On the Road to Strain-Resolved Comparative Metagenomics

by Nicola Segata
Published 2018

Microbial co-occurrence relationships in the human microbiome.

by Karoline Faust, J Fah Sathirapongsasuti, Jacques Izard, Nicola Segata, Dirk Gevers, Jeroen Raes, Curtis Huttenhower
Published 2012

Large-Scale Phylogenomics of the <italic toggle="yes">Lactobacillus casei</italic> Group Highlights Taxonomic Inconsistencies and Reveals Novel Clade-Associated Features

by Sander Wuyts, Stijn Wittouck, Ilke De Boeck, Camille N. Allonsius, Edoardo Pasolli, Nicola Segata, Sarah Lebeer
Published 2017

The Signal and the Noise: Characteristics of Antisense RNA in Complex Microbial Communities

by Thomas Yssing Michaelsen, Jakob Brandt, Caitlin Margaret Singleton, Rasmus Hansen Kirkegaard, Johanna Wiesinger, Nicola Segata, Mads Albertsen
Published 2020

Lung and Gut Microbiota Changes Associated with <i>Pseudomonas aeruginosa</i> Infection in Mouse Models of Cystic Fibrosis

by Giovanni Bacci, Alice Rossi, Federica Armanini, Lisa Cangioli, Ida De Fino, Nicola Segata, Alessio Mengoni, Alessandra Bragonzi, Annamaria Bevivino
Published 2021

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

by Edoardo Pasolli, Francesca De Filippis, Italia E. Mauriello, Fabio Cumbo, Aaron M. Walsh, John Leech, Paul D. Cotter, Nicola Segata, Danilo Ercolini
Published 2020

Studying Vertical Microbiome Transmission from Mothers to Infants by Strain-Level Metagenomic Profiling

by Francesco Asnicar, Serena Manara, Moreno Zolfo, Duy Tin Truong, Matthias Scholz, Federica Armanini, Pamela Ferretti, Valentina Gorfer, Anna Pedrotti, Adrian Tett, Nicola Segata
Published 2017

Correction for Tarallo et al., “Altered Fecal Small RNA Profiles in Colorectal Cancer Reflect Gut Microbiome Composition in Stool Samples”

by Sonia Tarallo, Giulio Ferrero, Gaetano Gallo, Antonio Francavilla, Giuseppe Clerico, Alberto Realis Luc, Paolo Manghi, Andrew Maltez Thomas, Paolo Vineis, Nicola Segata, Barbara Pardini, Alessio Naccarati, Francesca Cordero
Published 2020

Altered Fecal Small RNA Profiles in Colorectal Cancer Reflect Gut Microbiome Composition in Stool Samples

by Sonia Tarallo, Giulio Ferrero, Gaetano Gallo, Antonio Francavilla, Giuseppe Clerico, Alberto Realis Luc, Paolo Manghi, Andrew Maltez Thomas, Paolo Vineis, Nicola Segata, Barbara Pardini, Alessio Naccarati, Francesca Cordero
Published 2019

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

by Adrian Tett, Edoardo Pasolli, Stefania Farina, Duy Tin Truong, Francesco Asnicar, Moreno Zolfo, Francesco Beghini, Federica Armanini, Olivier Jousson, Veronica De Sanctis, Roberto Bertorelli, Giampiero Girolomoni, Mario Cristofolini, Nicola Segata
Published 2017

Commensal <i>Bifidobacterium</i> Strains Enhance the Efficacy of Neo-Epitope Based Cancer Vaccines

by Michele Tomasi, Mattia Dalsass, Francesco Beghini, Ilaria Zanella, Elena Caproni, Laura Fantappiè, Assunta Gagliardi, Carmela Irene, Enrico König, Luca Frattini, Giulia Masetti, Samine Jessica Isaac, Federica Armanini, Fabio Cumbo, Aitor Blanco-Míguez, Alberto Grandi, Nicola Segata, Guido Grandi
Published 2021

Metabolic reconstruction for metagenomic data and its application to the human microbiome.

by Sahar Abubucker, Nicola Segata, Johannes Goll, Alyxandria M Schubert, Jacques Izard, Brandi L Cantarel, Beltran Rodriguez-Mueller, Jeremy Zucker, Mathangi Thiagarajan, Bernard Henrissat, Owen White, Scott T Kelley, Barbara Methé, Patrick D Schloss, Dirk Gevers, Makedonka Mitreva, Curtis Huttenhower
Published 2012

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

by Francesco Asnicar, Andrew Maltez Thomas, Francesco Beghini, Claudia Mengoni, Serena Manara, Paolo Manghi, Qiyun Zhu, Mattia Bolzan, Fabio Cumbo, Uyen May, Jon G. Sanders, Moreno Zolfo, Evguenia Kopylova, Edoardo Pasolli, Rob Knight, Siavash Mirarab, Curtis Huttenhower, Nicola Segata
Published 2020

Faecal microbiota transplantation for the treatment of diarrhoea induced by tyrosine-kinase inhibitors in patients with metastatic renal cell carcinoma

by Gianluca Ianiro, Ernesto Rossi, Andrew M. Thomas, Giovanni Schinzari, Luca Masucci, Gianluca Quaranta, Carlo Romano Settanni, Loris Riccardo Lopetuso, Federica Armanini, Aitor Blanco-Miguez, Francesco Asnicar, Clarissa Consolandi, Roberto Iacovelli, Maurizio Sanguinetti, Giampaolo Tortora, Antonio Gasbarrini, Nicola Segata, Giovanni Cammarota
Published 2020

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

by Atara Uzan-Yulzari, Olli Turta, Anna Belogolovski, Oren Ziv, Christina Kunz, Sarah Perschbacher, Hadar Neuman, Edoardo Pasolli, Aia Oz, Hila Ben-Amram, Himanshu Kumar, Helena Ollila, Anne Kaljonen, Erika Isolauri, Seppo Salminen, Hanna Lagström, Nicola Segata, Itai Sharon, Yoram Louzoun, Regina Ensenauer, Samuli Rautava, Omry Koren
Published 2021

Phylogenomics of 10,575 genomes reveals evolutionary proximity between domains Bacteria and Archaea

by Qiyun Zhu, Uyen Mai, Wayne Pfeiffer, Stefan Janssen, Francesco Asnicar, Jon G. Sanders, Pedro Belda-Ferre, Gabriel A. Al-Ghalith, Evguenia Kopylova, Daniel McDonald, Tomasz Kosciolek, John B. Yin, Shi Huang, Nimaichand Salam, Jian-Yu Jiao, Zijun Wu, Zhenjiang Z. Xu, Kalen Cantrell, Yimeng Yang, Erfan Sayyari, Maryam Rabiee, James T. Morton, Sheila Podell, Dan Knights, Wen-Jun Li, Curtis Huttenhower, Nicola Segata, Larry Smarr, Siavash Mirarab, Rob Knight
Published 2019

A collection of bacterial isolates from the pig intestine reveals functional and taxonomic diversity

by David Wylensek, Thomas C. A. Hitch, Thomas Riedel, Afrizal Afrizal, Neeraj Kumar, Esther Wortmann, Tianzhe Liu, Saravanan Devendran, Till R. Lesker, Sara B. Hernández, Viktoria Heine, Eva M. Buhl, Paul M. D’Agostino, Fabio Cumbo, Thomas Fischöder, Marzena Wyschkon, Torey Looft, Valeria R. Parreira, Birte Abt, Heidi L. Doden, Lindsey Ly, João M. P. Alves, Markus Reichlin, Krzysztof Flisikowski, Laura Navarro Suarez, Anthony P. Neumann, Garret Suen, Tomas de Wouters, Sascha Rohn, Ilias Lagkouvardos, Emma Allen-Vercoe, Cathrin Spröer, Boyke Bunk, Anja J. Taverne-Thiele, Marcel Giesbers, Jerry M. Wells, Klaus Neuhaus, Angelika Schnieke, Felipe Cava, Nicola Segata, Lothar Elling, Till Strowig, Jason M. Ridlon, Tobias A. M. Gulder, Jörg Overmann, Thomas Clavel
Published 2020