Ruth E Ley

ResearcherID ORCID

Publication Activity (10 Years)

Years Active: 2017-2024
Publications (10 Years): 43

Top Venues

mSystems

Nature

PLoS computational biology

mBio

Max Planck Institute for Developmental Biology

University of Colorado Boulder (PHD)

This page only lists publications with an associated author ORCID identifier.

Affiliation History

Max Planck Institute for Developmental Biology Aug 01 2016

Germany

Director :: Microbiome Science

Cornell University Jul 01 2014 - Jul 31 2018

United States

Associate Professor :: Molecular Biology and Genetics

Cornell University

United States

Assistant Professor :: Microbiology

Education History

University of Colorado Boulder

United States

PHD :: Environmental, Population and Organismic Biology

Publications

Laura Salazar-Jaramillo, Jacobo de la Cuesta-Zuluaga, Luis A Chica, María Cadavid, Ruth E Ley, Alejandro Reyes, Juan S Escobar
Gut microbiome diversity within Clostridia is negatively associated with human obesity. mSystems 9 (8) (2024)
Laura Salazar-Jaramillo, Jacobo de la Cuesta-Zuluaga, Luis A Chica, María Cadavid, Ruth E Ley, Alejandro Reyes, Juan S Escobar
Gut microbiome diversity within Clostridia is negatively associated with human obesity. mSystems (2024)
Laura Salazar-Jaramillo, Jacobo de la Cuesta-Zuluaga, Luis A Chica, María Cadavid, Ruth E Ley, Alejandro Reyes, Juan S Escobar
Gut microbiome diversity within Clostridia is negatively associated with human obesity. mSystems 9 (8) (2024)
Hagay Enav, Inbal Paz, Ruth E Ley
Strain tracking in complex microbiomes using synteny analysis reveals per-species modes of evolution. Nature biotechnology (2024)
Laura Salazar-Jaramillo, Jacobo de la Cuesta-Zuluaga, Luis A Chica, María Cadavid, Ruth E Ley, Alejandro Reyes, Juan S Escobar
Gut microbiome diversity within Clostridia is negatively associated with human obesity. mSystems 9 (8) (2024)
Sara J Clasen, Michael E W Bell, Andrea Borbón, Du-Hwa Lee, Zachariah M Henseler, Jacobo de la Cuesta-Zuluaga, Katarzyna Parys, Jun Zou, Yanling Wang, Veronika Altmannova, Nicholas D Youngblut, John R Weir, Andrew T Gewirtz, Youssef Belkhadir, Ruth E Ley
Silent recognition of flagellins from human gut commensal bacteria by Toll-like receptor 5. Science immunology 8 (79) (2023)
Tanja Akbuğa-Schön, Taichi A Suzuki, Dennis Jakob, Dai Long Vu, Jillian L Waters, Ruth E Ley
The keystone gut species Christensenella minuta boosts gut microbial biomass and voluntary physical activity in mice. mBio 15 (2) (2023)
Tanja Akbuğa-Schön, Taichi A Suzuki, Dennis Jakob, Dai Long Vu, Jillian L Waters, Ruth E Ley
The keystone gut species Christensenella minuta boosts gut microbial biomass and voluntary physical activity in mice. mBio (2023)
Katherine M Kennedy, Marcus C de Goffau, Maria Elisa Perez-Munoz, Marie-Claire Arrieta, Fredrik Bäckhed, Peer Bork, Thorsten Braun, Frederic D Bushman, Joel Dore, Willem M de Vos, Ashlee M Earl, Jonathan A Eisen, Michal A Elovitz, Stephanie Christine Ganal-Vonarburg, Michael G Gaenzle, Wendy S Garrett, Lindsay J Hall, Mathias W Hornef, Curtis Huttenhower, Liza Konnikova, Sarah Lebeer, Andrew J Macpherson, Ruth C Massey, Alice Carolyn McHardy, Omry Koren, Trevor D Lawley, Ruth E Ley, Corina M Berset, Paul W O' Toole, Eric G Pamer, Julian Parkhill, Jeroen Raes, Thomas Rattei, Anne Salonen, Eran Segal, Nicola Segata, Fergus Shanahan, Deborah M Sloboda, Gordon C S Smith, Harry Sokol, Timothy D Spector, Michael G Surette, Gerald W Tannock, Alan William Walker, Moran Yassour, Jens Walter
Questioning the fetal microbiome illustrates pitfalls of low-biomass microbial studies. Nature 613 (7945) (2023)
Katherine M Kennedy, Marcus C de Goffau, Maria Elisa Perez-Munoz, Marie-Claire Arrieta, Fredrik Bäckhed, Peer Bork, Thorsten Braun, Frederic D Bushman, Joel Dore, Willem M de Vos, Ashlee M Earl, Jonathan A Eisen, Michal A Elovitz, Stephanie Christine Ganal-Vonarburg, Michael G Gaenzle, Wendy S Garrett, Lindsay J Hall, Mathias W Hornef, Curtis Huttenhower, Liza Konnikova, Sarah Lebeer, Andrew J Macpherson, Ruth C Massey, Alice Carolyn McHardy, Omry Koren, Trevor D Lawley, Ruth E Ley, Corina M Berset, Paul W O' Toole, Eric G Pamer, Julian Parkhill, Jeroen Raes, Thomas Rattei, Anne Salonen, Eran Segal, Nicola Segata, Fergus Shanahan, Deborah M Sloboda, Gordon C S Smith, Harry Sokol, Timothy D Spector, Michael G Surette, Gerald W Tannock, Alan William Walker, Moran Yassour, Jens Walter
Questioning the fetal microbiome illustrates pitfalls of low-biomass microbial studies. Nature 613 (7945) (2023)
Katherine M Kennedy, Marcus C de Goffau, Maria Elisa Perez-Munoz, Marie-Claire Arrieta, Fredrik Bäckhed, Peer Bork, Thorsten Braun, Frederic D Bushman, Joel Dore, Willem M de Vos, Ashlee M Earl, Jonathan A Eisen, Michal A Elovitz, Stephanie Christine Ganal-Vonarburg, Michael G Gaenzle, Wendy S Garrett, Lindsay J Hall, Mathias W Hornef, Curtis Huttenhower, Liza Konnikova, Sarah Lebeer, Andrew J Macpherson, Ruth C Massey, Alice Carolyn McHardy, Omry Koren, Trevor D Lawley, Ruth E Ley, Corina M Berset, Paul W O' Toole, Eric G Pamer, Julian Parkhill, Jeroen Raes, Thomas Rattei, Anne Salonen, Eran Segal, Nicola Segata, Fergus Shanahan, Deborah M Sloboda, Gordon C S Smith, Harry Sokol, Timothy D Spector, Michael G Surette, Gerald W Tannock, Alan William Walker, Moran Yassour, Jens Walter
Questioning the fetal microbiome illustrates pitfalls of low-biomass microbial studies. Nature 613 (7945) (2023)
Jacobo de la Cuesta-Zuluaga, Kelsey E Huus, Nicholas D Youngblut, Juan S Escobar, Ruth E Ley
Obesity is the main driver of altered gut microbiome functions in the metabolically unhealthy. Gut microbes 15 (2) (2023)
Katherine M Kennedy, Marcus C de Goffau, Maria Elisa Perez-Munoz, Marie-Claire Arrieta, Fredrik Bäckhed, Peer Bork, Thorsten Braun, Frederic D Bushman, Joel Dore, Willem M de Vos, Ashlee M Earl, Jonathan A Eisen, Michal A Elovitz, Stephanie Christine Ganal-Vonarburg, Michael G Gaenzle, Wendy S Garrett, Lindsay J Hall, Mathias W Hornef, Curtis Huttenhower, Liza Konnikova, Sarah Lebeer, Andrew J Macpherson, Ruth C Massey, Alice Carolyn McHardy, Omry Koren, Trevor D Lawley, Ruth E Ley, Corina M Berset, Paul W O' Toole, Eric G Pamer, Julian Parkhill, Jeroen Raes, Thomas Rattei, Anne Salonen, Eran Segal, Nicola Segata, Fergus Shanahan, Deborah M Sloboda, Gordon C S Smith, Harry Sokol, Timothy D Spector, Michael G Surette, Gerald W Tannock, Alan William Walker, Moran Yassour, Jens Walter
Questioning the fetal microbiome illustrates pitfalls of low-biomass microbial studies. Nature 613 (7945) (2023)
Katherine M Kennedy, Marcus C de Goffau, Maria Elisa Perez-Munoz, Marie-Claire Arrieta, Fredrik Bäckhed, Peer Bork, Thorsten Braun, Frederic D Bushman, Joel Dore, Willem M de Vos, Ashlee M Earl, Jonathan A Eisen, Michal A Elovitz, Stephanie Christine Ganal-Vonarburg, Michael G Gaenzle, Wendy S Garrett, Lindsay J Hall, Mathias W Hornef, Curtis Huttenhower, Liza Konnikova, Sarah Lebeer, Andrew J Macpherson, Ruth C Massey, Alice Carolyn McHardy, Omry Koren, Trevor D Lawley, Ruth E Ley, Corina M Berset, Paul W O' Toole, Eric G Pamer, Julian Parkhill, Jeroen Raes, Thomas Rattei, Anne Salonen, Eran Segal, Nicola Segata, Fergus Shanahan, Deborah M Sloboda, Gordon C S Smith, Harry Sokol, Timothy D Spector, Michael G Surette, Gerald W Tannock, Alan William Walker, Moran Yassour, Jens Walter
Questioning the fetal microbiome illustrates pitfalls of low-biomass microbial studies. Nature 613 (7945) (2023)
Sara J Clasen, Michael E W Bell, Andrea Borbón, Du-Hwa Lee, Zachariah M Henseler, Jacobo de la Cuesta-Zuluaga, Katarzyna Parys, Jun Zou, Yanling Wang, Veronika Altmannova, Nicholas D Youngblut, John R Weir, Andrew T Gewirtz, Youssef Belkhadir, Ruth E Ley
Silent recognition of flagellins from human gut commensal bacteria by Toll-like receptor 5. Science immunology 8 (79) (2023)
Sara J Clasen, Michael E W Bell, Andrea Borbón, Du-Hwa Lee, Zachariah M Henseler, Jacobo de la Cuesta-Zuluaga, Katarzyna Parys, Jun Zou, Yanling Wang, Veronika Altmannova, Nicholas D Youngblut, John R Weir, Andrew T Gewirtz, Youssef Belkhadir, Ruth E Ley
Silent recognition of flagellins from human gut commensal bacteria by Toll-like receptor 5. Science immunology 8 (79) (2023)
Katherine M Kennedy, Marcus C de Goffau, Maria Elisa Perez-Munoz, Marie-Claire Arrieta, Fredrik Bäckhed, Peer Bork, Thorsten Braun, Frederic D Bushman, Joel Dore, Willem M de Vos, Ashlee M Earl, Jonathan A Eisen, Michal A Elovitz, Stephanie Christine Ganal-Vonarburg, Michael G Gaenzle, Wendy S Garrett, Lindsay J Hall, Mathias W Hornef, Curtis Huttenhower, Liza Konnikova, Sarah Lebeer, Andrew J Macpherson, Ruth C Massey, Alice Carolyn McHardy, Omry Koren, Trevor D Lawley, Ruth E Ley, Corina M Berset, Paul W O' Toole, Eric G Pamer, Julian Parkhill, Jeroen Raes, Thomas Rattei, Anne Salonen, Eran Segal, Nicola Segata, Fergus Shanahan, Deborah M Sloboda, Gordon C S Smith, Harry Sokol, Timothy D Spector, Michael G Surette, Gerald W Tannock, Alan William Walker, Moran Yassour, Jens Walter
Questioning the fetal microbiome illustrates pitfalls of low-biomass microbial studies. Nature 613 (7945) (2023)
Sara J Clasen, Michael E W Bell, Andrea Borbón, Du-Hwa Lee, Zachariah M Henseler, Jacobo de la Cuesta-Zuluaga, Katarzyna Parys, Jun Zou, Yanling Wang, Veronika Altmannova, Nicholas D Youngblut, John R Weir, Andrew T Gewirtz, Youssef Belkhadir, Ruth E Ley
Silent recognition of flagellins from human gut commensal bacteria by Toll-like receptor 5. Science immunology 8 (79) (2023)
Tanja Akbuğa-Schön, Taichi A Suzuki, Dennis Jakob, Dai Long Vu, Jillian L Waters, Ruth E Ley
The keystone gut species Christensenella minuta boosts gut microbial biomass and voluntary physical activity in mice. mBio 15 (2) (2023)
Sara J Clasen, Michael E W Bell, Andrea Borbón, Du-Hwa Lee, Zachariah M Henseler, Jacobo de la Cuesta-Zuluaga, Katarzyna Parys, Jun Zou, Yanling Wang, Veronika Altmannova, Nicholas D Youngblut, John R Weir, Andrew T Gewirtz, Youssef Belkhadir, Ruth E Ley
Silent recognition of flagellins from human gut commensal bacteria by Toll-like receptor 5. Science immunology 8 (79) (2023)
Katherine M Kennedy, Marcus C de Goffau, Maria Elisa Perez-Munoz, Marie-Claire Arrieta, Fredrik Bäckhed, Peer Bork, Thorsten Braun, Frederic D Bushman, Joel Dore, Willem M de Vos, Ashlee M Earl, Jonathan A Eisen, Michal A Elovitz, Stephanie Christine Ganal-Vonarburg, Michael G Gaenzle, Wendy S Garrett, Lindsay J Hall, Mathias W Hornef, Curtis Huttenhower, Liza Konnikova, Sarah Lebeer, Andrew J Macpherson, Ruth C Massey, Alice Carolyn McHardy, Omry Koren, Trevor D Lawley, Ruth E Ley, Corina M Berset, Paul W O' Toole, Eric G Pamer, Julian Parkhill, Jeroen Raes, Thomas Rattei, Anne Salonen, Eran Segal, Nicola Segata, Fergus Shanahan, Deborah M Sloboda, Gordon C S Smith, Harry Sokol, Timothy D Spector, Michael G Surette, Gerald W Tannock, Alan William Walker, Moran Yassour, Jens Walter
Questioning the fetal microbiome illustrates pitfalls of low-biomass microbial studies. Nature 613 (7945) (2023)
Tanja Akbuğa-Schön, Taichi A Suzuki, Dennis Jakob, Dai Long Vu, Jillian L Waters, Ruth E Ley
The keystone gut species Christensenella minuta boosts gut microbial biomass and voluntary physical activity in mice. mBio 15 (2) (2023)
Taichi A Suzuki, J Liam Fitzstevens, Victor T Schmidt, Hagay Enav, Kelsey E Huus, Mirabeau Mbong Ngwese, Anne Grießhammer, Anne Pfleiderer, Roméo Bayodé Adegbite, Jeannot F Zinsou, Meral Esen, Thirumalaisamy P Velavan, Adegnika Ayola Akim, Song Huu Le, Timothy D Spector, Amanda L Muehlbauer, Nina Marchi, Hyena Kang, Lisa Maier, Ran Blekhman, Laure Segurel, GwangPyo Ko, Nicholas D Youngblut, Peter G Kremsner, Ruth E Ley
Codiversification of gut microbiota with humans. Science (New York, N.Y.) 377 (6612) (2022)
Nicholas D Youngblut, Jacobo de la Cuesta-Zuluaga, Ruth E Ley
Incorporating genome-based phylogeny and functional similarity into diversity assessments helps to resolve a global collection of human gut metagenomes. Environmental microbiology 24 (9) (2022)
Stacey L Heaver, Henry H Le, Peijun Tang, Arnaud Baslé, Claudia Mirretta Barone, Dai Long Vu, Jillian L Waters, Jon Marles-Wright, Elizabeth L Johnson, Dominic J Campopiano, Ruth E Ley
Characterization of inositol lipid metabolism in gut-associated Bacteroidetes. Nature microbiology 7 (7) (2022)
Albane Ruaud, Niklas Pfister, Ruth E Ley, Nicholas D Youngblut
Interpreting tree ensemble machine learning models with endoR. PLoS computational biology 18 (12) (2022)
Albane Ruaud, Niklas Pfister, Ruth E Ley, Nicholas D Youngblut
Interpreting tree ensemble machine learning models with endoR. PLoS computational biology 18 (12) (2022)
Albane Ruaud, Niklas Pfister, Ruth E Ley, Nicholas D Youngblut
Interpreting tree ensemble machine learning models with endoR. PLoS computational biology 18 (12) (2022)
Albane Ruaud, Niklas Pfister, Ruth E Ley, Nicholas D Youngblut
Interpreting tree ensemble machine learning models with endoR. PLoS computational biology 18 (12) (2022)
Taichi A Suzuki, Ruth E Ley
Microbes set the (woodrat) menu: Host genetics control diet-specific gut microbes. Proceedings of the National Academy of Sciences of the United States of America 119 (2) (2022)
Albane Ruaud, Niklas Pfister, Ruth E Ley, Nicholas D Youngblut
Interpreting tree ensemble machine learning models with endoR. PLoS computational biology 18 (12) (2022)
Albane Ruaud, Niklas Pfister, Ruth E Ley, Nicholas D Youngblut
Interpreting tree ensemble machine learning models with endoR. PLoS computational biology 18 (12) (2022)
Daphne K Welter, Albane Ruaud, Zachariah M Henseler, Hannah N De Jong, Peter van Coeverden de Groot, Johan Michaux, Linda Gormezano, Jillian L Waters, Nicholas D Youngblut, Ruth E Ley
Free-Living, Psychrotrophic Bacteria of the Genus Psychrobacter Are Descendants of Pathobionts. mSystems 6 (2) (2021)
Kelsey E Huus, Ruth E Ley
Blowing Hot and Cold: Body Temperature and the Microbiome. mSystems 6 (5) (2021)
Taichi A Suzuki, Ruth E Ley
The role of the microbiota in human genetic adaptation. Science (New York, N.Y.) 370 (6521) (2021)
Jacobo de la Cuesta-Zuluaga, Timothy D Spector, Nicholas D Youngblut, Ruth E Ley
Genomic Insights into Adaptations of Trimethylamine-Utilizing Methanogens to Diverse Habitats, Including the Human Gut. mSystems 6 (1) (2021)
Albane Ruaud, Sofia Esquivel-Elizondo, Jacobo de la Cuesta-Zuluaga, Jillian L Waters, Largus T Angenent, Nicholas D Youngblut, Ruth E Ley
Syntrophy via Interspecies H2 Transfer between Christensenella and Methanobrevibacter Underlies Their Global Cooccurrence in the Human Gut. mBio 11 (1) (2020)
Victor Schmidt, Hagay Enav, Timothy D Spector, Nicholas D Youngblut, Ruth E Ley
Strain-Level Analysis of Bifidobacterium spp. from Gut Microbiomes of Adults with Differing Lactase Persistence Genotypes. mSystems 5 (5) (2020)
Elizabeth L Johnson, Stacey L Heaver, Jillian L Waters, Benjamin I Kim, Alexis Bretin, Andrew L Goodman, Andrew T Gewirtz, Tilla S Worgall, Ruth E Ley
Sphingolipids produced by gut bacteria enter host metabolic pathways impacting ceramide levels. Nature communications 11 (1) (2020)
Nicholas D Youngblut, Jacobo de la Cuesta-Zuluaga, Georg H Reischer, Silke Dauser, Nathalie Schuster, Chris Walzer, Gabrielle Stalder, Andreas H Farnleitner, Ruth E Ley
Large-Scale Metagenome Assembly Reveals Novel Animal-Associated Microbial Genomes, Biosynthetic Gene Clusters, and Other Genetic Diversity. mSystems 5 (6) (2020)
Anders Janzon, Julia K Goodrich, Omry Koren, null null, Jillian L Waters, Ruth E Ley
Interactions between the Gut Microbiome and Mucosal Immunoglobulins A, M, and G in the Developing Infant Gut. mSystems 4 (6) (2019)
Sara C Di Rienzi, Juliet Jacobson, Elizabeth A Kennedy, Mary E Bell, Qiaojuan Shi, Jillian L Waters, Peter Lawrence, J Thomas Brenna, Robert A Britton, Jens Walter, Ruth E Ley
Resilience of small intestinal beneficial bacteria to the toxicity of soybean oil fatty acids. eLife 7 (2018)
Asaf Levy, Isai Salas Gonzalez, Maximilian Mittelviefhaus, Scott Clingenpeel, Sur Herrera Paredes, Jiamin Miao, Kunru Wang, Giulia Devescovi, Kyra Stillman, Freddy Monteiro, Bryan Rangel Alvarez, Derek S Lundberg, Tse-Yuan Lu, Sarah Lebeis, Zhao Jin, Meredith McDonald, Andrew P Klein, Meghan E Feltcher, Tijana Glavina Rio, Sarah R Grant, Sharon Lafferty Doty, Ruth E Ley, Bingyu Zhao, Vittorio Venturi, Dale A Pelletier, Julia A Vorholt, Susannah G Tringe, Tanja Woyke, Jeffery L Dangl
Genomic features of bacterial adaptation to plants. Nature genetics 50 (1) (2017)

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Publication Activity (10 Years)

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Ruth E Ley