Search | Virtual Health Library

1.

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

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.

Cell ; 176(3): 649-662.e20, 2019 01 24.

Article in English | MEDLINE | ID: mdl-30661755

2.

Over-celling fetal microbial exposure.

Kennedy, Katherine M; Bellissimo, Christian J; Breznik, Jessica A; Barrett, Jon; Braun, Thorsten; Bushman, Frederic D; De Goffau, Marcus; Elovitz, Michal A; Heimesaat, Markus M; Konnikova, Liza; Koren, Omry; Parry, Samuel; Rossi, Laura; Segata, Nicola; Simmons, Rebecca A; Surette, Michael G; Walter, Jens; Sloboda, Deborah M.

Cell ; 184(24): 5839-5841, 2021 11 24.

Article in English | MEDLINE | ID: mdl-34822779

3.

A distinct Fusobacterium nucleatum clade dominates the colorectal cancer niche.

Zepeda-Rivera, Martha; Minot, Samuel S; Bouzek, Heather; Wu, Hanrui; Blanco-Míguez, Aitor; Manghi, Paolo; Jones, Dakota S; LaCourse, Kaitlyn D; Wu, Ying; McMahon, Elsa F; Park, Soon-Nang; Lim, Yun K; Kempchinsky, Andrew G; Willis, Amy D; Cotton, Sean L; Yost, Susan C; Sicinska, Ewa; Kook, Joong-Ki; Dewhirst, Floyd E; Segata, Nicola; Bullman, Susan; Johnston, Christopher D.

Nature ; 628(8007): 424-432, 2024 Apr.

Article in English | MEDLINE | ID: mdl-38509359

4.

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

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; Puncochár, 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.

Nature ; 614(7946): 125-135, 2023 02.

Article in English | MEDLINE | ID: mdl-36653448

5.

Questioning the fetal microbiome illustrates pitfalls of low-biomass microbial studies.

Kennedy, Katherine M; de Goffau, Marcus C; Perez-Muñoz, Maria Elisa; Arrieta, Marie-Claire; Bäckhed, Fredrik; Bork, Peer; Braun, Thorsten; Bushman, Frederic D; Dore, Joel; de Vos, Willem M; Earl, Ashlee M; Eisen, Jonathan A; Elovitz, Michal A; Ganal-Vonarburg, Stephanie C; Gänzle, Michael G; Garrett, Wendy S; Hall, Lindsay J; Hornef, Mathias W; Huttenhower, Curtis; Konnikova, Liza; Lebeer, Sarah; Macpherson, Andrew J; Massey, Ruth C; McHardy, Alice Carolyn; Koren, Omry; Lawley, Trevor D; Ley, Ruth E; O'Mahony, Liam; O'Toole, Paul W; Pamer, Eric G; Parkhill, Julian; Raes, Jeroen; Rattei, Thomas; Salonen, Anne; Segal, Eran; Segata, Nicola; Shanahan, Fergus; Sloboda, Deborah M; Smith, Gordon C S; Sokol, Harry; Spector, Tim D; Surette, Michael G; Tannock, Gerald W; Walker, Alan W; Yassour, Moran; Walter, Jens.

Nature ; 613(7945): 639-649, 2023 01.

Article in English | MEDLINE | ID: mdl-36697862

6.

Reconstruction of ancient microbial genomes from the human gut.

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.

Nature ; 594(7862): 234-239, 2021 06.

Article in English | MEDLINE | ID: mdl-33981035

7.

Snack quality and snack timing are associated with cardiometabolic blood markers: the ZOE PREDICT study.

Bermingham, Kate M; May, Anna; Asnicar, Francesco; Capdevila, Joan; Leeming, Emily R; Franks, Paul W; Valdes, Ana M; Wolf, Jonathan; Hadjigeorgiou, George; Delahanty, Linda M; Segata, Nicola; Spector, Tim D; Berry, Sarah E.

Eur J Nutr ; 63(1): 121-133, 2024 Feb.

Article in English | MEDLINE | ID: mdl-37709944

8.

Recent genetic exchanges and admixture shape the genome and population structure of the zoonotic pathogen Cryptosporidium parvum.

Corsi, Giulia I; Tichkule, Swapnil; Sannella, Anna Rosa; Vatta, Paolo; Asnicar, Francesco; Segata, Nicola; Jex, Aaron R; van Oosterhout, Cock; Cacciò, Simone M.

Mol Ecol ; 32(10): 2633-2645, 2023 05.

Article in English | MEDLINE | ID: mdl-35652748

9.

Exploring the relationship between social jetlag with gut microbial composition, diet and cardiometabolic health, in the ZOE PREDICT 1 cohort.

Bermingham, Kate M; Stensrud, Sophie; Asnicar, Francesco; Valdes, Ana M; Franks, Paul W; Wolf, Jonathan; Hadjigeorgiou, George; Davies, Richard; Spector, Tim D; Segata, Nicola; Berry, Sarah E; Hall, Wendy L.

Eur J Nutr ; 62(8): 3135-3147, 2023 Dec.

Article in English | MEDLINE | ID: mdl-37528259

10.

Stool microRNA profiles reflect different dietary and gut microbiome patterns in healthy individuals.

Tarallo, Sonia; Ferrero, Giulio; De Filippis, Francesca; Francavilla, Antonio; Pasolli, Edoardo; Panero, Valentina; Cordero, Francesca; Segata, Nicola; Grioni, Sara; Pensa, Ruggero Gaetano; Pardini, Barbara; Ercolini, Danilo; Naccarati, Alessio.

Gut ; 71(7): 1302-1314, 2022 07.

Article in English | MEDLINE | ID: mdl-34315772

11.

Impact of insufficient sleep on dysregulated blood glucose control under standardised meal conditions.

Tsereteli, Neli; Vallat, Raphael; Fernandez-Tajes, Juan; Delahanty, Linda M; Ordovas, Jose M; Drew, David A; Valdes, Ana M; Segata, Nicola; Chan, Andrew T; Wolf, Jonathan; Berry, Sarah E; Walker, Matthew P; Spector, Timothy D; Franks, Paul W.

Diabetologia ; 65(2): 356-365, 2022 02.

Article in English | MEDLINE | ID: mdl-34845532

12.

Blue poo: impact of gut transit time on the gut microbiome using a novel marker.

Asnicar, Francesco; Leeming, Emily R; Dimidi, Eirini; Mazidi, Mohsen; Franks, Paul W; Al Khatib, Haya; Valdes, Ana M; Davies, Richard; Bakker, Elco; Francis, Lucy; Chan, Andrew; Gibson, Rachel; Hadjigeorgiou, George; Wolf, Jonathan; Spector, Timothy D; Segata, Nicola; Berry, Sarah E.

Gut ; 70(9): 1665-1674, 2021 09.

Article in English | MEDLINE | ID: mdl-33722860

13.

Selective maternal seeding and environment shape the human gut microbiome.

Korpela, Katri; Costea, Paul; Coelho, Luis Pedro; Kandels-Lewis, Stefanie; Willemsen, Gonneke; Boomsma, Dorret I; Segata, Nicola; Bork, Peer.

Genome Res ; 28(4): 561-568, 2018 04.

Article in English | MEDLINE | ID: mdl-29496731

14.

High intake of vegetables is linked to lower white blood cell profile and the effect is mediated by the gut microbiome.

Menni, Cristina; Louca, Panayiotis; Berry, Sarah E; Vijay, Amrita; Astbury, Stuart; Leeming, Emily R; Gibson, Rachel; Asnicar, Francesco; Piccinno, Gianmarco; Wolf, Jonathan; Davies, Richard; Mangino, Massimo; Segata, Nicola; Spector, Tim D; Valdes, Ana M.

BMC Med ; 19(1): 37, 2021 02 11.

Article in English | MEDLINE | ID: mdl-33568158

15.

Species-level functional profiling of metagenomes and metatranscriptomes.

Franzosa, Eric A; McIver, Lauren J; Rahnavard, Gholamali; Thompson, Luke R; Schirmer, Melanie; Weingart, George; Lipson, Karen Schwarzberg; Knight, Rob; Caporaso, J Gregory; Segata, Nicola; Huttenhower, Curtis.

Nat Methods ; 15(11): 962-968, 2018 11.

Article in English | MEDLINE | ID: mdl-30377376

16.

Genes Encoding Microbial Acyl Coenzyme A Binding Protein/Diazepam-Binding Inhibitor Orthologs Are Rare in the Human Gut Microbiome and Show No Links to Obesity.

Thomas, Andrew Maltez; Asnicar, Francesco; Kroemer, Guido; Segata, Nicola.

Appl Environ Microbiol ; 87(12): e0047121, 2021 05 26.

Article in English | MEDLINE | ID: mdl-33837018

17.

Lung and Gut Microbiota Changes Associated with Pseudomonas aeruginosa Infection in Mouse Models of Cystic Fibrosis.

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

Int J Mol Sci ; 22(22)2021 Nov 10.

Article in English | MEDLINE | ID: mdl-34830048

18.

Consumer Safety Considerations of Skin and Oral Microbiome Perturbation.

McBain, Andrew J; O'Neill, Catherine A; Amezquita, Alejandro; Price, Laura J; Faust, Karoline; Tett, Adrian; Segata, Nicola; Swann, Jonathan R; Smith, Adrian M; Murphy, Barry; Hoptroff, Michael; James, Gordon; Reddy, Yugandhar; Dasgupta, Anindya; Ross, Tom; Chapple, Iain L; Wade, William G; Fernandez-Piquer, Judith.

Clin Microbiol Rev ; 32(4)2019 09 18.

Article in English | MEDLINE | ID: mdl-31366612

19.

Microbial strain-level population structure and genetic diversity from metagenomes.

Truong, Duy Tin; Tett, Adrian; Pasolli, Edoardo; Huttenhower, Curtis; Segata, Nicola.

Genome Res ; 27(4): 626-638, 2017 04.

Article in English | MEDLINE | ID: mdl-28167665

20.

No bacteria found in healthy placentas.

Segata, Nicola.

Nature ; 572(7769): 317-318, 2019 08.

Article in English | MEDLINE | ID: mdl-31406307

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