Genomic diversity and ecology of human-associated Akkermansia species in the gut microbiome revealed by extensive metagenomic assembly

por Karcher, Nicolai, Nigro, Eleonora, Punčochář, Michal, Blanco-Míguez, Aitor, Ciciani, Matteo, Manghi, Paolo, Zolfo, Moreno, Cumbo, Fabio, Manara, Serena, Golzato, Davide, Cereseto, Anna, Arumugam, Manimozhiyan, Bui, Thi Phuong Nam, Tytgat, Hanne L. P., Valles-Colomer, Mireia, de Vos, Willem M., Segata, Nicola
Publicado 2021

Variability of strain engraftment and predictability of microbiome composition after fecal microbiota transplantation across different diseases

por Ianiro, Gianluca, Punčochář, Michal, Karcher, Nicolai, Porcari, Serena, Armanini, Federica, Asnicar, Francesco, Beghini, Francesco, Blanco-Míguez, Aitor, Cumbo, Fabio, Manghi, Paolo, Pinto, Federica, Masucci, Luca, Quaranta, Gianluca, De Giorgi, Silvia, Sciumè, Giusi Desirè, Bibbò, Stefano, Del Chierico, Federica, Putignani, Lorenza, Sanguinetti, Maurizio, Gasbarrini, Antonio, Valles-Colomer, Mireia, Cammarota, Giovanni, Segata, Nicola
Publicado 2022

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

por 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, Marius, Planchais, Julien, Glodt, Jeremy, Valles-Colomer, Mireia, Koren, Omry, Pasolli, Edoardo, Asnicar, Francesco, Strowig, Till, Sokol, Harry, Segata, Nicola
Publicado 2023

Extending and improving metagenomic taxonomic profiling with uncharacterized species using MetaPhlAn 4

por Blanco-Míguez, Aitor, Beghini, Francesco, Cumbo, Fabio, McIver, Lauren J., Thompson, Kelsey N., Zolfo, Moreno, Manghi, Paolo, Dubois, Leonard, Huang, Kun D., Thomas, Andrew Maltez, Nickols, William A., Piccinno, Gianmarco, Piperni, Elisa, Punčochář, Michal, Valles-Colomer, Mireia, Tett, Adrian, Giordano, Francesca, Davies, Richard, Wolf, Jonathan, Berry, Sarah E., Spector, Tim D., Franzosa, Eric A., Pasolli, Edoardo, Asnicar, Francesco, Huttenhower, Curtis, Segata, Nicola
Publicado 2023

Extension of the Segatella copri complex to 13 species with distinct large extrachromosomal elements and associations with host conditions

por Blanco-Míguez, Aitor, Gálvez, Eric J.C., Pasolli, Edoardo, De Filippis, Francesca, Amend, Lena, Huang, Kun D., Manghi, Paolo, Lesker, Till-Robin, Riedel, Thomas, Cova, Linda, Punčochář, Michal, Thomas, Andrew Maltez, Valles-Colomer, Mireia, Schober, Isabel, Hitch, Thomas C.A., Clavel, Thomas, Berry, Sarah E., Davies, Richard, Wolf, Jonathan, Spector, Tim D., Overmann, Jörg, Tett, Adrian, Ercolini, Danilo, Segata, Nicola, Strowig, Till
Publicado 2023

The person-to-person transmission landscape of the gut and oral microbiomes

por Valles-Colomer, Mireia, Blanco-Míguez, Aitor, Manghi, Paolo, Asnicar, Francesco, Dubois, Leonard, Golzato, Davide, Armanini, Federica, Cumbo, Fabio, Huang, Kun D., Manara, Serena, Masetti, Giulia, Pinto, Federica, Piperni, Elisa, Punčochář, Michal, Ricci, Liviana, Zolfo, Moreno, Farrant, Olivia, Goncalves, Adriana, Selma-Royo, Marta, Binetti, Ana G., Becerra, Jimmy E., Han, Bei, Lusingu, John, Amuasi, John, Amoroso, Loredana, Visconti, Alessia, Steves, Claire M., Falchi, Mario, Filosi, Michele, Tett, Adrian, Last, Anna, Xu, Qian, Qin, Nan, Qin, Huanlong, May, Jürgen, Eibach, Daniel, Corrias, Maria Valeria, Ponzoni, Mirco, Pasolli, Edoardo, Spector, Tim D., Domenici, Enrico, Collado, Maria Carmen, Segata, Nicola
Publicado 2023