Rates of Mutation and Recombination in Siphoviridae Phage Genome Evolution over Three Decades

por Kupczok, Anne, Neve, Horst, Huang, Kun D, Hoeppner, Marc P, Heller, Knut J, Franz, Charles M A P, Dagan, Tal
Publicado 2018

Metagenomic analysis of ancient dental calculus reveals unexplored diversity of oral archaeal Methanobrevibacter

por Granehäll, Lena, Huang, Kun D., Tett, Adrian, Manghi, Paolo, Paladin, Alice, O’Sullivan, Niall, Rota-Stabelli, Omar, Segata, Nicola, Zink, Albert, Maixner, Frank
Publicado 2021

Maternal and food microbial sources shape the infant microbiome of a rural Ethiopian population

por Manara, Serena, Selma-Royo, Marta, Huang, Kun D., Asnicar, Francesco, Armanini, Federica, Blanco-Miguez, Aitor, Cumbo, Fabio, Golzato, Davide, Manghi, Paolo, Pinto, Federica, Valles-Colomer, Mireia, Amoroso, Loredana, Corrias, Maria Valeria, Ponzoni, Mirco, Raffaetà, Roberta, Cabrera-Rubio, Raul, Olcina, Mari, Pasolli, Edoardo, Collado, Maria Carmen, Segata, Nicola
Publicado 2023

Hallstatt miners consumed blue cheese and beer during the Iron Age and retained a non-Westernized gut microbiome until the Baroque period

por Maixner, Frank, Sarhan, Mohamed S., Huang, Kun D., Tett, Adrian, Schoenafinger, Alexander, Zingale, Stefania, Blanco-Míguez, Aitor, Manghi, Paolo, Cemper-Kiesslich, Jan, Rosendahl, Wilfried, Kusebauch, Ulrike, Morrone, Seamus R., Hoopmann, Michael R., Rota-Stabelli, Omar, Rattei, Thomas, Moritz, Robert L., Oeggl, Klaus, Segata, Nicola, Zink, Albert, Reschreiter, Hans, Kowarik, Kerstin
Publicado 2021

Analysis of 1321 Eubacterium rectale genomes from metagenomes uncovers complex phylogeographic population structure and subspecies functional adaptations

por Karcher, Nicolai, Pasolli, Edoardo, Asnicar, Francesco, Huang, Kun D., Tett, Adrian, Manara, Serena, Armanini, Federica, Bain, Debbie, Duncan, Sylvia H., Louis, Petra, Zolfo, Moreno, Manghi, Paolo, Valles-Colomer, Mireia, Raffaetà, Roberta, Rota-Stabelli, Omar, Collado, Maria Carmen, Zeller, Georg, Falush, Daniel, Maixner, Frank, Walker, Alan W., Huttenhower, Curtis, Segata, Nicola
Publicado 2020

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 Prevotella copri Complex Comprises Four Distinct Clades Underrepresented in Westernized Populations

por Tett, Adrian, Huang, Kun D., Asnicar, Francesco, Fehlner-Peach, Hannah, Pasolli, Edoardo, Karcher, Nicolai, Armanini, Federica, Manghi, Paolo, Bonham, Kevin, Zolfo, Moreno, De Filippis, Francesca, Magnabosco, Cara, Bonneau, Richard, Lusingu, John, Amuasi, John, Reinhard, Karl, Rattei, Thomas, Boulund, Fredrik, Engstrand, Lars, Zink, Albert, Collado, Maria Carmen, Littman, Dan R., Eibach, Daniel, Ercolini, Danilo, Rota-Stabelli, Omar, Huttenhower, Curtis, Maixner, Frank, Segata, Nicola
Publicado 2019

Reconstruction of ancient microbial genomes from the human gut

por Wibowo, Marsha C., Yang, Zhen, Borry, Maxime, Hübner, Alexander, Huang, Kun D., Tierney, Braden T., Zimmerman, Samuel, Barajas-Olmos, Francisco, Contreras-Cubas, Cecilia, García-Ortiz, Humberto, Martínez-Hernández, Angélica, Luber, Jacob M., Kirstahler, Philipp, Blohm, Tre, Smiley, Francis E., Arnold, Richard, Ballal, Sonia A., Pamp, Sünje Johanna, Russ, Julia, Maixner, Frank, Rota-Stabelli, Omar, Segata, Nicola, Reinhard, Karl, Orozco, Lorena, Warinner, Christina, Snow, Meradeth, LeBlanc, Steven, Kostic, Aleksandar D.
Publicado 2021

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