Unexplored microbial diversity from 2,500 food metagenomes and links with the human microbiome

Autor: Alvarez-Ordóñez, Avelino, Alvarez, Pablo, Antonielli, Livio, Arendt, Elke, Armanini, Federica, Aubry, Aurelie, Baelum, Jacob, Barcenilla, Coral, Belanche, Alejandro, Benavent-Gil, Yaiza, Blake, Tony, Blanco-Míguez, Aitor, Bongoni, Radhika, Boyer, Mickael, Brennan, Fiona, Breselge, Samuel, Briem, Helgi, Butler, Derek, Calvete-Torre, Inés, Carballo, Omar Cristobal, Cardinal, Mireille, Carlino, Niccolò, Chervaux, Christian, Chopin, Christine, Clotaire, Natallia, Coakley, Mairead, Cobo-Díaz, José Francisco, Codd, Jim, Conroy, Stephen, Corral-Jara, Karla Fabiola, Corral-Jara, Karla-Fabiola, Cotter, Paul D., Coyne, Gerard, Creevey, Chris, Cuevas, Patricia D., Curran, Brendan, Delgado, Susana, Derde, Liesbeth, Derrien, Muriel, Ercolini, Danilo, Exposito, Ruth Gomez, López Fernández, María Mercedes, De Filippis, Francesca, Fordham, Daniel, Galy, Hubert, Gavriilidou, Asimenia, Gunnarsson, Oddur, Hanson, Buck, Hermes, Gerben, Huang, Rongcai, Huws, Sharon, Ikoyi, Israel, Jaeger, Alice, Jeffery, Ian, Jérôme, Marc, Juan, Pierre-Alexandre, Kenny, David, Kers, Annelies, Khinouche, Karim-Franck, Kirwan, Stuart, Klaassens, Eline S., Knobloch, Stephen, Kolbeinsson, Kristinn, Kolypczuk, Laetitia, Kostic, Tanja, Ledda, Fabio, Leech, John, Lehmann, Doerte, Leroi, Françoise, Lewis, Eva, Ley, Johanna, Lucic, Eva, Lynch, Kieran, Mace, Sabrina, MacLaren-Lee, Iain, Mahler de Sanchez, Lisa, Marchart, Juergen, Margolles, Abelardo, Marteinsson, Viggó Thór, Masetti, Giulia, McGovern, Fiona, McHugh, Noirin, McLoughlin, Steven, Meehan, Dara, Mølbak, Lars, Monin, Thomas, Moreno, Javier, Morgavi, Diego, Morrison, Steven, Müench, Steffen, Ramos Neves, Ana Rute, Neylon, Emma, Nyhan, Laura, O’Kelly, Rhona, O’Neil, Dominic, O’Toole, Paul, Ortiz-Chura, Abimael, Palma, Juan Manuel, Pasolli, Edoardo, Passerini, Delphine, Pastar, Milica, Pinto, Federica, Pirovano, Walter, Plans, Olga, Policht, Marion, Pop, Aurel, Pop, Bianca, Popova, Milka, Prieto, Miguel, Quijada, Narciso M., Reiss, Antje, Romero, Pedro, Ruas-Madiedo, Patricia, Rubino, Francesco, Rubio, Raul Cabrera, Ruiz, Lorena, Ryan, Angela, Ryan, Clodagh, Sabater, Carlos, Sahin, Aylin, Salaun, Cecile, Santos, Fernanda Godoy, Schneider, Carolin, Segata, Nicola, Selberherr, Evelyne, Sessitsch, Angela, Skírnisdóttir, Sigurlaug, Smidt, Hauke, Smith, Paul, Sprenger-Haussels, Markus, Tapio, Ilma, Tap, Julien, Valentino, Vincenzo, Wagner, Martin, Walsh, Aaron, Walsh, Liam, Waters, Sinead M., Willcocks, Spike, Yáñez-Ruiz, David R., Yan, Tianhai, Yap, Min, Zannini, Emanuele, Zuliani, Véronique, Punčochář, Michal, Mengoni, Claudia, Tatti, Alessia, Manghi, Paolo, Avagliano, Michele, Cabrera-Rubio, Raul, Coakley, Mairéad, Cobo-Díaz, José F., Dey, Hrituraj, Asnicar, Francesco, Fackelmann, Gloria, Heidrich, Vitor, Rota Stabelli, Omar

Publikováno v: In Cell 3 October 2024 187(20):5775-5795

Integration of genomics in surveillance and risk assessment for outbreak investigation.

Autor: Pennone, Vincenzo¹ (AUTHOR) eu-fora@efsa.europa.eu, Cobo‐Díaz, José Francisco¹ (AUTHOR), Prieto‐Maradona, Miguel¹ (AUTHOR), Álvarez‐Ordóñez, Avelino¹ (AUTHOR)

Publikováno v: EFSA Journal. May2022 Supplement S1, Vol. 20, p1-10. 10p.

Additional file 1 of Antimicrobial use and production system shape the fecal, environmental, and slurry resistomes of pig farms

Autor: Mencía-Ares, Oscar, Cabrera-Rubio, Raúl, Cobo-Díaz, José Francisco, Álvarez-Ordóñez, Avelino, Gómez-García, Manuel, Puente, Héctor, Cotter, Paul D., Crispie, Fiona, Carvajal, Ana, Rubio, Pedro, Argüello, Héctor

Additional file 1: Figure S1. Alpha diversity of different antimicrobial resistance (AMR) classes measured by A) Simpson and B) Shannon indexes. These indexes were calculated from the counts per million matrix and represented as boxplots. Each sample

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::761bdfc183159ad5b7b6818fbfad3ac2

Additional file 3 of Antimicrobial use and production system shape the fecal, environmental, and slurry resistomes of pig farms

Autor: Mencía-Ares, Oscar, Cabrera-Rubio, Raúl, Cobo-Díaz, José Francisco, Álvarez-Ordóñez, Avelino, Gómez-García, Manuel, Puente, Héctor, Cotter, Paul D., Crispie, Fiona, Carvajal, Ana, Rubio, Pedro, Argüello, Héctor

Additional file 3: Table S1. Resistome variation among different production systems and samples at AMR class level.

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::5b699d0fcbea223725a66faeee391f91

Additional file 6 of Antimicrobial use and production system shape the fecal, environmental, and slurry resistomes of pig farms

Autor: Mencía-Ares, Oscar, Cabrera-Rubio, Raúl, Cobo-Díaz, José Francisco, Álvarez-Ordóñez, Avelino, Gómez-García, Manuel, Puente, Héctor, Cotter, Paul D., Crispie, Fiona, Carvajal, Ana, Rubio, Pedro, Argüello, Héctor

Additional file 6: Figure S4. Association between the resistome and the bacterial microbiome composition. A) Correlation between antimicrobial resistance genes and bacterial abundance at family level using Procrustes analyses. The lines show the Proc

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::0525f14e3ecf1eac0fb9cc2b7fd6f0d5