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24 results on '"Lesker, Till R."'

1. Klebsiella oxytoca inhibits Salmonella infection through multiple microbiota-context-dependent mechanisms

Author

Osbelt, Lisa, Almási, Éva d. H., Wende, Marie, Kienesberger, Sabine, Voltz, Alexander, Lesker, Till R., Muthukumarasamy, Uthayakumar, Knischewski, Nele, Nordmann, Elke, Bielecka, Agata A., Giralt-Zúñiga, María, Kaganovitch, Eugen, Kühne, Caroline, Baier, Claas, Pietsch, Michael, Müsken, Mathias, Greweling-Pils, Marina C., Breinbauer, Rolf, Flieger, Antje, Schlüter, Dirk, Müller, Rolf, Erhardt, Marc, Zechner, Ellen L., and Strowig, Till

Published
2024
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2. Short-term dietary changes can result in mucosal and systemic immune depression

Author

Siracusa, Francesco, Schaltenberg, Nicola, Kumar, Yogesh, Lesker, Till R., Steglich, Babett, Liwinski, Timur, Cortesi, Filippo, Frommann, Laura, Diercks, Björn-Phillip, Bönisch, Friedericke, Fischer, Alexander W., Scognamiglio, Pasquale, Pauly, Mira J., Casar, Christian, Cohen, Yotam, Pelczar, Penelope, Agalioti, Theodora, Delfs, Flemming, Worthmann, Anna, Wahib, Ramez, Jagemann, Bettina, Mittrücker, Hans-Willi, Kretz, Oliver, Guse, Andreas H., Izbicki, Jakob R., Lassen, Kara G., Strowig, Till, Schweizer, Michaela, Villablanca, Eduardo J., Elinav, Eran, Huber, Samuel, Heeren, Joerg, and Gagliani, Nicola

Published
2023
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3. Microbiota-derived 3-IAA influences chemotherapy efficacy in pancreatic cancer

Author

Tintelnot, Joseph, Xu, Yang, Lesker, Till R., Schönlein, Martin, Konczalla, Leonie, Giannou, Anastasios D., Pelczar, Penelope, Kylies, Dominik, Puelles, Victor G., Bielecka, Agata A., Peschka, Manuela, Cortesi, Filippo, Riecken, Kristoffer, Jung, Maximilian, Amend, Lena, Bröring, Tobias S., Trajkovic-Arsic, Marija, Siveke, Jens T., Renné, Thomas, Zhang, Danmei, Boeck, Stefan, Strowig, Till, Uzunoglu, Faik G., Güngör, Cenap, Stein, Alexander, Izbicki, Jakob R., Bokemeyer, Carsten, Sinn, Marianne, Kimmelman, Alec C., Huber, Samuel, and Gagliani, Nicola

Published
2023
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4. The natural product chlorotonil A preserves colonization resistance and prevents relapsing Clostridioides difficile infection

Author

Bublitz, Arne, Brauer, Madita, Wagner, Stefanie, Hofer, Walter, Müsken, Mathias, Deschner, Felix, Lesker, Till R., Neumann-Schaal, Meina, Paul, Lena-Sophie, Nübel, Ulrich, Bartel, Jürgen, Kany, Andreas M., Zühlke, Daniela, Bernecker, Steffen, Jansen, Rolf, Sievers, Susanne, Riedel, Katharina, Herrmann, Jennifer, Müller, Rolf, Fuchs, Thilo M., and Strowig, Till

Published
2023
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10. Laboratory mice with a wild microbiota generate strong allergic immune responses

Author

Ma, Junjie, primary, Urgard, Egon, additional, Runge, Solveig, additional, Classon, Cajsa H., additional, Mathä, Laura, additional, Stark, Julian M., additional, Cheng, Liqin, additional, Álvarez, Javiera A., additional, von Zedtwitz, Silvia, additional, Baleviciute, Austeja, additional, Martinez Hoyer, Sergio, additional, Li, Muzhen, additional, Gernand, Anne Marleen, additional, Osbelt, Lisa, additional, Bielecka, Agata Anna, additional, Lesker, Till R., additional, Huang, Huey-Jy, additional, Vrtala, Susanne, additional, Boon, Louis, additional, Beyaert, Rudi, additional, Adner, Mikael, additional, Martinez Gonzalez, Itziar, additional, Strowig, Till, additional, Du, Juan, additional, Nylén, Susanne, additional, Rosshart, Stephan P., additional, and Coquet, Jonathan M., additional

Published
2023
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11. A collection of bacterial isolates from the pig intestine reveals functional and taxonomic diversity

Author

Wylensek, David, Hitch, Thomas C. A., Riedel, Thomas, Afrizal, Afrizal, Kumar, Neeraj, Wortmann, Esther, Liu, Tianzhe, Devendran, Saravanan, Lesker, Till R., Hernández, Sara B., Heine, Viktoria, Buhl, Eva M., M. D’Agostino, Paul, Cumbo, Fabio, Fischöder, Thomas, Wyschkon, Marzena, Looft, Torey, Parreira, Valeria R., Abt, Birte, Doden, Heidi L., Ly, Lindsey, Alves, João M. P., Reichlin, Markus, Flisikowski, Krzysztof, Suarez, Laura Navarro, Neumann, Anthony P., Suen, Garret, de Wouters, Tomas, Rohn, Sascha, Lagkouvardos, Ilias, Allen-Vercoe, Emma, Spröer, Cathrin, Bunk, Boyke, Taverne-Thiele, Anja J., Giesbers, Marcel, Wells, Jerry M., Neuhaus, Klaus, Schnieke, Angelika, Cava, Felipe, Segata, Nicola, Elling, Lothar, Strowig, Till, Ridlon, Jason M., Gulder, Tobias A. M., Overmann, Jörg, and Clavel, Thomas

Published
2020
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12. MetaPhlAn 4 profiling of unknown species-level genome bins improves the characterization of diet-associated microbiome changes in mice

Author

Manghi, Paolo, primary, Blanco-Míguez, Aitor, additional, Manara, Serena, additional, NabiNejad, Amir, additional, Cumbo, Fabio, additional, Beghini, Francesco, additional, Armanini, Federica, additional, Golzato, Davide, additional, Huang, Kun D., additional, Thomas, Andrew M., additional, Piccinno, Gianmarco, additional, Punčochář, Michal, additional, Zolfo, Moreno, additional, Lesker, Till R., additional, Bredon, Marius, additional, Planchais, Julien, additional, Glodt, Jeremy, additional, Valles-Colomer, Mireia, additional, Koren, Omry, additional, Pasolli, Edoardo, additional, Asnicar, Francesco, additional, Strowig, Till, additional, Sokol, Harry, additional, and Segata, Nicola, additional

Published
2023
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13. Laboratory mice with a wild microbiota generate strong allergic immune responses

Author

Ma, Junjie, Urgard, Egon, Runge, Solveig, Classon, Cajsa H., Mathä, Laura, Stark, Julian M., Cheng, Liqin, Álvarez, Javiera A., von Zedtwitz, Silvia, Baleviciute, Austeja, Hoyer, Sergio Martinez, Li, Muzhen, Gernand, Anne Marleen, Osbelt, Lisa, Bielecka, Agata Anna, Lesker, Till R., Huang, Huey Jy, Vrtala, Susanne, Boon, Louis, Beyaert, Rudi, Adner, Mikael, Martinez Gonzalez, Itziar, Strowig, Till, Du, Juan, Nylén, Susanne, Rosshart, Stephan P., Coquet, Jonathan M., Ma, Junjie, Urgard, Egon, Runge, Solveig, Classon, Cajsa H., Mathä, Laura, Stark, Julian M., Cheng, Liqin, Álvarez, Javiera A., von Zedtwitz, Silvia, Baleviciute, Austeja, Hoyer, Sergio Martinez, Li, Muzhen, Gernand, Anne Marleen, Osbelt, Lisa, Bielecka, Agata Anna, Lesker, Till R., Huang, Huey Jy, Vrtala, Susanne, Boon, Louis, Beyaert, Rudi, Adner, Mikael, Martinez Gonzalez, Itziar, Strowig, Till, Du, Juan, Nylén, Susanne, Rosshart, Stephan P., and Coquet, Jonathan M.

Abstract

Allergic disorders are caused by a combination of hereditary and environmental factors. The hygiene hypothesis postulates that early-life microbial exposures impede the development of subsequent allergic disease. Recently developed "wildling"mice are genetically identical to standard laboratory specific pathogen-free (SPF) mice but are housed under seminatural conditions and have rich microbial exposures from birth. Thus, by comparing conventional SPF mice with wildlings, we can uncouple the impact of lifelong microbial exposures from genetic factors on the allergic immune response. We found that wildlings developed larger populations of antigen-experienced T cells than conventional SPF mice, which included interleukin-10-producing CD4 T cells specific for commensal Lactobacilli strains and allergy-promoting T helper 2 (TH2) cells. In models of airway exposure to house dust mite (HDM), recombinant interleukin-33, or Alternaria alternata, wildlings developed strong allergic inflammation, characterized by eosinophil recruitment, goblet cell metaplasia, and antigen-specific immunoglobulin G1 (IgG1) and IgE responses. Wildlings developed robust de novo TH2 cell responses to incoming allergens, whereas preexisting TH2 cells could also be recruited into the allergic immune response in a cytokinedriven and TCR-independent fashion. Thus, wildling mice, which experience diverse and lifelong microbial exposures, were not protected from developing pathological allergic immune responses. Instead, wildlings mounted robust allergic responses to incoming allergens, shedding new light on the hygiene hypothesis.

Published
2023

18. Sequence and cultivation study of Muribaculaceae reveals novel species, host preference, and functional potential of this yet undescribed family

Author

Lagkouvardos, Ilias, Lesker, Till R., Overmann, Jörg, Strowig, Till, Clavel, Thomas, Hitch, Thomas C. A., Gálvez, Eric J. C., Smit, Nathiana, Neuhaus, Klaus, Wang, Jun, Baines, John F., Abt, Birte, Stecher, Bärbel, and HZI, Helmholtz Zentrum für Infektionsforschung GmbH, Inhoffenstr. 7, 38124 Braunschweig Germany.

Subjects
DNA, Bacterial, Bacteriological Techniques, Bacteroidetes, Research, Cultivation, Muribaculaceae, Biodiversity, Sequence Analysis, DNA, Mouse gut microbiota, DNA, Ribosomal, lcsh:Microbial ecology, Gastrointestinal Microbiome, Mice, Species Specificity, Bacterial diversity, Homeothermaceae, RNA, Ribosomal, 16S, Family S24-7, lcsh:QR100-130, Animals, Bacteroides, Metagenomics, Metagenomic species, Phylogeny
Abstract

Background Bacteria within family S24-7 (phylum Bacteroidetes) are dominant in the mouse gut microbiota and detected in the intestine of other animals. Because they had not been cultured until recently and the family classification is still ambiguous, interaction with their host was difficult to study and confusion still exists regarding sequence data annotation. Methods We investigated family S24-7 by combining data from large-scale 16S rRNA gene analysis and from functional and taxonomic studies of metagenomic and cultured species. Results A total of 685 species was inferred by full-length 16S rRNA gene sequence clustering. While many species could not be assigned ecological habitats (93,045 samples analyzed), the mouse was the most commonly identified host (average of 20% relative abundance and nine co-occurring species). Shotgun metagenomics allowed reconstruction of 59 molecular species, of which 34 were representative of the 16S rRNA gene-derived species clusters. In addition, cultivation efforts allowed isolating five strains representing three species, including two novel taxa. Genome analysis revealed that S24-7 spp. are functionally distinct from neighboring families and versatile with respect to complex carbohydrate degradation. Conclusions We provide novel data on the diversity, ecology, and description of bacterial family S24-7, for which the name Muribaculaceae is proposed. Electronic supplementary material The online version of this article (10.1186/s40168-019-0637-2) contains supplementary material, which is available to authorized users.

Published
2018
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19. Abstract P2072: Integrative Network Analysis Of Microbiome-Immune Axis In Metabolic Syndrome Patients During A Fasting Intervention

Author

Avery, Ellen G, primary, Balogh, András, additional, Bartolomaeus, Hendrik, additional, Löber, Ulrike, additional, Steckhan, Nico, additional, Markó, Lajos, additional, Wilck, Nicola, additional, Hamad, Ibrahim, additional, Šušnjar, Urša, additional, Mähler, Anja, additional, Hohmann, Christoph, additional, Lesker, Till R, additional, Strowig, Till, additional, Dechend, Ralf, additional, Bzdok, Danilo, additional, Kleinewietfeld, Markus, additional, Michalsen, Andreas, additional, Müller, Dominik N, additional, and Forslund, Sofia K, additional

Published
2019
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22. CAMISIM: Simulating metagenomes and microbial communities

Author

Fritz, Adrian, primary, Hofmann, Peter, additional, Majda, Stephan, additional, Dahms, Eik, additional, Dröge, Johannes, additional, Fiedler, Jessika, additional, Lesker, Till R., additional, Belmann, Peter, additional, Demaere, Matthew Z., additional, Darling, Aaron E., additional, Sczyrba, Alexander, additional, Bremges, Andreas, additional, and Mchardy, Alice C., additional

Published
2018
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23. DiTaxa: nucleotide-pair encoding of 16S rRNA for host phenotype and biomarker detection.

Author

Asgari, Ehsaneddin, Münch, Philipp C, Lesker, Till R, McHardy, Alice C, and Mofrad, Mohammad R K

Subjects
INFLAMMATORY bowel diseases, RIBOSOMAL RNA, PHENOTYPES, RHEUMATOID arthritis, INDIVIDUALIZED medicine, PERIODONTAL disease, DNA-binding proteins
Abstract

Summary Identifying distinctive taxa for micro-biome-related diseases is considered key to the establishment of diagnosis and therapy options in precision medicine and imposes high demands on the accuracy of micro-biome analysis techniques. We propose an alignment- and reference- free subsequence based 16S rRNA data analysis, as a new paradigm for micro-biome phenotype and biomarker detection. Our method, called DiTaxa, substitutes standard operational taxonomic unit (OTU)-clustering by segmenting 16S rRNA reads into the most frequent variable-length subsequences. We compared the performance of DiTaxa to the state-of-the-art methods in phenotype and biomarker detection, using human-associated 16S rRNA samples for periodontal disease, rheumatoid arthritis and inflammatory bowel diseases, as well as a synthetic benchmark dataset. DiTaxa performed competitively to the k -mer based state-of-the-art approach in phenotype prediction while outperforming the OTU-based state-of-the-art approach in finding biomarkers in both resolution and coverage evaluated over known links from literature and synthetic benchmark datasets. Availability and implementation DiTaxa is available under the Apache 2 license at http://llp.berkeley.edu/ditaxa. Supplementary information Supplementary data are available at Bioinformatics online. [ABSTRACT FROM AUTHOR]

Published
2019
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24. MetaPhlAn 4 profiling of unknown species-level genome bins improves the characterization of diet-associated microbiome changes in mice

Author

Paolo Manghi, Aitor Blanco-Míguez, Serena Manara, Amir NabiNejad, Fabio Cumbo, Francesco Beghini, Federica Armanini, Davide Golzato, Kun D. Huang, Andrew M. Thomas, Gianmarco Piccinno, Michal Punčochář, Moreno Zolfo, Till R. Lesker, Marius Bredon, Julien Planchais, Jeremy Glodt, Mireia Valles-Colomer, Omry Koren, Edoardo Pasolli, Francesco Asnicar, Till Strowig, Harry Sokol, Nicola Segata, Manghi, Paolo, Blanco-Míguez, Aitor, Manara, Serena, Nabinejad, Amir, Cumbo, Fabio, Beghini, Francesco, Armanini, Federica, Golzato, Davide, Huang, Kun D, Thomas, Andrew M, Piccinno, Gianmarco, Punčochář, Michal, Zolfo, Moreno, Lesker, Till R, Bredon, Mariu, Planchais, Julien, Glodt, Jeremy, Valles-Colomer, Mireia, Koren, Omry, Pasolli, Edoardo, Asnicar, Francesco, Strowig, Till, Sokol, Harry, and Segata, Nicola

Subjects
MetaPhlAn, CP: Microbiology, metagenomic, diet, mouse microbiome, uncharacterized microbial species, General Biochemistry, Genetics and Molecular Biology
Abstract

Mouse models are key tools for investigating host-microbiome interactions. However, shotgun metagenomics can only profile a limited fraction of the mouse gut microbiome. Here, we employ a metagenomic profiling method, MetaPhlAn 4, which exploits a large catalog of metagenome-assembled genomes (including 22,718 metagenome-assembled genomes from mice) to improve the profiling of the mouse gut microbiome. We combine 622 samples from eight public datasets and an additional cohort of 97 mouse microbiomes, and we assess the potential of MetaPhlAn 4 to better identify diet-related changes in the host microbiome using a meta-analysis approach. We find multiple, strong, and reproducible diet-related microbial biomarkers, largely increasing those identifiable by other available methods relying only on reference information. The strongest drivers of the diet-induced changes are uncharacterized and previously undetected taxa, confirming the importance of adopting metagenomic methods integrating metagenomic assemblies for comprehensive profiling.

Published
2023
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