Our Research

Our world-renowned researchers and use novel culture-independent molecular approaches and bioinformatics tools to answer important questions about the role of microbial communities in human and environmental health.

Research Programs


Recent Publications

CoverM: read alignment statistics for metagenomics

Aroney, Samuel T.N., Newell, Rhys J.P., Nissen, Jakob N., Camargo, Antonio Pedro, Tyson, Gene W., Woodcroft, Ben J. (2025) CoverM: read alignment statistics for metagenomics. Bioinformatics, 41 (4), pp.Article number: btaf147.
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Cell-Penetrating Cyclic and Disulfide-Rich Peptides Are Privileged Molecular Scaffolds for Intracellular Targeting

Troeira Henriques, Sónia, Lawrence, Nicole, Kan, Meng Wei, Malins, Lara R., Craik, David J. (2025) Cell-Penetrating Cyclic and Disulfide-Rich Peptides Are Privileged Molecular Scaffolds for Intracellular Targeting. Biochemistry, 64 (7), pp.1437-1449.
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A materials science approach to extracellular matrices

Bock, Nathalie, Delbianco, Martina, Eder, Michaela, Weinkamer, Richard, Amini, Shahrouz, Bidan, Cecile M., Cipitria, Amaia, Collin, Shaun P., Haupt, Larisa M., McGovern, Jacqui, et al. (2025) A materials science approach to extracellular matrices. Progress in Materials Science, 149, pp.Article number: 101391.
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Anaerobic digestion of microalgae: microbial response and recovery after organic loading disturbances

Walter, Juline M., Greses, Silvia, Hagen, Live H., Schiml, Valerie C., Pope, Phillip B., González-Fernández, Cristina, Arntzen, Magnus (2025) Anaerobic digestion of microalgae: microbial response and recovery after organic loading disturbances. mSystems, 10 (3), pp.Article number: e01674.
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Cryo-EM of native membranes reveals an intimate connection between the Krebs cycle and aerobic respiration in mycobacteria

Di Trani, Justin M., Yu, Jiacheng, Courbon, Gautier M., Lobez Rodriguez, Ana Paula, Cheung, Chen Yi, Liang, Yingke, Coupland, Claire E., Bueler, Stephanie A., Cook, Gregory M., Brzezinski, Peter, et al. (2025) Cryo-EM of native membranes reveals an intimate connection between the Krebs cycle and aerobic respiration in mycobacteria. Proceedings of the National Academy of Sciences of the United States of America, 122 (8), pp.Article number: e2423761122.
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A functional microbiome catalogue crowdsourced from North American rivers

Borton, Mikayla A., McGivern, Bridget B., Willi, Kathryn R., Woodcroft, Ben J., Mosier, Annika C., Singleton, Derick M., Bambakidis, Ted, Pelly, Aaron, Daly, Rebecca A., Liu, Filipe, et al. (2025) A functional microbiome catalogue crowdsourced from North American rivers. Nature, 637 (8044), pp.103-112.
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Analogs of Cyclic Peptide Mortiamide-D From Marine Fungi Have Improved Membrane Permeability and Kill Drug-Resistant Melanoma Cells

Bergeron, Catherine, Berube, Christopher, Lamb, Henry, Koda, Yasuko, Craik, David J., Henriques, Sonia Troeira, Voyer, Normand, Lawrence, Nicole (2025) Analogs of Cyclic Peptide Mortiamide-D From Marine Fungi Have Improved Membrane Permeability and Kill Drug-Resistant Melanoma Cells. Peptide Science, 117 (1), pp.Article number: e24380.
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Microbial matchmakers: Bifidobacterium evolution across animal hosts

Pope, Phil, Tyson, Gene (2025) Microbial matchmakers: Bifidobacterium evolution across animal hosts. Cell Host and Microbe, 33 (9), pp.1468-1470.
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Methanogenesis inhibition remodels microbial fermentation and stimulates acetogenesis in ruminants

Ni, Gaofeng, Wang, Min, Walker, Nicola, Muetzel, Stefan, Schmidt, Oliver, Fischer, André, Stemmler, René T, Leung, Pok Man, Zhang, Xiumin, Li, Qiushuang, et al. (2025) Methanogenesis inhibition remodels microbial fermentation and stimulates acetogenesis in ruminants. Proceedings of the National Academy of Sciences of the United States of America, 122 (41), pp.Article number: e2514823122 e2514823122.
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Metabolic capabilities of key rumen microbiota drive methane emissions in cattle

Lai, Wanxin, Alberdi, Antton, Leu, Andy, de Leon, Arturo V P, Kobel, Carl M., Aho, Velma T E, Roehe, Rainer, Pope, Phil B, Hvidsten, Torgeir R (2025) Metabolic capabilities of key rumen microbiota drive methane emissions in cattle. mSystems, 10 (10), pp.Article number: e00601-25 1-7.
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Other Publications

A full list of CMR research publications can be found on the CMR Google Scholar listing.