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Dissecting Disease-Suppressive Rhizosphere Microbiomes by Functional Amplicon Sequencing and 10× Metagenomics2021 mSystems article Agricultural and Biological Sciences Plant-Microbe Interactions and Immunity Open access
Vittorio Tracanna, Adam Ossowicki, Marloes L. C. Petrus, Sam Overduin, Barbara R. Terlouw, George Lund, +7 more
56citations -
Benchmarking of shotgun sequencing depth reveals the potential and limitations of shallow metagenomics and strain-level analysis2026 Nature Microbiology article Biochemistry, Genetics and Molecular Biology Genomics and Phylogenetic Studies Open access
Nicole Simone Treichel, Charlie Pauvert, Joana Séneca, Petra Pjevac, David Berry, John Penders, +2 more
18citations -
Diversity, compositional and functional differences between gut microbiota of children and adults2020 Scientific Reports article Biochemistry, Genetics and Molecular Biology Gut microbiota and health Open access
Djawad Radjabzadeh, Cindy Germaine Boer, Sanne A. Beth, Pelle van der Wal, Jessica C. Kiefte–de Jong, Michelle A. E. Jansen, +11 more
194citations -
Taxonomic and functional analyses of intact microbial communities thriving in extreme, astrobiology-relevant, anoxic sites2021 Microbiome article Environmental Science Microbial Community Ecology and Physiology Open access
Alexandra Kristin Bashir, Lisa Wink, Stefanie Duller, Petra Schwendner, Charles S. Cockell, Petra Rettberg, +22 more
25citations -
Assessment of sediment physiochemical properties, microbial and predicted functional diversity in mangrove eco-restoration sites of Hamata, Mangrove Bay, and Saffaga along the Egyptian Red Sea coast2025 Environmental Science and Pollution Research article Environmental Science Coastal wetland ecosystem dynamics Open access
Muziri Mugwanya, Eric Zadok Mpingirika, Yasmine K. Abdel-Maksoud, Rafat A. Eissa, Hani Sewilam
1citations -
Benchmarking of shotgun sequencing depth highlights limitations of strain-level analysis and shallow metagenomics2025 bioRxiv (Cold Spring Harbor Laboratory) preprint Biochemistry, Genetics and Molecular Biology Genomics and Phylogenetic Studies Open access
Nicole Simone Treichel, Joana Séneca, Petra Pjevac, David Berry, John Penders
5citations -
Functional redundancy and stability support the resilience of the Evernia prunastri holobiont under urbanization2026 Environmental Microbiome article Agricultural and Biological Sciences Lichen and fungal ecology Open access
Panji Cahya Mawarda, Arjen Speksnijder, Daan Krijger, Juliette Berkhout, Angela Hoogenboom, Deniz Antonie Duijker, +4 more
2citations -
Metagenome-based identification of functional traits of the black soldier fly gut microbiome associated with larval performance2025 BMC Microbiology article Agricultural and Biological Sciences Insect Utilization and Effects Open access
Freek IJdema, L. M. Arias-Giraldo, Evelynn Vervoort, Thomas Struyf, Wim Van den Ende, Jos M. Raaijmakers, +2 more
7citations -
Microbiomics, Metabolomics, Predicted Metagenomics, and Hepatic Steatosis in a Population‐Based Study of 1,355 Adults2020 Hepatology article Biochemistry, Genetics and Molecular Biology Gut microbiota and health Open access
Louise J. M. Alferink, Djawad Radjabzadeh, Nicole Stephanie Erler, Dina Vojinović, Carolina Medina‐Gómez, André Gerardus Uitterlinden, +9 more
87citations -
Editorial: Host-microbiota interactions in IBD: immune modulation and barrier function2026 Frontiers in Cellular and Infection Microbiology editorial Biochemistry, Genetics and Molecular Biology Gut microbiota and health Open access
Hongcai Li, Sagnik Nag, Grațiela Grădișteanu Pîrcălăbioru, Ralf Weiskirchen
1citations -
Taxonomic and functional profiling of the vulvar microbiome indicates variations related to ecological signatures, aging, and health status2025 Frontiers in Microbiology article Immunology and Microbiology Reproductive tract infections research Open access
Arnout Mieremet, Michelle van der Wurff, Lisa Pagan, Edgar Ferrer-González, Jinjong Seo, Frank H. J. Schuren
4citations -
A collection of bacterial isolates from the pig intestine reveals functional and taxonomic diversity2020 Nature Communications article Biochemistry, Genetics and Molecular Biology Gut microbiota and health Open access cited by 5 patents
David Wylensek, Thomas C. A. Hitch, Afrizal Afrizal, Neeraj Kumar, Esther Wortmann, Tianzhe Liu, +39 more
238citations -
Impact of the fungal pathogen Fusarium oxysporum on the taxonomic and functional diversity of the common bean root microbiome2023 Environmental Microbiome article Agricultural and Biological Sciences Plant-Microbe Interactions and Immunity Open access
Lucas William Mendes, Jos M. Raaijmakers, Mattias de Hollander, Edis Sepo, Ruth Gómez Expósito, Alisson Fernando Chiorato, +3 more
71citations -
Function-Based Selection of Synthetic Communities Enables Mechanistic Microbiome Studies2025 bioRxiv (Cold Spring Harbor Laboratory) preprint Biochemistry, Genetics and Molecular Biology Gut microbiota and health Open access
Thomas C. A. Hitch, Silvia Bolsega, Charlotte Deschamps, Lucie Etienne‐Mesmin, Nicole Simone Treichel, Stéphanie Blanquet‐Diot, +3 more
1citations -
Function-based selection of synthetic communities enables mechanistic microbiome studies2025 The ISME Journal article Biochemistry, Genetics and Molecular Biology Gut microbiota and health Open access
Thomas C. A. Hitch, Silvia Bolsega, Charlotte Deschamps, Lucie Etienne‐Mesmin, Nicole Simone Treichel, Stéphanie Blanquet‐Diot, +3 more
18citations -
Lineage-specific microbial protein prediction enables large-scale exploration of protein ecology within the human gut2025 Nature Communications article Biochemistry, Genetics and Molecular Biology Genomics and Phylogenetic Studies Open access
Matthias A. Schmitz, Nicholas J Dimonaco, Thomas Clavel, Thomas C. A. Hitch
9citations -
Seasonality of composition, genomic potential and activity of coniferous forest soil microbiomes2026 Scientific Data data-paper Environmental Science Microbial Community Ecology and Physiology Open access
Zander Rainier Human, Martina Štursová, Iñaki Odriozola, Tomáš Větrovský, Adina Howe, Diana Navrátilová, +21 more
0citations -
mOTUs annotation database (v4)2026 Zenodo (CERN European Organization for Nuclear Research) dataset Biochemistry, Genetics and Molecular Biology Genomics and Phylogenetic Studies Open access
Hans-Joachim Ruscheweyh, Marija Dmitrijeva, Lilith Feer, Samuel Miravet‐Verde, Anna Sintsova, Daniel R. Mende, +2 more
0citations -
GWAS of random glucose in 476,326 individuals provide insights into diabetes pathophysiology, complications and treatment stratification2023 Nature Genetics article Biochemistry, Genetics and Molecular Biology Genetic Associations and Epidemiology Open access
Vasiliki Lagou, Longda Jiang, Anna Ulrich, Liudmila Zudina, Karla Sofia Gutiérrez González, Zhanna Balkhiyarova, +89 more
107citations -
Investigating colonization patterns of the infant gut microbiome during the introduction of solid food and weaning from breastmilk: A cohort study protocol2021 PLoS ONE article Biochemistry, Genetics and Molecular Biology Gut microbiota and health Open access
Sara E. Dizzell, Jennifer C. Stearns, Jenifer Li, Niels van Best, Liene Bervoets, Monique Mommers, +3 more
20citations