Early life dynamics of the human gut virome and bacterial microbiome in infants von Lim, Efrem S, Zhou, Yanjiao, Zhao, Guoyan, Bauer, Irma K, Droit, Lindsay, Ndao, I Malick, Warner, Barbara B, Tarr, Phillip I, Wang, David, Holtz, Lori R

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The Bacterial Microbiome and Virome Milestones of Infant Development von Lim, Efrem S, Wang, David, Holtz, Lori R

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Altered Virome and Bacterial Microbiome in Human Immunodeficiency Virus-Associated Acquired Immunodeficiency Syndrome von Monaco, Cynthia L., Gootenberg, David B., Zhao, Guoyan, Handley, Scott A., Ghebremichael, Musie S., Lim, Efrem S., Lankowski, Alex, Baldridge, Megan T., Wilen, Craig B., Flagg, Meaghan, Norman, Jason M., Keller, Brian C., Luévano, Jesús Mario, Wang, David, Boum, Yap, Martin, Jeffrey N., Hunt, Peter W., Bangsberg, David R., Siedner, Mark J., Kwon, Douglas S., Virgin, Herbert W.

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Amniotic fluid from healthy term pregnancies does not harbor a detectable microbial community von Lim, Efrem S, Rodriguez, Cynthia, Holtz, Lori R

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The Ability of Primate Lentiviruses to Degrade the Monocyte Restriction Factor SAMHD1 Preceded the Birth of the Viral Accessory Protein Vpx von Lim, Efrem S., Fregoso, Oliver I., McCoy, Connor O., Matsen, Frederick A., Malik, Harmit S., Emerman, Michael

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VirusSeeker, a computational pipeline for virus discovery and virome composition analysis von Zhao, Guoyan, Wu, Guang, Lim, Efrem S, Droit, Lindsay, Krishnamurthy, Siddharth, Barouch, Dan H, Virgin, Herbert W, Wang, David

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Identification of MW Polyomavirus, a Novel Polyomavirus in Human Stool von SIEBRASSE, Erica A, REYES, Alejandro, LIM, Efrem S, GUOYAN ZHAO, MKAKOSYA, Rajhab S, MANARY, Mark J, GORDON, Jeffrey I, WANG, David

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Genomic Sequencing Surveillance to Identify Respiratory Syncytial Virus Mutations, Arizona, USA von Holland, LaRinda A, Holland, Steven C, Smith, Matthew F, Leonard, Victoria R, Murugan, Vel, Nordstrom, Lora, Mulrow, Mary, Salgado, Raquel, White, Michael, Lim, Efrem S

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Ancient Adaptive Evolution of Tetherin Shaped the Functions of Vpu and Nef in Human Immunodeficiency Virus and Primate Lentiviruses von Lim, Efrem S, Malik, Harmit S, Emerman, Michael

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Discordant transmission of bacteria and viruses from mothers to babies at birth von Maqsood, Rabia, Rodgers, Rachel, Rodriguez, Cynthia, Handley, Scott A, Ndao, I Malick, Tarr, Phillip I, Warner, Barbara B, Lim, Efrem S, Holtz, Lori R

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University-Associated SARS-CoV-2 Omicron BA.2 Infections, Maricopa County, Arizona, USA, 2022 von Fowle, Nicole, Garrett, Brenna, Floyd, O'Zandra L, Collins, Jennifer, Krasnow, Aaron D, Islas, Mario, Holland, Steven C, Smith, Matthew F, Lim, Efrem S, Jarrett, Nicole M, Scott, Sarah E

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Characterization of BK Polyomaviruses from Kidney Transplant Recipients Suggests a Role for APOBEC3 in Driving In-Host Virus Evolution von Peretti, Alberto, Geoghegan, Eileen M., Pastrana, Diana V., Smola, Sigrun, Feld, Pascal, Sauter, Marlies, Lohse, Stefan, Ramesh, Mayur, Lim, Efrem S., Wang, David, Borgogna, Cinzia, FitzGerald, Peter C., Bliskovsky, Valery, Starrett, Gabriel J., Law, Emily K., Harris, Reuben S., Killian, J. Keith, Zhu, Jack, Pineda, Marbin, Meltzer, Paul S., Boldorini, Renzo, Gariglio, Marisa, Buck, Christopher B.

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HIV and SARS-CoV-2 infection in postpartum Kenyan women and their infants von Begnel, Emily R, Chohan, Bhavna H, Ojee, Ednah, Adhiambo, Judith, Owiti, Prestone, Ogweno, Vincent, Holland, LaRinda A, Fish, Carolyn S, Richardson, Barbra A, Khan, Adam K, Maqsood, Rabia, Lim, Efrem S, Sadarangani, Manish, Lehman, Dara A, Slyker, Jennifer, Kinuthia, John, Wamalwa, Dalton, Gantt, Soren

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Genomic Sequencing of SARS-CoV-2 E484K Variant B.1.243.1, Arizona, USA von Skidmore, Peter T., Kaelin, Emily A., Holland, LaRinda A., Maqsood, Rabia, Wu, Lily I., Mellor, Nicholas J., Blain, Joy M., Harris, Valerie, LaBaer, Joshua, Murugan, Vel, Lim, Efrem S.

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One health genomic surveillance and response to a university-based outbreak of the SARS-CoV-2 Delta AY.25 lineage, Arizona, 2021 von Yaglom, Hayley D, Maurer, Matthew, Collins, Brooke, Hojnacki, Jacob, Monroy-Nieto, Juan, Bowers, Jolene R, Packard, Samuel, Erickson, Daryn E, Barrand, Zachary A, Simmons, Kyle M, Brock, Breezy N, Lim, Efrem S, Smith, Sandra, Hepp, Crystal M, Engelthaler, David M

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Gut DNA Virome Diversity and Its Association with Host Bacteria Regulate Inflammatory Phenotype and Neuronal Immunotoxicity in Experimental Gulf War Illness von Seth, Ratanesh K, Maqsood, Rabia, Mondal, Ayan, Bose, Dipro, Kimono, Diana, Holland, LaRinda A, Janulewicz Lloyd, Patricia, Klimas, Nancy, Horner, Ronnie D, Sullivan, Kimberly, Lim, Efrem S, Chatterjee, Saurabh

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Longitudinal alterations in the urinary virome of kidney transplant recipients are influenced by BK viremia and patient sex von Maqsood, Rabia, Wu, Lily I, Brennan, Daniel C, Lim, Efrem S

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SARS-CoV-2 Delta Variant N Gene Mutations Reduce Sensitivity to the TaqPath COVID-19 Multiplex Molecular Diagnostic Assay von Holland, Steven C, Bains, Ajeet, Holland, LaRinda A, Smith, Matthew F, Sullins, Regan A, Mellor, Nicholas J, Thomas, Alexis W, Johnson, Nathaniel, Murugan, Vel, Lim, Efrem S

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Baseline Sequencing Surveillance of Public Clinical Testing, Hospitals, and Community Wastewater Reveals Rapid Emergence of SARS-CoV-2 Omicron Variant of Concern in Arizona, USA von Smith, Matthew F, Holland, Steven C, Lee, Mihyun B, Hu, James C, Pham, Nghia C, Sullins, Regan A, Holland, LaRinda A, Mu, Tianchen, Thomas, Alexis W, Fitch, Remington, Driver, Erin M, Halden, Rolf U, Villegas-Gold, Michelle, Sanders, Sheri, Krauss, Jennifer L, Nordstrom, Lora, Mulrow, Mary, White, Michael, Murugan, Vel, Lim, Efrem S

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Influenza Virus Genomic Surveillance, Arizona, USA, 2023-2024 von Maqsood, Rabia, Smith, Matthew F, Holland, LaRinda A, Sullins, Regan A, Holland, Steven C, Tan, Michelle, Hernandez Barrera, Gabrielle M, Thomas, Alexis W, Islas, Mario, Kramer, Joanna L, Nordstrom, Lora, Mulrow, Mary, White, Michael, Murugan, Vel, Lim, Efrem S

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