The food-gut axis: lactic acid bacteria and their link to food, the gut microbiome and human health

por De Filippis, Francesca, Pasolli, Edoardo, Ercolini, Danilo
Publicado no FEMS Microbiol Rev (2020)

Machine Learning Meta-analysis of Large Metagenomic Datasets: Tools and Biological Insights

por Pasolli, Edoardo, Truong, Duy Tin, Malik, Faizan, Waldron, Levi, Segata, Nicola
Publicado no PLoS Comput Biol (2016)

Microbial strain-level population structure and genetic diversity from metagenomes

por Truong, Duy Tin, Tett, Adrian, Pasolli, Edoardo, Huttenhower, Curtis, Segata, Nicola
Publicado no Genome Res (2017)

Profiling microbial strains in urban environments using metagenomic sequencing data

por Zolfo, Moreno, Asnicar, Francesco, Manghi, Paolo, Pasolli, Edoardo, Tett, Adrian, Segata, Nicola
Publicado no Biol Direct (2018)

Large-scale comparative metagenomics of Blastocystis, a common member of the human gut microbiome

por Beghini, Francesco, Pasolli, Edoardo, Truong, Tin Duy, Putignani, Lorenza, Cacciò, Simone M, Segata, Nicola
Publicado no ISME J (2017)

Large-Scale Phylogenomics of the Lactobacillus casei Group Highlights Taxonomic Inconsistencies and Reveals Novel Clade-Associated Features

por Wuyts, Sander, Wittouck, Stijn, De Boeck, Ilke, Allonsius, Camille N., Pasolli, Edoardo, Segata, Nicola, Lebeer, Sarah
Publicado no mSystems (2017)

Genomic and metagenomic insights into the microbial community of a thermal spring

por Pedron, Renato, Esposito, Alfonso, Bianconi, Irene, Pasolli, Edoardo, Tett, Adrian, Asnicar, Francesco, Cristofolini, Mario, Segata, Nicola, Jousson, Olivier
Publicado no Microbiome (2019)

Draft Genome Sequence of the Planktic Cyanobacterium Tychonema bourrellyi, Isolated from Alpine Lentic Freshwater

por Pinto, Federica, Tett, Adrian, Armanini, Federica, Asnicar, Francesco, Boscaini, Adriano, Pasolli, Edoardo, Zolfo, Moreno, Donati, Claudio, Salmaso, Nico, Segata, Nicola
Publicado no Genome Announc (2017)

Draft Genome Sequences of Novel Pseudomonas, Flavobacterium, and Sediminibacterium Species Strains from a Freshwater Ecosystem

por Pinto, Federica, Tett, Adrian, Armanini, Federica, Asnicar, Francesco, Boscaini, Adriano, Pasolli, Edoardo, Zolfo, Moreno, Donati, Claudio, Salmaso, Nico, Segata, Nicola
Publicado no Genome Announc (2018)

Correction for Pinto et al., “Draft Genome Sequences of Novel Pseudomonas, Flavobacterium, and Sediminibacterium Strains from a Freshwater Ecosystem”

por Pinto, Federica, Tett, Adrian, Armanini, Federica, Asnicar, Francesco, Boscaini, Adriano, Pasolli, Edoardo, Zolfo, Moreno, Donati, Claudio, Salmaso, Nico, Segata, Nicola
Publicado no Genome Announc (2018)

Large-scale genome-wide analysis links lactic acid bacteria from food with the gut microbiome

por Pasolli, Edoardo, De Filippis, Francesca, Mauriello, Italia E., Cumbo, Fabio, Walsh, Aaron M., Leech, John, Cotter, Paul D., Segata, Nicola, Ercolini, Danilo
Publicado no Nat Commun (2020)

Microbial genomes from non-human primate gut metagenomes expand the primate-associated bacterial tree of life with over 1000 novel species

por Manara, Serena, Asnicar, Francesco, Beghini, Francesco, Bazzani, Davide, Cumbo, Fabio, Zolfo, Moreno, Nigro, Eleonora, Karcher, Nicolai, Manghi, Paolo, Metzger, Marisa Isabell, Pasolli, Edoardo, Segata, Nicola
Publicado no Genome Biol (2019)

Strong oral plaque microbiome signatures for dental implant diseases identified by strain-resolution metagenomics

por Ghensi, Paolo, Manghi, Paolo, Zolfo, Moreno, Armanini, Federica, Pasolli, Edoardo, Bolzan, Mattia, Bertelle, Alberto, Dell’Acqua, Federico, Dellasega, Ester, Waldner, Romina, Tessarolo, Francesco, Tomasi, Cristiano, Segata, Nicola
Publicado no NPJ Biofilms Microbiomes (2020)

Unexplored diversity and strain-level structure of the skin microbiome associated with psoriasis

por Tett, Adrian, Pasolli, Edoardo, Farina, Stefania, Truong, Duy Tin, Asnicar, Francesco, Zolfo, Moreno, Beghini, Francesco, Armanini, Federica, Jousson, Olivier, De Sanctis, Veronica, Bertorelli, Roberto, Girolomoni, Giampiero, Cristofolini, Mario, Segata, Nicola
Publicado no NPJ Biofilms Microbiomes (2017)

Accessible, curated metagenomic data through ExperimentHub

por Pasolli, Edoardo, Schiffer, Lucas, Manghi, Paolo, Renson, Audrey, Obenchain, Valerie, Truong, Duy Tin, Beghini, Francesco, Malik, Faizan, Ramos, Marcel, Dowd, Jennifer B, Huttenhower, Curtis, Morgan, Martin, Segata, Nicola, Waldron, Levi
Publicado no Nat Methods (2017)

Whole-genome epidemiology, characterisation, and phylogenetic reconstruction of Staphylococcus aureus strains in a paediatric hospital

por Manara, Serena, Pasolli, Edoardo, Dolce, Daniela, Ravenni, Novella, Campana, Silvia, Armanini, Federica, Asnicar, Francesco, Mengoni, Alessio, Galli, Luisa, Montagnani, Carlotta, Venturini, Elisabetta, Rota-Stabelli, Omar, Grandi, Guido, Taccetti, Giovanni, Segata, Nicola
Publicado no Genome Med (2018)

Mediterranean diet intervention in overweight and obese subjects lowers plasma cholesterol and causes changes in the gut microbiome and metabolome independently of energy intake

por Meslier, Victoria, Laiola, Manolo, Roager, Henrik Munch, De Filippis, Francesca, Roume, Hugo, Quinquis, Benoit, Giacco, Rosalba, Mennella, Ilario, Ferracane, Rosalia, Pons, Nicolas, Pasolli, Edoardo, Rivellese, Angela, Dragsted, Lars Ove, Vitaglione, Paola, Ehrlich, Stanislav Dusko, Ercolini, Danilo
Publicado no Gut (2020)

Precise phylogenetic analysis of microbial isolates and genomes from metagenomes using PhyloPhlAn 3.0

por Asnicar, Francesco, Thomas, Andrew Maltez, Beghini, Francesco, Mengoni, Claudia, Manara, Serena, Manghi, Paolo, Zhu, Qiyun, Bolzan, Mattia, Cumbo, Fabio, May, Uyen, Sanders, Jon G., Zolfo, Moreno, Kopylova, Evguenia, Pasolli, Edoardo, Knight, Rob, Mirarab, Siavash, Huttenhower, Curtis, Segata, Nicola
Publicado no Nat Commun (2020)

Extensive Unexplored Human Microbiome Diversity Revealed by Over 150,000 Genomes from Metagenomes Spanning Age, Geography, and Lifestyle

por Pasolli, Edoardo, Asnicar, Francesco, Manara, Serena, Zolfo, Moreno, Karcher, Nicolai, Armanini, Federica, Beghini, Francesco, Manghi, Paolo, Tett, Adrian, Ghensi, Paolo, Collado, Maria Carmen, Rice, Benjamin L., DuLong, Casey, Morgan, Xochitl C., Golden, Christopher D., Quince, Christopher, Huttenhower, Curtis, Segata, Nicola
Publicado no Cell (2019)

Neonatal antibiotic exposure impairs child growth during the first six years of life by perturbing intestinal microbial colonization

por Uzan-Yulzari, Atara, Turta, Olli, Belogolovski, Anna, Ziv, Oren, Kunz, Christina, Perschbacher, Sarah, Neuman, Hadar, Pasolli, Edoardo, Oz, Aia, Ben-Amram, Hila, Kumar, Himanshu, Ollila, Helena, Kaljonen, Anne, Isolauri, Erika, Salminen, Seppo, Lagström, Hanna, Segata, Nicola, Sharon, Itai, Louzoun, Yoram, Ensenauer, Regina, Rautava, Samuli, Koren, Omry
Publicado no Nat Commun (2021)