor: Cold Spring Harbor Laboratory
DOI: 10.1101/2023.08.21.554108