Advancing Genome-Resolved Metagenomics beyond the Shotgun

by Rex R. Malmstrom, Emiley A. Eloe-Fadrosh
Published 2019-06-01

Benchmarking viromics: an in silico evaluation of metagenome-enabled estimates of viral community composition and diversity

by Simon Roux, Joanne B. Emerson, Emiley A. Eloe-Fadrosh, Matthew B. Sullivan
Published 2017-09-01

Genomic Features Predict Bacterial Life History Strategies in Soil, as Identified by Metagenomic Stable Isotope Probing

by Samuel E. Barnett, Rob Egan, Brian Foster, Emiley A. Eloe-Fadrosh, Daniel H. Buckley
Published 2023-04-01

Virus diversity and activity is driven by snowmelt and host dynamics in a high-altitude watershed soil ecosystem

by Clement Coclet, Patrick O. Sorensen, Ulas Karaoz, Shi Wang, Eoin L. Brodie, Emiley A. Eloe-Fadrosh, Simon Roux
Published 2023-10-01

Ecotype diversity and conversion in Photobacterium profundum strains.

by Federico M Lauro, Emiley A Eloe-Fadrosh, Taylor K S Richter, Nicola Vitulo, Steven Ferriera, Justin H Johnson, Douglas H Bartlett
Published 2014-01-01

Correction to: Towards a balanced view of the bacterial tree of life

by Frederik Schulz, Emiley A. Eloe-Fadrosh, Robert M. Bowers, Jessica Jarett, Torben Nielsen, Natalia N. Ivanova, Nikos C. Kyrpides, Tanja Woyke
Published 2017-11-01

Towards a balanced view of the bacterial tree of life

by Frederik Schulz, Emiley A. Eloe-Fadrosh, Robert M. Bowers, Jessica Jarett, Torben Nielsen, Natalia N. Ivanova, Nikos C. Kyrpides, Tanja Woyke
Published 2017-10-01

Impact of oral typhoid vaccination on the human gut microbiota and correlations with s. Typhi-specific immunological responses.

by Emiley A Eloe-Fadrosh, Monica A McArthur, Anna M Seekatz, Elliott F Drabek, David A Rasko, Marcelo B Sztein, Claire M Fraser
Published 2013-01-01

Towards optimized viral metagenomes for double-stranded and single-stranded DNA viruses from challenging soils

by Gareth Trubl, Simon Roux, Natalie Solonenko, Yueh-Fen Li, Benjamin Bolduc, Josué Rodríguez-Ramos, Emiley A. Eloe-Fadrosh, Virginia I. Rich, Matthew B. Sullivan
Published 2019-07-01

Position-Specific Metabolic Probing and Metagenomics of Microbial Communities Reveal Conserved Central Carbon Metabolic Network Activities at High Temperatures

by Scott C. Thomas, Kevin O. Tamadonfar, Cale O. Seymour, Dengxun Lai, Jeremy A. Dodsworth, Senthil K. Murugapiran, Emiley A. Eloe-Fadrosh, Paul Dijkstra, Brian P. Hedlund, Brian P. Hedlund
Published 2019-07-01

Genomic variation and biogeography of Antarctic haloarchaea

by Bernhard Tschitschko, Susanne Erdmann, Matthew Z. DeMaere, Simon Roux, Pratibha Panwar, Michelle A. Allen, Timothy J. Williams, Sarah Brazendale, Alyce M. Hancock, Emiley A. Eloe-Fadrosh, Ricardo Cavicchioli
Published 2018-06-01

Differential response of the cynomolgus macaque gut microbiota to Shigella infection.

by Anna M Seekatz, Aruna Panda, David A Rasko, Franklin R Toapanta, Emiley A Eloe-Fadrosh, Abdul Q Khan, Zhenqiu Liu, Steven T Shipley, Louis J Detolla, Marcelo B Sztein, Claire M Fraser
Published 2013-01-01

Functional Dynamics of the Gut Microbiome in Elderly People during Probiotic Consumption

by Emiley A. Eloe-Fadrosh, Arthur Brady, Jonathan Crabtree, Elliott F. Drabek, Bing Ma, Anup Mahurkar, Jacques Ravel, Miriam Haverkamp, Anne-Maria Fiorino, Christine Botelho, Irina Andreyeva, Patricia L. Hibberd, Claire M. Fraser
Published 2015-05-01

Diversity, evolution, and classification of virophages uncovered through global metagenomics

by David Paez-Espino, Jinglie Zhou, Simon Roux, Stephen Nayfach, Georgios A. Pavlopoulos, Frederik Schulz, Katherine D. McMahon, David Walsh, Tanja Woyke, Natalia N. Ivanova, Emiley A. Eloe-Fadrosh, Susannah G. Tringe, Nikos C. Kyrpides
Published 2019-12-01

Optimizing de novo genome assembly from PCR-amplified metagenomes

by Simon Roux, Gareth Trubl, Danielle Goudeau, Nandita Nath, Estelle Couradeau, Nathan A. Ahlgren, Yuanchao Zhan, David Marsan, Feng Chen, Jed A. Fuhrman, Trent R. Northen, Matthew B. Sullivan, Virginia I. Rich, Rex R. Malmstrom, Emiley A. Eloe-Fadrosh
Published 2019-05-01

Terabase-Scale Coassembly of a Tropical Soil Microbiome

by Robert Riley, Robert M. Bowers, Antonio Pedro Camargo, Ashley Campbell, Rob Egan, Emiley A. Eloe-Fadrosh, Brian Foster, Steven Hofmeyr, Marcel Huntemann, Matthew Kellom, Jeffrey A. Kimbrel, Leonid Oliker, Katherine Yelick, Jennifer Pett-Ridge, Asaf Salamov, Neha J. Varghese, Alicia Clum
Published 2023-08-01

A standardized quantitative analysis strategy for stable isotope probing metagenomics

by Dariia Vyshenska, Pranav Sampara, Kanwar Singh, Andy Tomatsu, W. Berkeley Kauffman, Erin E. Nuccio, Steven J. Blazewicz, Jennifer Pett-Ridge, Katherine B. Louie, Neha Varghese, Matthew Kellom, Alicia Clum, Robert Riley, Simon Roux, Emiley A. Eloe-Fadrosh, Ryan M. Ziels, Rex R. Malmstrom
Published 2023-08-01

Influence of the polar light cycle on seasonal dynamics of an Antarctic lake microbial community

by Pratibha Panwar, Michelle A. Allen, Timothy J. Williams, Alyce M. Hancock, Sarah Brazendale, James Bevington, Simon Roux, David Páez-Espino, Stephen Nayfach, Maureen Berg, Frederik Schulz, I-Min A. Chen, Marcel Huntemann, Nicole Shapiro, Nikos C. Kyrpides, Tanja Woyke, Emiley A. Eloe-Fadrosh, Ricardo Cavicchioli
Published 2020-08-01

Diversity and Distribution of a Novel Genus of Hyperthermophilic Aquificae Viruses Encoding a Proof-Reading Family-A DNA Polymerase

by Marike Palmer, Brian P. Hedlund, Brian P. Hedlund, Simon Roux, Philippos K. Tsourkas, Philippos K. Tsourkas, Ryan K. Doss, Casey Stamereilers, Astha Mehta, Jeremy A. Dodsworth, Michael Lodes, Scott Monsma, Tijana Glavina del Rio, Thomas W. Schoenfeld, Emiley A. Eloe-Fadrosh, David A. Mead
Published 2020-11-01

DOE JGI Metagenome Workflow

by Alicia Clum, Marcel Huntemann, Brian Bushnell, Brian Foster, Bryce Foster, Simon Roux, Patrick P. Hajek, Neha Varghese, Supratim Mukherjee, T. B. K. Reddy, Chris Daum, Yuko Yoshinaga, Ronan O’Malley, Rekha Seshadri, Nikos C. Kyrpides, Emiley A. Eloe-Fadrosh, I-Min A. Chen, Alex Copeland, Natalia N. Ivanova
Published 2021-06-01