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Shotgun sequencing

Crewmember microbiome may influence microbial composition of ISS habitable surfaces

Aram Avila-Herrera, James Thissen, Camilla Urbaniak, Nicholas A. Be, David J. Smith, Fathi Karouia, Satish Mehta, Kasthuri Venkateswaran, Crystal Jaing

published 29 Apr 2020

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Longitudinal changes in the nasopharyngeal resistome of South African infants using shotgun metagenomic sequencing

Rendani I. Manenzhe, Felix S. Dube, Meredith Wright, Katie Lennard, Heather J. Zar, Stephanie Mounaud, William C. Nierman, Mark P. Nicol, Clinton Moodley

published 22 Apr 2020

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A restriction enzyme reduced representation sequencing approach for low-cost, high-throughput metagenome profiling

Melanie K. Hess, Suzanne J. Rowe, Tracey C. Van Stijn, Hannah M. Henry, Sharon M. Hickey, Rudiger Brauning, Alan F. McCulloch, Andrew S. Hess, Michelle R. Kirk, Sandeep Kumar, Cesar Pinares-Patiño, Sandra Kittelmann, Graham R. Wood, Peter H. Janssen, John C. McEwan

published 03 Apr 2020

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Microbial resolution of whole genome shotgun and 16S amplicon metagenomic sequencing using publicly available NEON data

Kyle D. Brumfield, Anwar Huq, Rita R. Colwell, James L. Olds, Menu B. Leddy

published 13 Feb 2020

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Development of a SimpleProbe real-Time PCR Assay for rapid detection and identification of the US novel urethrotropic clade of Neisseria meningitidis ST-11 (US_NmUC)

Evelyn Toh, James A. Williams, Brahim Qadadri, Aaron Ermel, David E. Nelson

published 10 Feb 2020

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Functional dynamics of bacterial species in the mouse gut microbiome revealed by metagenomic and metatranscriptomic analyses

Youn Wook Chung, Ho-Jin Gwak, Sungmin Moon, Mina Rho, Ji-Hwan Ryu

published 24 Jan 2020

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Characterization of black patina from the Tiber River embankments using Next-Generation Sequencing

Federica Antonelli, Alfonso Esposito, Ludovica Calvo, Valerio Licursi, Philippe Tisseyre, Sandra Ricci, Manuela Romagnoli, Silvano Piazza, Francesca Guerrieri

published 09 Jan 2020

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California condor microbiomes: Bacterial variety and functional properties in captive-bred individuals

Lindsey Jacobs, Benjamin H. McMahon, Joel Berendzen, Jonathan Longmire, Cheryl Gleasner, Nicolas W. Hengartner, Momchilo Vuyisich, Judith R. Cohn, Marti Jenkins, Andrew W. Bartlow, Jeanne M. Fair

published 11 Dec 2019

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Exploring thematic structure and predicted functionality of 16S rRNA amplicon data

Stephen Woloszynek, Joshua Chang Mell, Zhengqiao Zhao, Gideon Simpson, Michael P. O’Connor, Gail L. Rosen

published 11 Dec 2019

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Resistome metagenomics from plate to farm: The resistome and microbial composition during food waste feeding and composting on a Vermont poultry farm

Korin Eckstrom, John W. Barlow

published 21 Nov 2019

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Investigating the dispersal of antibiotic resistance associated genes from manure application to soil and drainage waters in simulated agricultural farmland systems

Schuyler D. Smith, Phillip Colgan, Fan Yang, Elizabeth L. Rieke, Michelle L. Soupir, Thomas B. Moorman, Heather K. Allen, Adina Howe

published 17 Sep 2019

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Phylogenetic microbiota profiling in fecal samples depends on combination of sequencing depth and choice of NGS analysis method

Sukithar K. Rajan, Mårten Lindqvist, Robert Jan Brummer, Ida Schoultz, Dirk Repsilber

published 17 Sep 2019

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Parthenogenesis in a captive Asian water dragon (Physignathus cocincinus) identified with novel microsatellites

Kyle L. Miller, Susette Castañeda Rico, Carly R. Muletz-Wolz, Michael G. Campana, Nancy McInerney, Lauren Augustine, Celine Frere, Alan M. Peters, Robert C. Fleischer

published 05 Jun 2019

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