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Community-led, integrated, reproducible multi-omics with anvi’o
Eren, A. Murat, Kiefl, Evan, Shaiber, Alon, Veseli, Iva, Miller, Samuel E., Schechter, Matthew S., Fink, Isaac, Pan, Jessica N., Yousef, Mahmoud, Fogarty, Emily C., Trigodet, Florian, Watson, Andrea R., Esen, Özcan C., Moore, Ryan M., Clayssen, Quentin, Lee, Michael D., Kivenson, Veronika, Graham, Elaina D., Merrill, Bryan D., Karkman, Antti, Blankenberg, Daniel, Eppley, John M., Sjödin, Andreas, Scott, Jarrod J., Vázquez-Campos, Xabier, McKay, Luke J., McDaniel, Elizabeth A., Stevens, Sarah L. R., Anderson, Rika E., Fuessel, Jessika, Fernandez-Guerra, Antonio, Maignien, Lois, Delmont, Tom O., Willis, Amy D.
Published in Nature microbiology (01.01.2021)
Published in Nature microbiology (01.01.2021)
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High molecular weight DNA extraction strategies for long‐read sequencing of complex metagenomes
Trigodet, Florian, Lolans, Karen, Fogarty, Emily, Shaiber, Alon, Morrison, Hilary G., Barreiro, Luis, Jabri, Bana, Eren, A. Murat
Published in Molecular ecology resources (01.07.2022)
Published in Molecular ecology resources (01.07.2022)
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Metabolic independence drives gut microbial colonization and resilience in health and disease
Watson, Andrea R., Füssel, Jessika, Veseli, Iva, DeLongchamp, Johanna Zaal, Silva, Marisela, Trigodet, Florian, Lolans, Karen, Shaiber, Alon, Fogarty, Emily, Runde, Joseph M., Quince, Christopher, Yu, Michael K., Söylev, Arda, Morrison, Hilary G., Lee, Sonny T. M., Kao, Dina, Rubin, David T., Jabri, Bana, Louie, Thomas, Eren, A. Murat
Published in Genome Biology (17.04.2023)
Published in Genome Biology (17.04.2023)
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Dynamic genetic adaptation of Bacteroides thetaiotaomicron during murine gut colonization
Kennedy, Megan S., Zhang, Manjing, DeLeon, Orlando, Bissell, Jacie, Trigodet, Florian, Lolans, Karen, Temelkova, Sara, Carroll, Katherine T., Fiebig, Aretha, Deutschbauer, Adam, Sidebottom, Ashley M., Lake, Joash, Henry, Chris, Rice, Phoebe A., Bergelson, Joy, Chang, Eugene B.
Published in Cell reports (Cambridge) (29.08.2023)
Published in Cell reports (Cambridge) (29.08.2023)
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Bile acid fitness determinants of a Bacteroides fragilis isolate from a human pouchitis patient
Fiebig, Aretha, Schnizlein, Matthew K., Pena-Rivera, Selymar, Trigodet, Florian, Dubey, Abhishek Anil, Hennessy, Miette K., Basu, Anindita, Pott, Sebastian, Dalal, Sushila, Rubin, David, Sogin, Mitchell L., Eren, A. Murat, Chang, Eugene B., Crosson, Sean
Published in mBio (16.01.2024)
Published in mBio (16.01.2024)
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The mosquito microbiome includes habitat-specific but rare symbionts
Schrieke, Hans, Maignien, Loïs, Constancias, Florentin, Trigodet, Florian, Chakloute, Sarah, Rakotoarivony, Ignace, Marie, Albane, L'Ambert, Gregory, Makoundou, Patrick, Pages, Nonito, Murat Eren, A., Weill, Mylène, Sicard, Mathieu, Reveillaud, Julie
Published in Computational and structural biotechnology journal (01.01.2022)
Published in Computational and structural biotechnology journal (01.01.2022)
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Microbial-enrichment method enables high-throughput metagenomic characterization from host-rich samples
Wu-Woods, Natalie J., Barlow, Jacob T., Trigodet, Florian, Shaw, Dustin G., Romano, Anna E., Jabri, Bana, Eren, A. Murat, Ismagilov, Rustem F.
Published in Nature methods (01.11.2023)
Published in Nature methods (01.11.2023)
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Genetic and physiological insights into the diazotrophic activity of a non‐cyanobacterial marine diazotroph
Joublin‐Delavat, Aurélie, Touahri, Katia, Crétin, Pauline, Morot, Amandine, Rodrigues, Sophie, Jesus, Bruno, Trigodet, Florian, Delavat, François
Published in Environmental microbiology (01.12.2022)
Published in Environmental microbiology (01.12.2022)
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Influence of dissolved oxygen content on the bacteria‐induced ennoblement of stainless steels in seawater and its consequence on the localized corrosion risk
Trigodet, Florian, Larché, Nicolas, Morrison, Hilary G., Maignien, Loïs, Thierry, Dominique
Published in Materials and corrosion (01.12.2019)
Published in Materials and corrosion (01.12.2019)
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Assemblies of long-read metagenomes suffer from diverse errors
Trigodet, Florian, Sachdeva, Rohan, Banfield, Jillian F., Eren, A. Murat
Published in bioRxiv (24.04.2025)
Published in bioRxiv (24.04.2025)
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Quantitative insights into the efficacy of genome-resolved surveys of microbial communities through ribosomal protein phylogeography and EcoPhylo
Schechter, Matthew S, Trigodet, Florian, Veseli, Iva A, Miller, Samuel E, Klein, Matthew L, Sever, Metehan, Maignien, Loïs, Delmont, Tom O, Light, Samuel H, Eren, A Murat
Published in bioRxiv (23.04.2025)
Published in bioRxiv (23.04.2025)
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Ribosomal protein phylogeography offers quantitative insights into the efficacy of genome-resolved surveys of microbial communities
Schechter, Matthew S, Trigodet, Florian, Veseli, Iva A, Miller, Samuel E, Klein, Matthew L, Sever, Metehan, Maignien, Loïs, Delmont, Tom O, Light, Samuel H, Eren, A Murat
Published in bioRxiv (15.01.2025)
Published in bioRxiv (15.01.2025)
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Bile acid fitness determinants of a Bacteroides fragilis isolate from a human pouchitis patient
Fiebig, Aretha, Schnizlein, Matthew K, Pena-Rivera, Selymar, Trigodet, Florian, Dubey, Abhishek Anil, Hennessy, Miette, Basu, Anindita, Pott, Sebastian, Dalal, Sushila, Rubin, David, Sogin, Mitchell L, Murat Eren, A, Chang, Eugene B, Crosson, Sean
Published in bioRxiv (17.10.2023)
Published in bioRxiv (17.10.2023)
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Genetic and physiological insights into the diazotrophic activity of a non-cyanobacterial marine diazotroph
Joublin-Delavat, Aurélie, Touahri, Katia, Crétin, Pauline, Morot, Amandine, Rodrigues, Sophie, Jesus, Bruno, Trigodet, Florian, Delavat, François
Published in bioRxiv (09.09.2022)
Published in bioRxiv (09.09.2022)
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Metabolic independence drives gut microbial colonization and resilience in health and disease
Watson, Andrea R., Füssel, Jessika, Veseli, Iva, DeLongchamp, Johanna Zaal, Silva, Marisela, Trigodet, Florian, Lolans, Karen, Shaiber, Alon, Fogarty, Emily, Runde, Joseph M., Quince, Christopher, Yu, Michael K., Söylev, Arda, Morrison, Hilary G., Lee, Sonny T.M., Kao, Dina, Rubin, David T., Jabri, Bana, Louie, Thomas, Eren, A. Murat
Published in bioRxiv (23.08.2022)
Published in bioRxiv (23.08.2022)
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Dynamic genetic adaptation of Bacteroides thetaiotaomicron murine gut colonization
Zhang, Manjing, Kennedy, Megan, Deleon, Orlando, Bissell, Jacie, Trigodet, Florian, Lolans, Karen, Temelkova, Sara, Carroll, Katherine T, Fiebig, Aretha, Deutschbauer, Adam M, Sidebottom, Ashley M, Henry, Christopher S, Rice, Phoebe A, Bergelson, Joy, Chang, Eugene
Published in bioRxiv (24.02.2022)
Published in bioRxiv (24.02.2022)
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The mosquito microbiome includes habitat-specific but rare symbionts
Schrieke, Hans, Maignien, Lois, Florentin Constancias, Trigodet, Florian, Chakloute, Sarah, Rakotoarivony, Ignace, Albane Marie, L'ambert, Gregory, Makoundou, Patrick, Pages, Nonito, Eren, A Murat, Weill, Mylene, Sicard, Mathieu, Reveillaud, Julie
Published in bioRxiv (24.09.2021)
Published in bioRxiv (24.09.2021)
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