Valles Colomer, Mireia
Valles Colomer, Mireia
Analysis of 1321 Eubacterium rectale genomes from metagenomes uncovers complex phylogeographic population structure and subspecies functional adaptations
2020-01-01 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
Cardiometabolic health, diet and the gut microbiome: a meta-omics perspective
2023-01-01 Valles-Colomer, Mireia; Menni, Cristina; Berry, Sarah E.; Valdes, Ana M.; Spector, Tim D.; Segata, Nicola
Extending and improving metagenomic taxonomic profiling with uncharacterized species using MetaPhlAn 4
2023-01-01 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
Extension of the Segatella copri complex to 13 species with distinct large extrachromosomal elements and associations with host conditions
2023-01-01 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
Integrating taxonomic, functional, and strain-level profiling of diverse microbial communities with bioBakery 3
2021-01-01 Beghini, Francesco; Mciver, Lauren J; Blanco-Míguez, Aitor; Dubois, Leonard; Asnicar, Francesco; Maharjan, Sagun; Mailyan, Ana; Manghi, Paolo; Scholz, Matthias; Thomas, Andrew Maltez; Valles-Colomer, Mireia; Weingart, George; Zhang, Yancong; Zolfo, Moreno; Huttenhower, Curtis; Franzosa, Eric A; Segata, Nicola
Intestinal Blastocystis is linked to healthier diets and more favorable cardiometabolic outcomes in 56,989 individuals from 32 countries
2024-01-01 Piperni, Elisa; Nguyen, Long H.; Manghi, Paolo; Kim, Hanseul; Pasolli, Edoardo; Andreu-Sánchez, Sergio; Arrè, Alberto; Bermingham, Kate M.; Blanco-Míguez, Aitor; Manara, Serena; Valles-Colomer, Mireia; Bakker, Elco; Busonero, Fabio; Davies, Richard; Fiorillo, Edoardo; Giordano, Francesca; Hadjigeorgiou, George; Leeming, Emily R.; Lobina, Monia; Masala, Marco; Maschio, Andrea; Mciver, Lauren J.; Pala, Mauro; Pitzalis, Maristella; Wolf, Jonathan; Fu, Jingyuan; Zhernakova, Alexandra; Cacciò, Simone M.; Cucca, Francesco; Berry, Sarah E.; Ercolini, Danilo; Chan, Andrew T.; Huttenhower, Curtis; Spector, Tim D.; Segata, Nicola; Asnicar, Francesco
Key determinants of success in fecal microbiota transplantation: From microbiome to clinic
2023-01-01 Porcari, Serena; Benech, Nicolas; Valles-Colomer, Mireia; Segata, Nicola; Gasbarrini, Antonio; Cammarota, Giovanni; Sokol, Harry; Ianiro, Gianluca
Maternal and food microbial sources shape the infant microbiome of a rural Ethiopian population
2023-01-01 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
MetaPhlAn 4 profiling of unknown species-level genome bins improves the characterization of diet-associated microbiome changes in mice
2023-01-01 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
Microbiome connections with host metabolism and habitual diet from 1,098 deeply phenotyped individuals
2021-01-01 Asnicar, Francesco; Berry, Sarah E.; Valdes, Ana M.; Nguyen, Long H.; Piccinno, Gianmarco; Drew, David A.; Leeming, Emily; Gibson, Rachel; Le Roy, Caroline; Khatib, Haya Al; Francis, Lucy; Mazidi, Mohsen; Mompeo, Olatz; Valles-Colomer, Mireia; Tett, Adrian; Beghini, Francesco; Dubois, Léonard; Bazzani, Davide; Thomas, Andrew Maltez; Mirzayi, Chloe; Khleborodova, Asya; Oh, Sehyun; Hine, Rachel; Bonnett, Christopher; Capdevila, Joan; Danzanvilliers, Serge; Giordano, Francesca; Geistlinger, Ludwig; Waldron, Levi; Davies, Richard; Hadjigeorgiou, George; Wolf, Jonathan; Ordovás, José M.; Gardner, Christopher; Franks, Paul W.; Chan, Andrew T.; Huttenhower, Curtis; Spector, Tim D.; Segata, Nicola
The person-to-person transmission landscape of the gut and oral microbiomes
2023-01-01 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
Variability of strain engraftment and predictability of microbiome composition after fecal microbiota transplantation across different diseases
2022-01-01 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
Variation and transmission of the human gut microbiota across multiple familial generations
2022-01-01 Valles-Colomer, Mireia; Bacigalupe, Rodrigo; Vieira-Silva, Sara; Suzuki, Shinya; Darzi, Youssef; Tito, Raul Y; Yamada, Takuji; Segata, Nicola; Raes, Jeroen; Falony, Gwen