Expansion of the global RNA virome reveals diverse clades of bacteriophages
Neri, Uri, Wolf, Yuri I., Roux, Simon, Camargo, Antonio Pedro, Lee, Benjamin, Kazlauskas, Darius, Chen, I. Min, Zeigler Allen, Lisa, Paez-Espino, David, Bryant, Donald A., Bhaya, Devaki, Narrowe, Adrienne B., Sczyrba, Alexander, Kohler, Annegret, Séguin, Armand, Shade, Ashley, Campbell, Barbara J., Lindahl, Björn D., Reese, Brandi Kiel, Roque, Breanna M., DeRito, Chris, Averill, Colin, Cullen, Daniel, Walsh, David A., Ward, David M., Wu, Dongying, Eloe-Fadrosh, Emiley, Brodie, Eoin L., Young, Erica B., Lilleskov, Erik A., Castillo, Federico J., Martin, Francis M., LeCleir, Gary R., Attwood, Graeme T., Cadillo-Quiroz, Hinsby, Simon, Holly M., Hewson, Ian, Grigoriev, Igor V., Tiedje, James M., Jansson, Janet K., Lee, Janey, VanderGheynst, Jean S., Bowman, Jeff S., Blanchard, Jeffrey L., Bowen, Jennifer L., Xu, Jiangbing, Banfield, Jillian F., Deming, Jody W., Kostka, Joel E., Gladden, John M., Sharpe, Joshua, McMahon, Katherine D., Bidle, Kay D., Wrighton, Kelly C., Thamatrakoln, Kimberlee, Nusslein, Klaus, Meredith, Laura K., Ramirez, Lucia, Buee, Marc, Huntemann, Marcel, Kalyuzhnaya, Marina G., Waldrop, Mark P., Sullivan, Matthew B., Vega, Michael A., O’Malley, Michelle A., Medina, Monica, Gilbert, Naomi E., Delherbe, Nathalie, Mason, Olivia U., Dijkstra, Paul, Chuckran, Peter F., Baldrian, Petr, Constant, Philippe, Stepanauskas, Ramunas, Daly, Rebecca A., Lamendella, Regina, Gruninger, Robert J., McKay, Robert M., Hylander, Samuel, Lebeis, Sarah L., Esser, Sarah P., Acinas, Silvia G., Wilhelm, Steven S., Singer, Steven W., Tringe, Susannah S., Woyke, Tanja, Bell, Terrence H., Mock, Thomas, McAllister, Tim, Thiel, Vera, Denef, Vincent J., Liu, Wen-Tso, Martens-Habbena, Willm, Cooper, Zachary S., Wang, Zhong, Krupovic, Mart, Dolja, Valerian V., Kyrpides, Nikos C., Koonin, Eugene V., Gophna, Uri
Published in Cell (13.10.2022)
Published in Cell (13.10.2022)
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Species-Level Resolution of Female Bladder Microbiota from 16S rRNA Amplicon Sequencing
Hoffman, Carter, Siddiqui, Nazema Y., Fields, Ian, Gregory, W. Thomas, Simon, Holly M., Mooney, Michael A., Wolfe, Alan J., Karstens, Lisa
Published in mSystems (26.10.2021)
Published in mSystems (26.10.2021)
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Journal Article
Microbial players and processes involved in phytoplankton bloom utilization in the water column of a fast‐flowing, river‐dominated estuary
Smith, Maria W., Herfort, Lydie, Fortunato, Caroline S., Crump, Byron C., Simon, Holly M.
Published in MicrobiologyOpen (Weinheim) (01.08.2017)
Published in MicrobiologyOpen (Weinheim) (01.08.2017)
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A new restriction endonuclease-based method for highly-specific detection of DNA targets from methicillin-resistant Staphylococcus aureus
Smith, Maria W, Ghindilis, Andrei L, Seoudi, Ihab A, Smith, Kenneth, Billharz, Rosalind, Simon, Holly M
Published in PloS one (15.05.2014)
Published in PloS one (15.05.2014)
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Seasonal changes in bacterial and archaeal gene expression patterns across salinity gradients in the Columbia River coastal margin
Smith, Maria W, Herfort, Lydie, Tyrol, Kaitlin, Suciu, Dominic, Campbell, Victoria, Crump, Byron C, Peterson, Tawnya D, Zuber, Peter, Baptista, Antonio M, Simon, Holly M
Published in PloS one (13.10.2010)
Published in PloS one (13.10.2010)
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Metagenomic evidence for reciprocal particle exchange between the mainstem estuary and lateral bay sediments of the lower Columbia River
Smith, Maria W, Davis, Richard E, Youngblut, Nicholas D, Kärnä, Tuomas, Herfort, Lydie, Whitaker, Rachel J, Metcalf, William W, Tebo, Bradley M, Baptista, António M, Simon, Holly M
Published in Frontiers in microbiology (01.10.2015)
Published in Frontiers in microbiology (01.10.2015)
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Cultivation of Mesophilic Soil Crenarchaeotes in Enrichment Cultures from Plant Roots
Simon, Holly M, Jahn, Courtney E, Bergerud, Luke T, Sliwinski, Marek K, Weimer, Paul J, Willis, David K, Goodman, Robert M
Published in Applied and Environmental Microbiology (01.08.2005)
Published in Applied and Environmental Microbiology (01.08.2005)
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Infrastructure for collaborative science and societal applications in the Columbia River estuary
BAPTISTA, António M., SEATON, Charles, P. WILKIN, Michael, F. RISEMAN, Sarah, NEEDOBA, Joseph A., MAIER, David, TURNER, Paul J., KÄRNÄ, Tuomas, LOPEZ, Jesse E., HERFORT, Lydie, MEGLER, V.M., McNEIL, Craig, CRUMP, Byron C., PETERSON, Tawnya D., H. SPITZ, Yvette, SIMON, Holly M.
Published in Frontiers of earth science (01.12.2015)
Published in Frontiers of earth science (01.12.2015)
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Sensor Array: Impedimetric Label-Free Sensing of DNA Hybridization in Real Time for Rapid, PCR-Based Detection of Microorganisms
Ghindilis, Andrei L., Smith, Maria W., Schwarzkopf, Kevin R., Zhan, Changqing, Evans, David R., Baptista, António M., Simon, Holly M.
Published in Electroanalysis (New York, N.Y.) (01.07.2009)
Published in Electroanalysis (New York, N.Y.) (01.07.2009)
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Crenarchaeota colonize terrestrial plant roots
Simon, Holly M., Dodsworth, Jeremy A., Goodman, Robert M.
Published in Environmental microbiology (01.10.2000)
Published in Environmental microbiology (01.10.2000)
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Use of Highly Specific Molecular Markers Reveals Positive Correlation between Abundances of Mesodinium cf. major and Its Preferred Prey, Teleaulax amphioxeia, During Red Water Blooms in the Columbia River Estuary
Herfort, Lydie, Maxey, Katie, Voorhees, Ian, Simon, Holly M., Grobler, Kolette, Peterson, Tawnya D., Zuber, Peter
Published in The Journal of eukaryotic microbiology (01.11.2017)
Published in The Journal of eukaryotic microbiology (01.11.2017)
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Journal Article
Factors affecting the bacterial community composition and heterotrophic production of Columbia River estuarine turbidity maxima
Herfort, Lydie, Crump, Byron C., Fortunato, Caroline S., McCue, Lee Ann, Campbell, Victoria, Simon, Holly M., Baptista, António M., Zuber, Peter
Published in MicrobiologyOpen (Weinheim) (01.12.2017)
Published in MicrobiologyOpen (Weinheim) (01.12.2017)
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Use of continuous, real‐time observations and model simulations to achieve autonomous, adaptive sampling of microbial processes with a robotic sampler
Herfort, Lydie, Seaton, Charles, Wilkin, Michael, Roman, Brent, Preston, Christina M., Marin, Roman, Seitz, Kiley, Smith, Maria W., Haynes, Vena, Scholin, Christopher A., Baptista, António M., Simon, Holly M.
Published in Limnology and oceanography, methods (01.01.2016)
Published in Limnology and oceanography, methods (01.01.2016)
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Comparison of Midgut Bacterial Diversity in Tropical Caterpillars (Lepidoptera: Saturniidae) Fed on Different Diets
Pinto-Tomás, Adrián A, Sittenfeld, Ana, Uribe-Lorío, Lorena, Chavarría, Felipe, Mora, Marielos, Janzen, Daniel H, Goodman, Robert M, Simon, Holly M
Published in Environmental entomology (01.10.2011)
Published in Environmental entomology (01.10.2011)
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