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Towards facilitated interpretation of shotgun metagenomics long-read sequencing data analyzed with KMA for the detection of bacterial pathogens and their antimicrobial resistance genes.
Published in:
Frontiers in Microbiology, 2024, p. 1, doi. 10.3389/fmicb.2024.1336532
By:
- Gand, Mathieu;
- Navickaite, Indre;
- Bartsch, Lee-Julia;
- Grützke, Josephine;
- Overballe-Petersen, Søren;
- Rasmussen, Astrid;
- Otani, Saria;
- Michelacci, Valeria;
- Rodríguez Matamoros, Bosco;
- González-Zorn, Bruno;
- Brouwer, Michael S. M.;
- Di Marcantonio, Lisa;
- Bloemen, Bram;
- Vanneste, Kevin;
- Roosens, Nancy H. C. J.;
- AbuOun, Manal;
- De Keersmaecker, Sigrid C. J.
Publication type:
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
Gut microbial compositions mirror caste‐specific diets in a major lineage of social insects.
Published in:
Environmental Microbiology Reports, 2019, v. 11, n. 2, p. 196, doi. 10.1111/1758-2229.12728
By:
- Otani, Saria;
- Zhukova, Mariya;
- Koné, N'golo Abdoulaye;
- da Costa, Rafael Rodrigues;
- Mikaelyan, Aram;
- Sapountzis, Panagiotis;
- Poulsen, Michael
Publication type:
Article
Discovery of Vibrio cholerae in Urban Sewage in Copenhagen, Denmark.
Published in:
Microbial Ecology, 2024, v. 87, n. 1, p. 1, doi. 10.1007/s00248-024-02419-7
By:
- Brinch, Christian;
- Otani, Saria;
- Munk, Patrick;
- van den Beld, Maaike;
- Franz, Eelco;
- Aarestrup, Frank M.
Publication type:
Article
Foodborne Pathogen Dynamics in Meat and Meat Analogues Analysed Using Traditional Microbiology and Metagenomic Sequencing.
Published in:
Antibiotics (2079-6382), 2024, v. 13, n. 1, p. 16, doi. 10.3390/antibiotics13010016
By:
- Bonaldo, Francesco;
- Avot, Baptiste Jacques Philippe;
- De Cesare, Alessandra;
- Aarestrup, Frank M.;
- Otani, Saria
Publication type:
Article
Detection of specific uncultured bacteriophages by fluorescence in situ hybridisation in pig microbiome.
Published in:
PLoS ONE, 2023, v. 17, n. 3, p. 1, doi. 10.1371/journal.pone.0283676
By:
- Ostenfeld, Line Jensen;
- Munk, Patrick;
- Aarestrup, Frank M.;
- Otani, Saria
Publication type:
Article
Identifying the core microbial community in the gut of fungus-growing termites.
Published in:
Molecular Ecology, 2014, v. 23, n. 18, p. 4631, doi. 10.1111/mec.12874
By:
- Otani, Saria;
- Mikaelyan, Aram;
- Nobre, Tânia;
- Hansen, Lars H.;
- Koné, N'Golo A.;
- Sørensen, Søren J.;
- Aanen, Duur K.;
- Boomsma, Jacobus J.;
- Brune, Andreas;
- Poulsen, Michael
Publication type:
Article
Bacterial communities in termite fungus combs are comprised of consistent gut deposits and contributions from the environment.
Published in:
Microbial Ecology, 2016, v. 71, n. 1, p. 207, doi. 10.1007/s00248-015-0692-6
By:
- Otani, Saria;
- Hansen, Lars;
- Sørensen, Søren;
- Poulsen, Michael
Publication type:
Article
Outcome of Different Sequencing and Assembly Approaches on the Detection of Plasmids and Localization of Antimicrobial Resistance Genes in Commensal Escherichia coli.
Published in:
Microorganisms, 2021, v. 9, n. 3, p. 598, doi. 10.3390/microorganisms9030598
By:
- Juraschek, Katharina;
- Borowiak, Maria;
- Tausch, Simon H.;
- Malorny, Burkhard;
- Käsbohrer, Annemarie;
- Otani, Saria;
- Schwarz, Stefan;
- Meemken, Diana;
- Deneke, Carlus;
- Hammerl, Jens Andre;
- Blanco, Jorge
Publication type:
Article
Disease-free monoculture farming by fungus-growing termites.
Published in:
Scientific Reports, 2019, v. 9, n. 1, p. N.PAG, doi. 10.1038/s41598-019-45364-z
By:
- Otani, Saria;
- Challinor, Victoria L.;
- Kreuzenbeck, Nina B.;
- Kildgaard, Sara;
- Krath Christensen, Søren;
- Larsen, Louise Lee Munk;
- Aanen, Duur K.;
- Rasmussen, Silas Anselm;
- Beemelmanns, Christine;
- Poulsen, Michael
Publication type:
Article
Host innate immune responses and microbiome profile of neonatal calves challenged with Cryptosporidium parvum and the effect of bovine colostrum supplementation.
Published in:
Frontiers in Cellular & Infection Microbiology, 2023, p. 4, doi. 10.3389/fcimb.2023.1165312
By:
- Gamsjäger, Lisa;
- Cirone, Karina M.;
- Schluessel, Steffany;
- Campsall, Mackenzie;
- Herik, Aydin;
- Lahiri, Priyoshi;
- Young, Daniel;
- Dufour, Antoine;
- Sapountzis, Panagiotis;
- Otani, Saria;
- Gomez, Diego E.;
- Windeyer, M. Claire;
- Cobo, Eduardo R.
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
Lower Termite Associations with Microbes: Synergy, Protection, and Interplay.
Published in:
Frontiers in Microbiology, 2016, p. 1, doi. 10.3389/fmicb.2016.00422
By:
- Peterson, Brittany F.;
- Scharf, Michael E.;
- Otani, Saria
Publication type:
Article
Time-series sewage metagenomics distinguishes seasonal, human-derived and environmental microbial communities potentially allowing source-attributed surveillance.
Published in:
Nature Communications, 2024, v. 15, n. 1, p. 1, doi. 10.1038/s41467-024-51957-8
By:
- Becsei, Ágnes;
- Fuschi, Alessandro;
- Otani, Saria;
- Kant, Ravi;
- Weinstein, Ilja;
- Alba, Patricia;
- Stéger, József;
- Visontai, Dávid;
- Brinch, Christian;
- de Graaf, Miranda;
- Schapendonk, Claudia M. E.;
- Battisti, Antonio;
- De Cesare, Alessandra;
- Oliveri, Chiara;
- Troja, Fulvia;
- Sironen, Tarja;
- Vapalahti, Olli;
- Pasquali, Frédérique;
- Bányai, Krisztián;
- Makó, Magdolna
Publication type:
Article
Author Correction: Time-series sewage metagenomics distinguishes seasonal, human-derived and environmental microbial communities potentially allowing source-attributed surveillance.
Published in:
2024
By:
- Becsei, Ágnes;
- Fuschi, Alessandro;
- Otani, Saria;
- Kant, Ravi;
- Weinstein, Ilja;
- Alba, Patricia;
- Stéger, József;
- Visontai, Dávid;
- Brinch, Christian;
- de Graaf, Miranda;
- Schapendonk, Claudia M. E.;
- Battisti, Antonio;
- De Cesare, Alessandra;
- Oliveri, Chiara;
- Troja, Fulvia;
- Sironen, Tarja;
- Vapalahti, Olli;
- Pasquali, Frédérique;
- Bányai, Krisztián;
- Makó, Magdolna
Publication type:
Correction Notice
Time-series sewage metagenomics distinguishes seasonal, human-derived and environmental microbial communities potentially allowing source-attributed surveillance.
Published in:
Nature Communications, 2024, v. 15, n. 1, p. 1, doi. 10.1038/s41467-024-51957-8
By:
- Becsei, Ágnes;
- Fuschi, Alessandro;
- Otani, Saria;
- Kant, Ravi;
- Weinstein, Ilja;
- Alba, Patricia;
- Stéger, József;
- Visontai, Dávid;
- Brinch, Christian;
- de Graaf, Miranda;
- Schapendonk, Claudia M. E.;
- Battisti, Antonio;
- De Cesare, Alessandra;
- Oliveri, Chiara;
- Troja, Fulvia;
- Sironen, Tarja;
- Vapalahti, Olli;
- Pasquali, Frédérique;
- Bányai, Krisztián;
- Makó, Magdolna
Publication type:
Article
Time-series sewage metagenomics distinguishes seasonal, human-derived and environmental microbial communities potentially allowing source-attributed surveillance.
Published in:
Nature Communications, 2024, v. 15, n. 1, p. 1, doi. 10.1038/s41467-024-51957-8
By:
- Becsei, Ágnes;
- Fuschi, Alessandro;
- Otani, Saria;
- Kant, Ravi;
- Weinstein, Ilja;
- Alba, Patricia;
- Stéger, József;
- Visontai, Dávid;
- Brinch, Christian;
- de Graaf, Miranda;
- Schapendonk, Claudia M. E.;
- Battisti, Antonio;
- De Cesare, Alessandra;
- Oliveri, Chiara;
- Troja, Fulvia;
- Sironen, Tarja;
- Vapalahti, Olli;
- Pasquali, Frédérique;
- Bányai, Krisztián;
- Makó, Magdolna
Publication type:
Article
Azithromycin resistance in Escherichia coli and Salmonella from food-producing animals and meat in Europe.
Published in:
Journal of Antimicrobial Chemotherapy (JAC), 2024, v. 79, n. 7, p. 1657, doi. 10.1093/jac/dkae161
By:
- Ivanova, Mirena;
- Ovsepian, Armen;
- Leekitcharoenphon, Pimlapas;
- Seyfarth, Anne Mette;
- Mordhorst, Hanne;
- Otani, Saria;
- Koeberl-Jelovcan, Sandra;
- Milanov, Mihail;
- Kompes, Gordan;
- Liapi, Maria;
- Černý, Tomáš;
- Vester, Camilla Thougaard;
- Perrin-Guyomard, Agnès;
- Hammerl, Jens A;
- Grobbel, Mirjam;
- Valkanou, Eleni;
- Jánosi, Szilárd;
- Slowey, Rosemarie;
- Alba, Patricia;
- Carfora, Virginia
Publication type:
Article
Pycnoscelus surinamensis cockroach gut microbiota respond consistently to a fungal diet without mirroring those of fungus-farming termites.
Published in:
PLoS ONE, 2017, v. 12, n. 10, p. 1, doi. 10.1371/journal.pone.0185745
By:
- Richards, Callum;
- Otani, Saria;
- Mikaelyan, Aram;
- Poulsen, Michael
Publication type:
Article

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