Differences in Faecal Microbiome Taxonomy, Diversity and Functional Potential in a Bovine Cohort Experimentally Challenged with Mycobacterium avium subsp. paratuberculosis (MAP)

por Matthews, Chloe, Walsh, Aaron M., Gordon, Stephen V., Markey, Bryan, Cotter, Paul D., O' Mahony, Jim
Publicado 2023

Species classifier choice is a key consideration when analysing low-complexity food microbiome data

por Walsh, Aaron M., Crispie, Fiona, O’Sullivan, Orla, Finnegan, Laura, Claesson, Marcus J., Cotter, Paul D.
Publicado 2018

Integrated molecular approaches for fermented food microbiome research

por Walsh, Aaron M, Leech, John, Huttenhower, Curtis, Delhomme-Nguyen, Hue, Crispie, Fiona, Chervaux, Christian, Cotter, Paul D
Publicado 2023

Analysis of the milk kefir pan-metagenome reveals four community types, core species, and associated metabolic pathways

por Walsh, Liam H., Coakley, Mairéad, Walsh, Aaron M., Crispie, Fiona, O’Toole, Paul W., Cotter, Paul D.
Publicado 2023

Microbial Succession and Flavor Production in the Fermented Dairy Beverage Kefir

por Walsh, Aaron M., Crispie, Fiona, Kilcawley, Kieran, O’Sullivan, Orla, O’Sullivan, Maurice G., Claesson, Marcus J., Cotter, Paul D.
Publicado 2016

Correction for Walsh et al., Microbial Succession and Flavor Production in the Fermented Dairy Beverage Kefir

por Walsh, Aaron M., Crispie, Fiona, Kilcawley, Kieran, O’Sullivan, Orla, O’Sullivan, Maurice G., Claesson, Marcus J., Cotter, Paul D.
Publicado 2017

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 2020

The Lung Microbiome in Young Children with Cystic Fibrosis: A Prospective Cohort Study

por Linnane, Barry, Walsh, Aaron M., Walsh, Calum J., Crispie, Fiona, O’Sullivan, Orla, Cotter, Paul D., McDermott, Michael, Renwick, Julie, McNally, Paul
Publicado 2021

Comparison of the relative impacts of acute consumption of an inulin-enriched diet, milk kefir or a commercial probiotic product on the human gut microbiome and metabolome

por Walsh, Liam H., Walsh, Aaron M., Garcia-Perez, Isabel, Crispie, Fiona, Costabile, Adele, Ellis, Richard, Finlayson, Jim, Finnegan, Laura A., Claesson, Marcus J., Holmes, Elaine, Cotter, Paul D.
Publicado 2023

Distinct actions of the fermented beverage kefir on host behaviour, immunity and microbiome gut-brain modules in the mouse

por van de Wouw, Marcel, Walsh, Aaron M., Crispie, Fiona, van Leuven, Lucas, Lyte, Joshua M., Boehme, Marcus, Clarke, Gerard, Dinan, Timothy G., Cotter, Paul D., Cryan, John F.
Publicado 2020

Fermented-Food Metagenomics Reveals Substrate-Associated Differences in Taxonomy and Health-Associated and Antibiotic Resistance Determinants

por Leech, John, Cabrera-Rubio, Raul, Walsh, Aaron M., Macori, Guerrino, Walsh, Calum J., Barton, Wiley, Finnegan, Laura, Crispie, Fiona, O’Sullivan, Orla, Claesson, Marcus J., Cotter, Paul D.
Publicado 2020

Proficiency Testing of Metagenomics-Based Detection of Food-Borne Pathogens Using a Complex Artificial Sequencing Dataset

por Höper, Dirk, Grützke, Josephine, Brinkmann, Annika, Mossong, Joël, Matamoros, Sébastien, Ellis, Richard J., Deneke, Carlus, Tausch, Simon H., Cuesta, Isabel, Monzón, Sara, Juliá, Miguel, Petersen, Thomas Nordahl, Hendriksen, Rene S., Pamp, Sünje J., Leijon, Mikael, Hakhverdyan, Mikhayil, Walsh, Aaron M., Cotter, Paul D., Chandrasekaran, Lakshmi, Tay, Moon Y. F., Schlundt, Joergen, Sala, Claudia, De Cesare, Alessandra, Nitsche, Andreas, Beer, Martin, Wylezich, Claudia
Publicado 2020