135 results on '"Ryon, Krista A"'
Search Results
2. Spatial multi-omics of human skin reveals KRAS and inflammatory responses to spaceflight
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Park, Jiwoon, Overbey, Eliah G., Narayanan, S. Anand, Kim, JangKeun, Tierney, Braden T., Damle, Namita, Najjar, Deena, Ryon, Krista A., Proszynski, Jacqueline, Kleinman, Ashley, Hirschberg, Jeremy Wain, MacKay, Matthew, Afshin, Evan E., Granstein, Richard, Gurvitch, Justin, Hudson, Briana M., Rininger, Aric, Mullane, Sean, Church, Sarah E., Meydan, Cem, Church, George, Beheshti, Afshin, Mateus, Jaime, and Mason, Christopher E.
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- 2024
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3. Spatiotemporal expression and control of haemoglobin in space
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Borg, Josef, Loy, Conor, Kim, JangKeun, Buhagiar, Alfred, Chin, Christopher, Damle, Namita, De Vlaminck, Iwijn, Felice, Alex, Liu, Tammy, Matei, Irina, Meydan, Cem, Muratani, Masafumi, Mzava, Omary, Overbey, Eliah, Ryon, Krista A., Smith, Scott M., Tierney, Braden T., Trudel, Guy, Zwart, Sara R., Beheshti, Afshin, Mason, Christopher E., and Borg, Joseph
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- 2024
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4. Single-cell multi-ome and immune profiles of the Inspiration4 crew reveal conserved, cell-type, and sex-specific responses to spaceflight
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Kim, JangKeun, Tierney, Braden T., Overbey, Eliah G., Dantas, Ezequiel, Fuentealba, Matias, Park, Jiwoon, Narayanan, S. Anand, Wu, Fei, Najjar, Deena, Chin, Christopher R., Meydan, Cem, Loy, Conor, Mathyk, Begum, Klotz, Remi, Ortiz, Veronica, Nguyen, Khiem, Ryon, Krista A., Damle, Namita, Houerbi, Nadia, Patras, Laura I., Schanzer, Nathan, Hutchinson, Gwyneth A., Foox, Jonathan, Bhattacharya, Chandrima, Mackay, Matthew, Afshin, Evan E., Hirschberg, Jeremy Wain, Kleinman, Ashley S., Schmidt, Julian C., Schmidt, Caleb M., Schmidt, Michael A., Beheshti, Afshin, Matei, Irina, Lyden, David, Mullane, Sean, Asadi, Amran, Lenz, Joan S., Mzava, Omary, Yu, Min, Ganesan, Saravanan, De Vlaminck, Iwijn, Melnick, Ari M., Barisic, Darko, Winer, Daniel A., Zwart, Sara R., Crucian, Brian E., Smith, Scott M., Mateus, Jaime, Furman, David, and Mason, Christopher E.
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- 2024
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5. Direct RNA sequencing of astronaut blood reveals spaceflight-associated m6A increases and hematopoietic transcriptional responses
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Grigorev, Kirill, Nelson, Theodore M., Overbey, Eliah G., Houerbi, Nadia, Kim, JangKeun, Najjar, Deena, Damle, Namita, Afshin, Evan E., Ryon, Krista A., Thierry-Mieg, Jean, Thierry-Mieg, Danielle, Melnick, Ari M., Mateus, Jaime, and Mason, Christopher E.
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- 2024
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6. Collection of biospecimens from the inspiration4 mission establishes the standards for the space omics and medical atlas (SOMA)
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Overbey, Eliah G., Ryon, Krista, Kim, JangKeun, Tierney, Braden T., Klotz, Remi, Ortiz, Veronica, Mullane, Sean, Schmidt, Julian C., MacKay, Matthew, Damle, Namita, Najjar, Deena, Matei, Irina, Patras, Laura, Garcia Medina, J. Sebastian, Kleinman, Ashley S., Wain Hirschberg, Jeremy, Proszynski, Jacqueline, Narayanan, S. Anand, Schmidt, Caleb M., Afshin, Evan E., Innes, Lucinda, Saldarriaga, Mateo Mejia, Schmidt, Michael A., Granstein, Richard D., Shirah, Bader, Yu, Min, Lyden, David, Mateus, Jaime, and Mason, Christopher E.
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- 2024
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7. Space radiation damage rescued by inhibition of key spaceflight associated miRNAs
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McDonald, J. Tyson, Kim, JangKeun, Farmerie, Lily, Johnson, Meghan L., Trovao, Nidia S., Arif, Shehbeel, Siew, Keith, Tsoy, Sergey, Bram, Yaron, Park, Jiwoon, Overbey, Eliah, Ryon, Krista, Haltom, Jeffrey, Singh, Urminder, Enguita, Francisco J., Zaksas, Victoria, Guarnieri, Joseph W., Topper, Michael, Wallace, Douglas C., Meydan, Cem, Baylin, Stephen, Meller, Robert, Muratani, Masafumi, Porterfield, D. Marshall, Kaufman, Brett, Mori, Marcelo A., Walsh, Stephen B., Sigaudo-Roussel, Dominique, Mebarek, Saida, Bottini, Massimo, Marquette, Christophe A., Wurtele, Eve Syrkin, Schwartz, Robert E., Galeano, Diego, Mason, Christopher E., Grabham, Peter, and Beheshti, Afshin
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- 2024
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8. Secretome profiling reveals acute changes in oxidative stress, brain homeostasis, and coagulation following short-duration spaceflight
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Houerbi, Nadia, Kim, JangKeun, Overbey, Eliah G., Batra, Richa, Schweickart, Annalise, Patras, Laura, Lucotti, Serena, Ryon, Krista A., Najjar, Deena, Meydan, Cem, Damle, Namita, Chin, Christopher, Narayanan, S. Anand, Guarnieri, Joseph W., Widjaja, Gabrielle, Beheshti, Afshin, Tobias, Gabriel, Vatter, Fanny, Hirschberg, Jeremy Wain, Kleinman, Ashley, Afshin, Evan E., MacKay, Matthew, Chen, Qiuying, Miller, Dawson, Gajadhar, Aaron S., Williamson, Lucy, Tandel, Purvi, Yang, Qiu, Chu, Jessica, Benz, Ryan, Siddiqui, Asim, Hornburg, Daniel, Gross, Steven, Shirah, Bader, Krumsiek, Jan, Mateus, Jaime, Mao, Xiao, Matei, Irina, and Mason, Christopher E.
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- 2024
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9. Publisher Correction: Discovery and description of novel phage genomes from urban microbiomes sampled by the MetaSUB consortium
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Flores, Vinicius S., Amgarten, Deyvid E., Iha, Bruno Koshin Vázquez, Ryon, Krista A., Danko, David, Tierney, Braden T., Mason, Christopher, da Silva, Aline Maria, and Setubal, João Carlos
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- 2024
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10. Discovery and description of novel phage genomes from urban microbiomes sampled by the MetaSUB consortium
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Flores, Vinicius S., Amgarten, Deyvid E., Iha, Bruno Koshin Vázquez, Ryon, Krista A., Danko, David, Tierney, Braden T., Mason, Christopher, da Silva, Aline Maria, and Setubal, João Carlos
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- 2024
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11. Molecular and physiological changes in the SpaceX Inspiration4 civilian crew
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Jones, Christopher W., Overbey, Eliah G., Lacombe, Jerome, Ecker, Adrian J., Meydan, Cem, Ryon, Krista, Tierney, Braden, Damle, Namita, MacKay, Matthew, Afshin, Evan E., Foox, Jonathan, Park, Jiwoon, Nelson, Theodore M., Suhail Mohamad, Mir, Byhaqui, Syed Gufran Ahmad, Aslam, Burhan, Tali, Ummer Akbar, Nisa, Liaqun, Menon, Priya V., Patel, Chintan O., Khan, Sharib A., Ebert, Doug J., Everson, Aaron, Schubert, Michael C., Ali, Nabila N., Sarma, Mallika S., Kim, JangKeun, Houerbi, Nadia, Grigorev, Kirill, Garcia Medina, J. Sebastian, Summers, Alexander J., Gu, Jian, Altin, John A., Fattahi, Ali, Hirzallah, Mohammad I., Wu, Jimmy H., Stahn, Alexander C., Beheshti, Afshin, Klotz, Remi, Ortiz, Veronica, Yu, Min, Patras, Laura, Matei, Irina, Lyden, David, Melnick, Ari, Banerjee, Neil, Mullane, Sean, Kleinman, Ashley S., Loesche, Michael, Menon, Anil S., Donoviel, Dorit B., Urquieta, Emmanuel, Mateus, Jaime, Sargsyan, Ashot E., Shelhamer, Mark, Zenhausern, Frederic, Bershad, Eric M., Basner, Mathias, and Mason, Christopher E.
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- 2024
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12. The Space Omics and Medical Atlas (SOMA) and international astronaut biobank
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Overbey, Eliah G., Kim, JangKeun, Tierney, Braden T., Park, Jiwoon, Houerbi, Nadia, Lucaci, Alexander G., Garcia Medina, Sebastian, Damle, Namita, Najjar, Deena, Grigorev, Kirill, Afshin, Evan E., Ryon, Krista A., Sienkiewicz, Karolina, Patras, Laura, Klotz, Remi, Ortiz, Veronica, MacKay, Matthew, Schweickart, Annalise, Chin, Christopher R., Sierra, Maria A., Valenzuela, Matias F., Dantas, Ezequiel, Nelson, Theodore M., Cekanaviciute, Egle, Deards, Gabriel, Foox, Jonathan, Narayanan, S. Anand, Schmidt, Caleb M., Schmidt, Michael A., Schmidt, Julian C., Mullane, Sean, Tigchelaar, Seth Stravers, Levitte, Steven, Westover, Craig, Bhattacharya, Chandrima, Lucotti, Serena, Wain Hirschberg, Jeremy, Proszynski, Jacqueline, Burke, Marissa, Kleinman, Ashley S., Butler, Daniel J., Loy, Conor, Mzava, Omary, Lenz, Joan, Paul, Doru, Mozsary, Christopher, Sanders, Lauren M., Taylor, Lynn E., Patel, Chintan O., Khan, Sharib A., Suhail Mohamad, Mir, Byhaqui, Syed Gufran Ahmad, Aslam, Burhan, Gajadhar, Aaron S., Williamson, Lucy, Tandel, Purvi, Yang, Qiu, Chu, Jessica, Benz, Ryan W., Siddiqui, Asim, Hornburg, Daniel, Blease, Kelly, Moreno, Juan, Boddicker, Andrew, Zhao, Junhua, Lajoie, Bryan, Scott, Ryan T., Gilbert, Rachel R., Lai Polo, San-huei, Altomare, Andrew, Kruglyak, Semyon, Levy, Shawn, Ariyapala, Ishara, Beer, Joanne, Zhang, Bingqing, Hudson, Briana M., Rininger, Aric, Church, Sarah E., Beheshti, Afshin, Church, George M., Smith, Scott M., Crucian, Brian E., Zwart, Sara R., Matei, Irina, Lyden, David C., Garrett-Bakelman, Francine, Krumsiek, Jan, Chen, Qiuying, Miller, Dawson, Shuga, Joe, Williams, Stephen, Nemec, Corey, Trudel, Guy, Pelchat, Martin, Laneuville, Odette, De Vlaminck, Iwijn, Gross, Steven, Bolton, Kelly L., Bailey, Susan M., Granstein, Richard, Furman, David, Melnick, Ari M., Costes, Sylvain V., Shirah, Bader, Yu, Min, Menon, Anil S., Mateus, Jaime, Meydan, Cem, and Mason, Christopher E.
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- 2024
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13. A second space age spanning omics, platforms and medicine across orbits
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Mason, Christopher E., Green, James, Adamopoulos, Konstantinos I., Afshin, Evan E., Baechle, Jordan J., Basner, Mathias, Bailey, Susan M., Bielski, Luca, Borg, Josef, Borg, Joseph, Broddrick, Jared T., Burke, Marissa, Caicedo, Andrés, Castañeda, Verónica, Chatterjee, Subhamoy, Chin, Christopher R., Church, George, Costes, Sylvain V., De Vlaminck, Iwijn, Desai, Rajeev I., Dhir, Raja, Diaz, Juan Esteban, Etlin, Sofia M., Feinstein, Zachary, Furman, David, Garcia-Medina, J. Sebastian, Garrett-Bakelman, Francine, Giacomello, Stefania, Gupta, Anjali, Hassanin, Amira, Houerbi, Nadia, Irby, Iris, Javorsky, Emilia, Jirak, Peter, Jones, Christopher W., Kamal, Khaled Y., Kangas, Brian D., Karouia, Fathi, Kim, JangKeun, Kim, Joo Hyun, Kleinman, Ashley S., Lam, Try, Lawler, John M., Lee, Jessica A., Limoli, Charles L., Lucaci, Alexander, MacKay, Matthew, McDonald, J. Tyson, Melnick, Ari M., Meydan, Cem, Mieczkowski, Jakub, Muratani, Masafumi, Najjar, Deena, Othman, Mariam A., Overbey, Eliah G., Paar, Vera, Park, Jiwoon, Paul, Amber M., Perdyan, Adrian, Proszynski, Jacqueline, Reynolds, Robert J., Ronca, April E., Rubins, Kate, Ryon, Krista A., Sanders, Lauren M., Glowe, Patricia Savi, Shevde, Yash, Schmidt, Michael A., Scott, Ryan T., Shirah, Bader, Sienkiewicz, Karolina, Sierra, Maria A., Siew, Keith, Theriot, Corey A., Tierney, Braden T., Venkateswaran, Kasthuri, Hirschberg, Jeremy Wain, Walsh, Stephen B., Walter, Claire, Winer, Daniel A., Yu, Min, Zea, Luis, Mateus, Jaime, and Beheshti, Afshin
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- 2024
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14. Longitudinal multi-omics analysis of host microbiome architecture and immune responses during short-term spaceflight
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Tierney, Braden T., Kim, JangKeun, Overbey, Eliah G., Ryon, Krista A., Foox, Jonathan, Sierra, Maria A., Bhattacharya, Chandrima, Damle, Namita, Najjar, Deena, Park, Jiwoon, Garcia Medina, J. Sebastian, Houerbi, Nadia, Meydan, Cem, Wain Hirschberg, Jeremy, Qiu, Jake, Kleinman, Ashley S., Al-Ghalith, Gabriel A., MacKay, Matthew, Afshin, Evan E., Dhir, Raja, Borg, Joseph, Gatt, Christine, Brereton, Nicholas, Readhead, Benjamin P., Beyaz, Semir, Venkateswaran, Kasthuri J., Wiseman, Kelly, Moreno, Juan, Boddicker, Andrew M., Zhao, Junhua, Lajoie, Bryan R., Scott, Ryan T., Altomare, Andrew, Kruglyak, Semyon, Levy, Shawn, Church, George M., and Mason, Christopher E.
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- 2024
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15. Wastewater based surveillance can be used to reduce clinical testing intensity on a university campus
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Amirali, Ayaaz, Babler, Kristina M., Sharkey, Mark E., Beaver, Cynthia C., Boone, Melinda M., Comerford, Samuel, Cooper, Daniel, Currall, Benjamin B., Goodman, Kenneth W., Grills, George S., Kobetz, Erin, Kumar, Naresh, Laine, Jennifer, Lamar, Walter E., Mason, Christopher E., Reding, Brian D., Roca, Matthew A., Ryon, Krista, Schürer, Stephan C., Shukla, Bhavarth S., Solle, Natasha Schaefer, Stevenson, Mario, Tallon, John J., Jr, Vidović, Dušica, Williams, Sion L., Yin, Xue, and Solo-Gabriele, Helena M.
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- 2024
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16. A global metagenomic map of urban microbiomes and antimicrobial resistance.
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Danko, David, Bezdan, Daniela, Afshin, Evan E, Ahsanuddin, Sofia, Bhattacharya, Chandrima, Butler, Daniel J, Chng, Kern Rei, Donnellan, Daisy, Hecht, Jochen, Jackson, Katelyn, Kuchin, Katerina, Karasikov, Mikhail, Lyons, Abigail, Mak, Lauren, Meleshko, Dmitry, Mustafa, Harun, Mutai, Beth, Neches, Russell Y, Ng, Amanda, Nikolayeva, Olga, Nikolayeva, Tatyana, Png, Eileen, Ryon, Krista A, Sanchez, Jorge L, Shaaban, Heba, Sierra, Maria A, Thomas, Dominique, Young, Ben, Abudayyeh, Omar O, Alicea, Josue, Bhattacharyya, Malay, Blekhman, Ran, Castro-Nallar, Eduardo, Cañas, Ana M, Chatziefthimiou, Aspassia D, Crawford, Robert W, De Filippis, Francesca, Deng, Youping, Desnues, Christelle, Dias-Neto, Emmanuel, Dybwad, Marius, Elhaik, Eran, Ercolini, Danilo, Frolova, Alina, Gankin, Dennis, Gootenberg, Jonathan S, Graf, Alexandra B, Green, David C, Hajirasouliha, Iman, Hastings, Jaden JA, Hernandez, Mark, Iraola, Gregorio, Jang, Soojin, Kahles, Andre, Kelly, Frank J, Knights, Kaymisha, Kyrpides, Nikos C, Łabaj, Paweł P, Lee, Patrick KH, Leung, Marcus HY, Ljungdahl, Per O, Mason-Buck, Gabriella, McGrath, Ken, Meydan, Cem, Mongodin, Emmanuel F, Moraes, Milton Ozorio, Nagarajan, Niranjan, Nieto-Caballero, Marina, Noushmehr, Houtan, Oliveira, Manuela, Ossowski, Stephan, Osuolale, Olayinka O, Özcan, Orhan, Paez-Espino, David, Rascovan, Nicolás, Richard, Hugues, Rätsch, Gunnar, Schriml, Lynn M, Semmler, Torsten, Sezerman, Osman U, Shi, Leming, Shi, Tieliu, Siam, Rania, Song, Le Huu, Suzuki, Haruo, Court, Denise Syndercombe, Tighe, Scott W, Tong, Xinzhao, Udekwu, Klas I, Ugalde, Juan A, Valentine, Brandon, Vassilev, Dimitar I, Vayndorf, Elena M, Velavan, Thirumalaisamy P, Wu, Jun, Zambrano, María M, Zhu, Jifeng, Zhu, Sibo, Mason, Christopher E, and International MetaSUB Consortium
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International MetaSUB Consortium ,AMR ,BGC ,NGS ,antimicrobial resistance ,built Environment ,de novo assembly ,global health ,metagenome ,microbiome ,shotgun sequencing ,Antimicrobial Resistance ,Biotechnology ,Human Genome ,Genetics ,Infection ,Developmental Biology ,Biological Sciences ,Medical and Health Sciences - Abstract
We present a global atlas of 4,728 metagenomic samples from mass-transit systems in 60 cities over 3 years, representing the first systematic, worldwide catalog of the urban microbial ecosystem. This atlas provides an annotated, geospatial profile of microbial strains, functional characteristics, antimicrobial resistance (AMR) markers, and genetic elements, including 10,928 viruses, 1,302 bacteria, 2 archaea, and 838,532 CRISPR arrays not found in reference databases. We identified 4,246 known species of urban microorganisms and a consistent set of 31 species found in 97% of samples that were distinct from human commensal organisms. Profiles of AMR genes varied widely in type and density across cities. Cities showed distinct microbial taxonomic signatures that were driven by climate and geographic differences. These results constitute a high-resolution global metagenomic atlas that enables discovery of organisms and genes, highlights potential public health and forensic applications, and provides a culture-independent view of AMR burden in cities.
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- 2021
17. Shotgun transcriptome, spatial omics, and isothermal profiling of SARS-CoV-2 infection reveals unique host responses, viral diversification, and drug interactions
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Butler, Daniel, Mozsary, Christopher, Meydan, Cem, Foox, Jonathan, Rosiene, Joel, Shaiber, Alon, Danko, David, Afshinnekoo, Ebrahim, MacKay, Matthew, Sedlazeck, Fritz J, Ivanov, Nikolay A, Sierra, Maria, Pohle, Diana, Zietz, Michael, Gisladottir, Undina, Ramlall, Vijendra, Sholle, Evan T, Schenck, Edward J, Westover, Craig D, Hassan, Ciaran, Ryon, Krista, Young, Benjamin, Bhattacharya, Chandrima, Ng, Dianna L, Granados, Andrea C, Santos, Yale A, Servellita, Venice, Federman, Scot, Ruggiero, Phyllis, Fungtammasan, Arkarachai, Chin, Chen-Shan, Pearson, Nathaniel M, Langhorst, Bradley W, Tanner, Nathan A, Kim, Youngmi, Reeves, Jason W, Hether, Tyler D, Warren, Sarah E, Bailey, Michael, Gawrys, Justyna, Meleshko, Dmitry, Xu, Dong, Couto-Rodriguez, Mara, Nagy-Szakal, Dorottya, Barrows, Joseph, Wells, Heather, O’Hara, Niamh B, Rosenfeld, Jeffrey A, Chen, Ying, Steel, Peter AD, Shemesh, Amos J, Xiang, Jenny, Thierry-Mieg, Jean, Thierry-Mieg, Danielle, Iftner, Angelika, Bezdan, Daniela, Sanchez, Elizabeth, Campion, Thomas R, Sipley, John, Cong, Lin, Craney, Arryn, Velu, Priya, Melnick, Ari M, Shapira, Sagi, Hajirasouliha, Iman, Borczuk, Alain, Iftner, Thomas, Salvatore, Mirella, Loda, Massimo, Westblade, Lars F, Cushing, Melissa, Wu, Shixiu, Levy, Shawn, Chiu, Charles, Schwartz, Robert E, Tatonetti, Nicholas, Rennert, Hanna, Imielinski, Marcin, and Mason, Christopher E
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Biological Sciences ,Biomedical and Clinical Sciences ,Clinical Sciences ,Infectious Diseases ,Vaccine Related ,Biodefense ,Rare Diseases ,Emerging Infectious Diseases ,Clinical Research ,Prevention ,Lung ,Pneumonia & Influenza ,Aetiology ,Development of treatments and therapeutic interventions ,2.1 Biological and endogenous factors ,5.1 Pharmaceuticals ,Infection ,Good Health and Well Being ,Adult ,Aged ,Angiotensin Receptor Antagonists ,Angiotensin-Converting Enzyme Inhibitors ,Antiviral Agents ,COVID-19 ,COVID-19 Nucleic Acid Testing ,Drug Interactions ,Female ,Gene Expression Profiling ,Genome ,Viral ,HLA Antigens ,Host Microbial Interactions ,Humans ,Male ,Middle Aged ,Molecular Diagnostic Techniques ,New York City ,Nucleic Acid Amplification Techniques ,Pandemics ,RNA-Seq ,SARS-CoV-2 ,COVID-19 Drug Treatment - Abstract
In less than nine months, the Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2) killed over a million people, including >25,000 in New York City (NYC) alone. The COVID-19 pandemic caused by SARS-CoV-2 highlights clinical needs to detect infection, track strain evolution, and identify biomarkers of disease course. To address these challenges, we designed a fast (30-minute) colorimetric test (LAMP) for SARS-CoV-2 infection from naso/oropharyngeal swabs and a large-scale shotgun metatranscriptomics platform (total-RNA-seq) for host, viral, and microbial profiling. We applied these methods to clinical specimens gathered from 669 patients in New York City during the first two months of the outbreak, yielding a broad molecular portrait of the emerging COVID-19 disease. We find significant enrichment of a NYC-distinctive clade of the virus (20C), as well as host responses in interferon, ACE, hematological, and olfaction pathways. In addition, we use 50,821 patient records to find that renin-angiotensin-aldosterone system inhibitors have a protective effect for severe COVID-19 outcomes, unlike similar drugs. Finally, spatial transcriptomic data from COVID-19 patient autopsy tissues reveal distinct ACE2 expression loci, with macrophage and neutrophil infiltration in the lungs. These findings can inform public health and may help develop and drive SARS-CoV-2 diagnostic, prevention, and treatment strategies.
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- 2021
18. Metagenomic characterization of bacterial community and antibiotic resistance genes found in the mass transit system in Seoul, South Korea
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Guevarra, Robin B., Hwang, Juchan, Lee, Hyunjung, Kim, Hyung Jun, Lee, Yunmi, Danko, David, Ryon, Krista A., Young, Benjamin Grady, Mason, Christopher E., and Jang, Soojin
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- 2022
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19. Microbiome and metagenomic analysis of Lake Hillier Australia reveals pigment-rich polyextremophiles and wide-ranging metabolic adaptations
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Sierra, Maria A., Ryon, Krista A., Tierney, Braden T., Foox, Jonathan, Bhattacharya, Chandrima, Afshin, Evan, Butler, Daniel, Green, Stefan J., Thomas, W. Kelley, Ramsdell, Jordan, Bivens, Nathan J., McGrath, Ken, Mason, Christopher E., and Tighe, Scott W.
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- 2022
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20. Lessons learned from SARS-CoV-2 measurements in wastewater
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Sharkey, Mark E., Kumar, Naresh, Mantero, Alejandro M.A., Babler, Kristina M., Boone, Melinda M., Cardentey, Yoslayma, Cortizas, Elena M., Grills, George S., Herrin, James, Kemper, Jenny M., Kenney, Richard, Kobetz, Erin, Laine, Jennifer, Lamar, Walter E., Mader, Christopher C., Mason, Christopher E., Quintero, Anda Z., Reding, Brian D., Roca, Matthew A., Ryon, Krista, Solle, Natasha Schaefer, Schürer, Stephan C., Shukla, Bhavarth, Stevenson, Mario, Stone, Thomas, Tallon, John J., Jr, Venkatapuram, Sreeharsha S., Vidovic, Dusica, Williams, Sion L., Young, Benjamin, and Solo-Gabriele, Helena M.
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- 2021
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21. A global metagenomic map of urban microbiomes and antimicrobial resistance
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Abdullah, Natasha, Abraao, Marcos, Adel, Ait-hamlat, Afaq, Muhammad, Al-Quaddoomi, Faisal S., Alam, Ireen, Albuquerque, Gabriela E., Alexiev, Alex, Ali, Kalyn, Alvarado-Arnez, Lucia E., Aly, Sarh, Amachee, Jennifer, Amorim, Maria G., Ampadu, Majelia, Amran, Muhammad Al-Fath, An, Nala, Andrew, Watson, Andrianjakarivony, Harilanto, Angelov, Michael, Antelo, Verónica, Aquino, Catharine, Aranguren, Álvaro, Araujo, Luiza F., Vasquez Arevalo, Hitler Francois, Arevalo, Jenny, Arnan, Carme, Alvarado Arnez, Lucia Elena, Arredondo, Fernanda, Arthur, Matthew, Asenjo, Freddy, Aung, Thomas Saw, Auvinet, Juliette, Aventin, Nuria, Ayaz, Sadaf, Baburyan, Silva, Bakere, Abd-Manaaf, Bakhl, Katrin, Bartelli, Thais F., Batdelger, Erdenetsetseg, Baudon, François, Becher, Kevin, Bello, Carla, Benchouaia, Médine, Benisty, Hannah, Benoiston, Anne-Sophie, Benson, Joseph, Benítez, Diego, Bernardes, Juliana, Bertrand, Denis, Beurmann, Silvia, Bitard-Feildel, Tristan, Bittner, Lucie, Black, Christina, Blanc, Guillaume, Blyther, Brittany, Bode, Toni, Boeri, Julia, Boldgiv, Bazartseren, Bolzli, Kevin, Bordigoni, Alexia, Borrelli, Ciro, Bouchard, Sonia, Bouly, Jean-Pierre, Boyd, Alicia, Branco, Gabriela P., Breschi, Alessandra, Brindefalk, Björn, Brion, Christian, Briones, Alan, Buczansla, Paulina, Burke, Catherine M., Burrell, Aszia, Butova, Alina, Buttar, Irvind, Bynoe, Jalia, Bönigk, Sven, Bøifot, Kari O., Caballero, Hiram, Cai, Xiao Wen, Calderon, Dayana, Cantillo, Angela, Carbajo, Miguel, Carbone, Alessandra, Cardenas, Anais, Carrillo, Katerine, Casalot, Laurie, Castro, Sofia, Castro, Ana V., Castro, Astred, Castro, Ana Valeria B., Cawthorne, Simone, Cedillo, Jonathan, Chaker, Salama, Chalangal, Jasna, Chan, Allison, Chasapi, Anastasia I., Chatziefthimiou, Starr, Chaudhuri, Sreya Ray, Chavan, Akash Keluth, Chavez, Francisco, Chem, Gregory, Chen, Xiaoqing, Chen, Michelle, Chen, Jenn-Wei, Chernomoretz, Ariel, Chettouh, Allaeddine, Cheung, Daisy, Chicas, Diana, Chiu, Shirley, Choudhry, Hira, Chrispin, Carl, Ciaramella, Kianna, Cifuentes, Erika, Cohen, Jake, Coil, David A., Collin, Sylvie, Conger, Colleen, Conte, Romain, Corsi, Flavia, Cossio, Cecilia N., Costa, Ana F., Cuebas, Delisia, D’Alessandro, Bruno, Dahlhausen, Katherine E., Darling, Aaron E., Das, Pujita, Davenport, Lucinda B., David, Laurent, Davidson, Natalie R., Dayama, Gargi, Delmas, Stéphane, Deng, Chris K., Dequeker, Chloé, Desert, Alexandre, Devi, Monika, Dezem, Felipe S., Dias, Clara N., Donahoe, Timothy Ryan, Dorado, Sonia, Dorsey, LaShonda, Dotsenko, Valeriia, Du, Steven, Dutan, Alexandra, Eady, Naya, Eisen, Jonathan A., Elaskandrany, Miar, Epping, Lennard, Escalera-Antezana, Juan P., Ettinger, Cassie L., Faiz, Iqra, Fan, Luice, Farhat, Nadine, Faure, Emile, Fauzi, Fazlina, Feigin, Charlie, Felice, Skye, Ferreira, Laís Pereira, Figueroa, Gabriel, Fleiss, Aubin, Flores, Denisse, Velasco Flores, Jhovana L., Fonseca, Marcos A.S., Foox, Jonathan, Forero, Juan Carlos, Francis, Aaishah, French, Kelly, Fresia, Pablo, Friedman, Jacob, Fuentes, Jaime J., Galipon, Josephine, Garcia, Mathilde, Garcia, Laura, García, Catalina, Geiger, Annie, Gerner, Samuel M., Ghose, Sonia L., Giang, Dao Phuong, Giménez, Matías, Giovannelli, Donato, Githae, Dedan, Gkotzis, Spyridon, Godoy, Liliana, Goldman, Samantha, Gonnet, Gaston H., Gonzalez, Juana, Gonzalez, Andrea, Gonzalez-Poblete, Camila, Gray, Andrew, Gregory, Tranette, Greselle, Charlotte, Guasco, Sophie, Guerra, Juan, Gurianova, Nika, Haehr, Wolfgang, Halary, Sebastien, Hartkopf, Felix, Hastings, Jaden J.A., Hawkins-Zafarnia, Arya, Hazrin-Chong, Nur Hazlin, Helfrich, Eric, Hell, Eva, Henry, Tamera, Hernandez, Samuel, Hernandez, Pilar Lopez, Hess-Homeier, David, Hittle, Lauren E., Hoan, Nghiem Xuan, Holik, Aliaksei, Homma, Chiaki, Hoxie, Irene, Huber, Michael, Humphries, Elizabeth, Hyland, Stephanie, Hässig, Andrea, Häusler, Roland, Hüsser, Nathalie, Petit, Robert A., III, Iderzorig, Badamnyambuu, Igarashi, Mizuki, Iqbal, Shaikh B., Ishikawa, Shino, Ishizuka, Sakura, Islam, Sharah, Islam, Riham, Ito, Kohei, Ito, Sota, Ito, Takayuki, Ivankovic, Tomislav, Iwashiro, Tomoki, Jackson, Sarah, Jacobs, JoAnn, James, Marisano, Jaubert, Marianne, Jerier, Marie-Laure, Jiminez, Esmeralda, Jinfessa, Ayantu, De Jong, Ymke, Joo, Hyun Woo, Jospin, Guilllaume, Kajita, Takema, Ahmad Kassim, Affifah Saadah, Kato, Nao, Kaur, Amrit, Kaur, Inderjit, de Souza Gomes Kehdy, Fernanda, Khadka, Vedbar S., Khan, Shaira, Khavari, Mahshid, Ki, Michelle, Kim, Gina, Kim, Hyung Jun, Kim, Sangwan, King, Ryan J., Knights, Kaymisha, KoLoMonaco, Giuseppe, Koag, Ellen, Kobko-Litskevitch, Nadezhda, Korshevniuk, Maryna, Kozhar, Michael, Krebs, Jonas, Kubota, Nanami, Kuklin, Andrii, Kumar, Sheelta S., Kwong, Rachel, Kwong, Lawrence, Lafontaine, Ingrid, Lago, Juliana, Lai, Tsoi Ying, Laine, Elodie, Laiola, Manolo, Lakhneko, Olha, Lamba, Isha, de Lamotte, Gerardo, Lannes, Romain, De Lazzari, Eleonora, Leahy, Madeline, Lee, Hyunjung, Lee, Yunmi, Lee, Lucy, Lemaire, Vincent, Leong, Emily, Leung, Marcus H.Y., Lewandowska, Dagmara, Li, Chenhao, Liang, Weijun, Lin, Moses, Lisboa, Priscilla, Litskevitch, Anna, Liu, Eric Minwei, Liu, Tracy, Livia, Mayra Arauco, Lo, Yui Him, Losim, Sonia, Loubens, Manon, Lu, Jennifer, Lykhenko, Olexandr, Lysakova, Simona, Mahmoud, Salah, Majid, Sara Abdul, Makogon, Natalka, Maldonado, Denisse, Mallari, Krizzy, Malta, Tathiane M., Mamun, Maliha, Manoir, Dimitri, Marchandon, German, Marciniak, Natalia, Marinovic, Sonia, Marques, Brunna, Mathews, Nicole, Matsuzaki, Yuri, Matthys, Vincent, May, Madelyn, McComb, Elias, Meagher, Annabelle, Melamed, Adiell, Menary, Wayne, Mendez, Katterinne N., Mendez, Ambar, Mendy, Irène Mauricette, Meng, Irene, Menon, Ajay, Menor, Mark, Meoded, Roy, Merino, Nancy, Meydan, Cem, Miah, Karishma, Mignotte, Mathilde, Miketic, Tanja, Miranda, Wilson, Mitsios, Athena, Miura, Ryusei, Miyake, Kunihiko, Moccia, Maria D., Mohan, Natasha, Mohsin, Mohammed, Moitra, Karobi, Moldes, Mauricio, Molina, Laura, Molinet, Jennifer, Molomjamts, Orgil-Erdene, Moniruzzaman, Eftar, Moon, Sookwon, de Oliveira Moraes, Isabelle, Moreno, Mario, Mosella, Maritza S., Moser, Josef W., Mozsary, Christopher, Muehlbauer, Amanda L., Muner, Oasima, Munia, Muntaha, Munim, Naimah, Muscat, Maureen, Mustac, Tatjana, Muñoz, Cristina, Nadalin, Francesca, Naeem, Areeg, Nagy-Szakal, Dorottya, Nakagawa, Mayuko, Narce, Ashanti, Nasu, Masaki, Navarrete, Irene González, Naveed, Hiba, Nazario, Bryan, Nedunuri, Narasimha Rao, Neff, Thomas, Nesimi, Aida, Ng, Wan Chiew, Ng, Synti, Nguyen, Gloria, Ngwa, Elsy, Nicolas, Agier, Nicolas, Pierre, Nika, Abdollahi, Noorzi, Hosna, Nosrati, Avigdor, Noushmehr, Houtan, Nunes, Diana N., O’Brien, Kathryn, O’Hara, Niamh B., Oken, Gabriella, Olawoyin, Rantimi A., Oliete, Javier Quilez, Olmeda, Kiara, Oluwadare, Tolulope, Oluwadare, Itunu A., Ordioni, Nils, Orpilla, Jenessa, Orrego, Jacqueline, Ortega, Melissa, Osma, Princess, Osuolale, Israel O., Osuolale, Oluwatosin M., Ota, Mitsuki, Oteri, Francesco, Oto, Yuya, Ounit, Rachid, Ouzounis, Christos A., Pakrashi, Subhamitra, Paras, Rachel, Pardo-Este, Coral, Park, Young-Ja, Pastuszek, Paulina, Patel, Suraj, Pathmanathan, Jananan, Patrignani, Andrea, Perez, Manuel, Peros, Ante, Persaud, Sabrina, Peters, Anisia, Phillips, Adam, Pineda, Lisbeth, Pizzi, Melissa P., Plaku, Alma, Plaku, Alketa, Pompa-Hogan, Brianna, Portilla, María Gabriela, Posada, Leonardo, Priestman, Max, Prithiviraj, Bharath, Priya, Sambhawa, Pugdeethosal, Phanthira, Pugh, Catherine E., Pulatov, Benjamin, Pupiec, Angelika, Pyrshev, Kyrylo, Qing, Tao, Rahiel, Saher, Rahmatulloev, Savlatjon, Rajendran, Kannan, Ramcharan, Aneisa, Ramirez-Rojas, Adan, Rana, Shahryar, Ratnanandan, Prashanthi, Read, Timothy D., Rehrauer, Hubert, Richer, Renee, Rivera, Alexis, Rivera, Michelle, Robertiello, Alessandro, Robinson, Courtney, Rodríguez, Paula, Rojas, Nayra Aguilar, Roldán, Paul, Rosario, Anyelic, Roth, Sandra, Ruiz, Maria, Boja Ruiz, Stephen Eduard, Russell, Kaitlan, Rybak, Mariia, Sabedot, Thais S., Sabina, Mahfuza, Saito, Ikuto, Saito, Yoshitaka, Malca Salas, Gustavo Adolfo, Salazar, Cecilia, San, Kaung Myat, Sanchez, Jorge, Sanchir, Khaliun, Sankar, Ryan, de Souza Santos, Paulo Thiago, Saravi, Zulena, Sasaki, Kai, Sato, Yuma, Sato, Masaki, Sato, Seisuke, Sato, Ryo, Sato, Kaisei, Sayara, Nowshin, Schaaf, Steffen, Schacher, Oli, Schinke, Anna-Lena M., Schlapbach, Ralph, Schori, Christian, Schriml, Jason R., Segato, Felipe, Sepulveda, Felipe, Serpa, Marianna S., De Sessions, Paola F., Severyn, Juan C., Shaaban, Heba, Shakil, Maheen, Shalaby, Sarah, Shari, Aliyah, Shim, Hyenah, Shirahata, Hikaru, Shiwa, Yuh, Siam, Rania, Da Silva, Ophélie, Silva, Jordana M., Simon, Gwenola, Singh, Shaleni K., Sluzek, Kasia, Smith, Rebecca, So, Eunice, Andreu Somavilla, Núria, Sonohara, Yuya, Rufino de Sousa, Nuno, Souza, Camila, Sperry, Jason, Sprinsky, Nicolas, Stark, Stefan G., La Storia, Antonietta, Suganuma, Kiyoshi, Suliman, Hamood, Sullivan, Jill, Supie, Arif Asyraf Md, Suzuki, Chisato, Takagi, Sora, Takahara, Fumie, Takahashi, Naoya, Takahashi, Kou, Takeda, Tomoki, Takenaka, Isabella K., Tanaka, Soma, Tang, Anyi, Man Tang, Yuk, Tarcitano, Emilio, Tassinari, Andrea, Taye, Mahdi, Terrero, Alexis, Thambiraja, Eunice, Thiébaut, Antonin, Thomas, Sade, Thomas, Andrew M., Togashi, Yuto, Togashi, Takumi, Tomaselli, Anna, Tomita, Masaru, Tomita, Itsuki, Tong, Xinzhao, Toth, Oliver, Toussaint, Nora C., Tran, Jennifer M., Truong, Catalina, Tsonev, Stefan I., Tsuda, Kazutoshi, Tsurumaki, Takafumi, Tuz, Michelle, Tymoshenko, Yelyzaveta, Urgiles, Carmen, Usui, Mariko, Vacant, Sophie, Valentine, Brandon, Vann, Laura E., Velter, Fabienne, Ventorino, Valeria, Vera-Wolf, Patricia, Vicedomini, Riccardo, Suarez-Villamil, Michael A., Vincent, Sierra, Vivancos-Koopman, Renee, Wan, Andrew, Wang, Cindy, Warashina, Tomoro, Watanabe, Ayuki, Weekes, Samuel, Werner, Johannes, Westfall, David, Wieler, Lothar H., Williams, Michelle, Wolf, Silver A., Wong, Brian, Wong, Yan Ling, Wong, Tyler, Wright, Rasheena, Wunderlin, Tina, Yamanaka, Ryota, Yang, Jingcheng, Yano, Hirokazu, Yeh, George C., Yemets, Olena, Yeskova, Tetiana, Yoshikawa, Shusei, Zafar, Laraib, Zhang, Yang, Zhang, Shu, Zhang, Amy, Zheng, Yuanting, Zubenko, Stas, Danko, David, Bezdan, Daniela, Afshin, Evan E., Ahsanuddin, Sofia, Bhattacharya, Chandrima, Butler, Daniel J., Chng, Kern Rei, Donnellan, Daisy, Hecht, Jochen, Jackson, Katelyn, Kuchin, Katerina, Karasikov, Mikhail, Lyons, Abigail, Mak, Lauren, Meleshko, Dmitry, Mustafa, Harun, Mutai, Beth, Neches, Russell Y., Ng, Amanda, Nikolayeva, Olga, Nikolayeva, Tatyana, Png, Eileen, Ryon, Krista A., Sanchez, Jorge L., Sierra, Maria A., Thomas, Dominique, Young, Ben, Abudayyeh, Omar O., Alicea, Josue, Bhattacharyya, Malay, Blekhman, Ran, Castro-Nallar, Eduardo, Cañas, Ana M., Chatziefthimiou, Aspassia D., Crawford, Robert W., De Filippis, Francesca, Deng, Youping, Desnues, Christelle, Dias-Neto, Emmanuel, Dybwad, Marius, Elhaik, Eran, Ercolini, Danilo, Frolova, Alina, Gankin, Dennis, Gootenberg, Jonathan S., Graf, Alexandra B., Green, David C., Hajirasouliha, Iman, Hernandez, Mark, Iraola, Gregorio, Jang, Soojin, Kahles, Andre, Kelly, Frank J., Kyrpides, Nikos C., Łabaj, Paweł P., Lee, Patrick K.H., Ljungdahl, Per O., Mason-Buck, Gabriella, McGrath, Ken, Mongodin, Emmanuel F., Moraes, Milton Ozorio, Nagarajan, Niranjan, Nieto-Caballero, Marina, Oliveira, Manuela, Ossowski, Stephan, Osuolale, Olayinka O., Özcan, Orhan, Paez-Espino, David, Rascovan, Nicolás, Richard, Hugues, Rätsch, Gunnar, Schriml, Lynn M., Semmler, Torsten, Sezerman, Osman U., Shi, Leming, Shi, Tieliu, Song, Le Huu, Suzuki, Haruo, Court, Denise Syndercombe, Tighe, Scott W., Udekwu, Klas I., Ugalde, Juan A., Vassilev, Dimitar I., Vayndorf, Elena M., Velavan, Thirumalaisamy P., Wu, Jun, Zambrano, María M., Zhu, Jifeng, Zhu, Sibo, and Mason, Christopher E.
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- 2021
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22. Chapter 7 - Telomere length dynamics associated with short-duration human spaceflight
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Shirah, Bader, Overbey, Eliah G., Foox, Jonathan, Hirschberg, Jeremy Wain, Kim, JangKeun, Ryon, Krista, Proszynski, Jacqueline, Meydan, Cem, Najjar, Deena, Collier, Paul, LeRoy, Erik, Pandya, Shawna, Gonzalez, Yvette, Persad, Aaron H., Ahmed, Mohammed M., Bukhari, Hatim, Naseer, Muhammad Imran, Ashemimry, Mishaal N., Taylor, Lynn, Al-Turki, Taghreed M., Klotz, Remi, Yu, Min, Sen, Jon, Bailey, Susan M., and Mason, Christopher E.
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- 2025
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23. Chapter 6 - Surrogate assessment of brain health using longitudinal measures of blood-based biomarkers in short-duration human spaceflight
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Shirah, Bader, zu Eulenburg, Peter, Overbey, Eliah G., Kim, JangKeun, Burke, Marissa, Hirschberg, Jeremy Wain, Schulze, Isabell, Ryon, Krista, Proszynski, Jacqueline, Meydan, Cem, Najjar, Deena, Foox, Jonathan, Collier, Paul, Nelson, Theodore M., Zhang, Dennis J., Iyoha, Nosakhare M., Jones, Chloe J., Przywozny, Brianna, Sibilly, Thomas, Pandya, Shawna, Gonzalez, Yvette, Persad, Aaron H., Ahmed, Mohammed M., Bukhari, Hatim, Naseer, Muhammad Imran, Sen, Jon, Klotz, Remi, Yu, Min, Ashemimry, Mishaal N., Wolchok, Jedd, Merghoub, Taha, and Mason, Christopher E.
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- 2025
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24. A comprehensive metagenomics framework to characterize organisms relevant for planetary protection
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Danko, David C., Sierra, Maria A., Benardini, James N., Guan, Lisa, Wood, Jason M., Singh, Nitin, Seuylemezian, Arman, Butler, Daniel J., Ryon, Krista, Kuchin, Katerina, Meleshko, Dmitry, Bhattacharya, Chandrima, Venkateswaran, Kasthuri J., and Mason, Christopher E.
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- 2021
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25. Viral activation and ecological restructuring characterize a microbiome axis of spaceflight-associated immune activation
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Mason, Christopher, primary, Tierney, Braden, additional, Kim, JangKeun, additional, Overbey, Eliah, additional, Ryon, Krista, additional, Foox, Jonathan, additional, Sierra, Maria, additional, Bhattacharya, Chandrima, additional, Damle, Namita, additional, Najjar, Deena, additional, Park, Jiwoon, additional, Medina, J. Sebastian Garcia, additional, Houerbi, Nadia, additional, Meydan, Cem, additional, Hirschberg, Jeremy, additional, Qiu, Jake, additional, Kleinman, Ashley, additional, Al-Ghalith, Gabriel, additional, MacKay, Matthew, additional, Afshin, Evan, additional, Dhir, Raja, additional, Borg, Joseph, additional, Gatt, Christine, additional, Brereton, Nicholas, additional, Readhead, Ben, additional, Beyaz, Semir, additional, Venkateswaran, Kasthuri, additional, Blease, Kelly, additional, Moreno, Juan, additional, Boddicker, Andrew, additional, Zhao, Junhua, additional, Lajoie, Bryan, additional, Scott, Ryan, additional, Altomare, Andrew, additional, Kruglyak, Semyon, additional, Levy, Shawn, additional, and Church, George, additional
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- 2023
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26. Genome and clonal hematopoiesis stability contrasts with immune, cfDNA, mitochondrial, and telomere length changes during short duration spaceflight.
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Garcia-Medina, J Sebastian, Sienkiewicz, Karolina, Narayanan, S Anand, Overbey, Eliah G, Grigorev, Kirill, Ryon, Krista A, Burke, Marissa, Proszynski, Jacqueline, Tierney, Braden, Schmidt, Caleb M, Mencia-Trinchant, Nuria, Klotz, Remi, Ortiz, Veronica, Foox, Jonathan, Chin, Christopher, Najjar, Deena, Matei, Irina, Chan, Irenaeus, Cruchaga, Carlos, and Kleinman, Ashley
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- 2024
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27. Geospatially-resolved public-health surveillance via wastewater sequencing
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Tierney, Braden T, Foox, Jonathan, Ryon, Krista A, Butler, Daniel, Damle, Namita, Young, Benjamin G, Mozsary, Christopher, Babler, Kristina M., Yin, Xue, Carattini, Yamina, Andrews, David, Solle, Natasha Schaefer, Kumar, Naresh, Shukla, Bhavarth, Vidovic, Dusica, Currall, Benjamin, Williams, Sion L., Schürer, Stephan C., Stevenson, Mario, Amirali, Ayaaz, Beaver, Cynthia C., Kobetz, Erin, Boone, Melinda M., Reding, Brian, Laine, Jennifer, Comerford, Samuel, Lamar, Walter E., Tallon, John J., Hirschberg, Jeremy Wain, Proszynski, Jacqueline, Sharkey, Mark E., Church, George M, Grills, George S, Solo-Gabriele, Helena M., and Mason, Christopher E
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Article - Abstract
Wastewater, which contains everything from pathogens to pollutants, is a geospatially-and temporally-linked microbial fingerprint of a given population. As a result, it can be leveraged for monitoring multiple dimensions of public health across locales and time. Here, we integrate targeted and bulk RNA sequencing (n=1,419 samples) to track the viral, bacterial, and functional content over geospatially distinct areas within Miami Dade County from 2020-2022. First, we used targeted amplicon sequencing (n=966) to track diverse SARS-CoV-2 variants across space and time, and we found a tight correspondence with clinical caseloads from University students (N = 1,503) and Miami-Dade County hospital patients (N = 3,939 patients), as well as an 8-day earlier detection of the Delta variant in wastewater vs. in patients. Additionally, in 453 metatranscriptomic samples, we demonstrate that different wastewater sampling locations have clinically and public-health-relevant microbiota that vary as a function of the size of the human population they represent. Through assembly, alignment-based, and phylogenetic approaches, we also detect multiple clinically important viruses (e.g., norovirus ) and describe geospatial and temporal variation in microbial functional genes that indicate the presence of pollutants. Moreover, we found distinct profiles of antimicrobial resistance (AMR) genes and virulence factors across campus buildings, dorms, and hospitals, with hospital wastewater containing a significant increase in AMR abundance. Overall, this effort lays the groundwork for systematic characterization of wastewater to improve public health decision making and a broad platform to detect emerging pathogens.
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- 2023
28. Collection of Biospecimens from the Inspiration4 Mission Establishes the Standards for the Space Omics and Medical Atlas (SOMA)
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Mason, Christopher, primary, Overbey, Eliah, additional, Ryon, Krista, additional, Kim, JangKeun Kim, additional, Tierney, Braden, additional, Klotz, Remi, additional, Ortiz, Veronica, additional, Mullane, Sean, additional, Schmidt, Julian, additional, MacKay, Matthew, additional, Damle, Namita, additional, Najjar, Deena, additional, Matei, Irina, additional, Patras, Laura, additional, Medina, J. Sebastian Garcia, additional, Kleinman, Ashley, additional, Hirschberg, Jeremy, additional, Proszynski, Jacqueline, additional, Narayanan, Anand, additional, Schmidt, Caleb, additional, Afshin, Evan, additional, Innes, Lucinda, additional, Saldarriaga, Mateo Mejia, additional, Schmidt, Michael, additional, Granstein, Richard, additional, Shirah, Bader, additional, Yu, Min, additional, Lyden, David, additional, and Mateus, Jaime, additional
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- 2023
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29. Collection of Biospecimens from the Inspiration4 Mission Establishes the Standards for the Space Omics and Medical Atlas (SOMA)
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Overbey, Eliah G., primary, Ryon, Krista, additional, Kim, JangKeun, additional, Tierney, Braden, additional, Klotz, Remi, additional, Ortiz, Veronica, additional, Mullane, Sean, additional, Schmidt, Julian C., additional, MacKay, Matthew, additional, Damle, Namita, additional, Najjar, Deena, additional, Matei, Irina, additional, Patras, Laura, additional, Medina, J. Sebastian Garcia, additional, Kleinman, Ashley, additional, Hirschberg, Jeremy Wain, additional, Proszynski, Jacqueline, additional, Narayanan, S. Anand, additional, Schmidt, Caleb M., additional, Afshin, Evan E., additional, Innes, Lucinda, additional, Saldarriaga, Mateo Mejia, additional, Schmidt, Michael A., additional, Granstein, Richard D., additional, Shirah, Bader, additional, Yu, Min, additional, Lyden, David, additional, Mateus, Jaime, additional, and Mason, Christopher E., additional
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- 2023
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30. List of contributors
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Ahmed, Mohammed M., Aladdin, Yasser, Al-Turki, Taghreed M., Ashemimry, Mishaal N., Bailey, Susan M., Bukhari, Hatim, Burke, Marissa, Cebolla Alvarez, Ana M., Cheron, Guy, Collier, Paul, Ertl, Matthias, Fiedler, Patrique, Foox, Jonathan, Funke, Michael, Gonzalez, Yvette, Hirschberg, Jeremy Wain, Iyoha, Nosakhare M., Jones, Chloe J., Kim, JangKeun, Klotz, Remi, Lee, Andrew G., LeRoy, Erik, Maestú, Fernando, Mason, Christopher E., Merghoub, Taha, Meydan, Cem, Najjar, Deena, Naseer, Muhammad Imran, Nelson, Theodore M., Overbey, Eliah G., Pandya, Shawna, Persad, Aaron H., Proszynski, Jacqueline, Przywozny, Brianna, Pusil, Sandra, Ryon, Krista, Schulze, Isabell, Sen, Jon, Shirah, Bader, Sibilly, Thomas, Taylor, Lynn, Wolchok, Jedd, Yu, Min, Zhang, Dennis J., and Zu Eulenburg, Peter
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- 2025
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31. Urban Microbiomes in Narita, Chiba, Japan: Shotgun Metagenome Sequences of a Train Station
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Rasmika Dewi, Dewa A. P., primary, Shiwa, Yuh, additional, Ryon, Krista, additional, Mason, Christopher E., additional, Matsumoto, Tetsuya, additional, and Suzuki, Haruo, additional
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- 2023
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32. The microbial biodiversity at the archeological site of Tel Megiddo (Israel).
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Zhang, Yali, Ruff, S. Emil, Oskolkov, Nikolay, Tierney, Braden T., Ryon, Krista, Danko, David, Mason, Christopher E., and Elhaik, Eran
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WORLD Heritage Sites ,ANCIENT cities & towns ,BUILT environment ,MICROBIAL genomes ,SHOTGUN sequencing ,MICROBIAL communities ,MICROBIAL diversity - Abstract
Introduction: The ancient city of Tel Megiddo in the Jezreel Valley (Israel), which lasted from the Neolithic to the Iron Age, has been continuously excavated since 1903 and is now recognized as a World Heritage Site. The site features multiple ruins in various areas, including temples and stables, alongside modern constructions, and public access is allowed in designated areas. The site has been studied extensively since the last century; however, its microbiome has never been studied. We carried out the first survey of the microbiomes in Tel Megiddo. Our objectives were to study (i) the unique microbial community structure of the site, (ii) the variation in the microbial communities across areas, (iii) the similarity of the microbiomes to urban and archeological microbes, (iv) the presence and abundance of potential bio-corroding microbes, and (v) the presence and abundance of potentially pathogenic microbes. Methods: We collected 40 swab samples from ten major areas and identified microbial taxa using next-generation sequencing of microbial genomes. These genomes were annotated and classified taxonomically and pathogenetically. Results: We found that eight phyla, six of which exist in all ten areas, dominated the site (>99%). The relative sequence abundance of taxa varied between the ruins and the sampled materials and was assessed using all metagenomic reads mapping to a respective taxon. The site hosted unique taxa characteristic of the built environment and exhibited high similarity to the microbiome of other monuments. We identified acid-producing bacteria that may pose a risk to the site through biocorrosion and staining and thus pose a danger to the site's preservation. Differences in the microbiomes of the publicly accessible or inaccessible areas were insignificant; however, pathogens were more abundant in the former. Discussion: We found that Tel Megiddo combines microbiomes of arid regions and monuments with human pathogens. The findings shed light on the microbial community structures and have relevance for bio-conservation efforts and visitor health. [ABSTRACT FROM AUTHOR]
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- 2023
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33. A history of the MetaSUB consortium: Tracking urban microbes around the globe
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Ryon, Krista A., primary, Tierney, Braden T., additional, Frolova, Alina, additional, Kahles, Andre, additional, Desnues, Christelle, additional, Ouzounis, Christos, additional, Gibas, Cynthia, additional, Bezdan, Daniela, additional, Deng, Youping, additional, He, Ding, additional, Dias-Neto, Emmanuel, additional, Elhaik, Eran, additional, Afshin, Evan, additional, Grills, George, additional, Iraola, Gregorio, additional, Suzuki, Haruo, additional, Werner, Johannes, additional, Udekwu, Klas, additional, Schriml, Lynn, additional, Bhattacharyya, Malay, additional, Oliveira, Manuela, additional, Zambrano, Maria Mercedes, additional, Hazrin-Chong, Nur Hazlin, additional, Osuolale, Olayinka, additional, Łabaj, Paweł P., additional, Tiasse, Prisca, additional, Rapuri, Sampath, additional, Borras, Silvia, additional, Pozdniakova, Sofya, additional, Shi, Tieliu, additional, Sezerman, Ugur, additional, Rodo, Xavier, additional, Sezer, Zehra Hazal, additional, and Mason, Christopher E., additional
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- 2022
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34. Supervised Machine Learning Enables Geospatial Microbial Provenance
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Bhattacharya, Chandrima, primary, Tierney, Braden T., additional, Ryon, Krista A., additional, Bhattacharyya, Malay, additional, Hastings, Jaden J. A., additional, Basu, Srijani, additional, Bhattacharya, Bodhisatwa, additional, Bagchi, Debneel, additional, Mukherjee, Somsubhro, additional, Wang, Lu, additional, Henaff, Elizabeth M., additional, and Mason, Christopher E., additional
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- 2022
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35. A history of the MetaSUB consortium:Tracking urban microbes around the globe
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Ryon, Krista A., Tierney, Braden T., Frolova, Alina, Kahles, Andre, Desnues, Christelle, Ouzounis, Christos, Gibas, Cynthis, Bezdan, Daniela, Deng, Youping, He, Ding, Dias-Neto, Emmanuel, Elhaik, Eran, Afshin, Evan, Grills, George, Iraola, Gregorio, Suzuki, Haruo, Werner, Johannes, Udekwu, Klas, Schriml, Lynn, Bhattacharyya, Malay, Oliveira, Manuela, Zambrano, Maria Mercedes, Hazrin-Chong, Nur Hazlin, Osuolale, Olayinka, Łabaj, Paweł P., Tiasse, Prisca, Rapuri, Sampath, Borras, Silvia, Pozdniakova, Sofya, Shi, Tieliu, Sezerman, Ugur, Rodo, Xavier, Sezer, Zehra Hazal, Mason, Christopher E., Ryon, Krista A., Tierney, Braden T., Frolova, Alina, Kahles, Andre, Desnues, Christelle, Ouzounis, Christos, Gibas, Cynthis, Bezdan, Daniela, Deng, Youping, He, Ding, Dias-Neto, Emmanuel, Elhaik, Eran, Afshin, Evan, Grills, George, Iraola, Gregorio, Suzuki, Haruo, Werner, Johannes, Udekwu, Klas, Schriml, Lynn, Bhattacharyya, Malay, Oliveira, Manuela, Zambrano, Maria Mercedes, Hazrin-Chong, Nur Hazlin, Osuolale, Olayinka, Łabaj, Paweł P., Tiasse, Prisca, Rapuri, Sampath, Borras, Silvia, Pozdniakova, Sofya, Shi, Tieliu, Sezerman, Ugur, Rodo, Xavier, Sezer, Zehra Hazal, and Mason, Christopher E.
- Abstract
The MetaSUB Consortium, founded in 2015, is a global consortium with an interdisciplinary team of clinicians, scientists, bioinformaticians, engineers, and designers, with members from more than 100 countries across the globe. This network has continually collected samples from urban and rural sites including subways and transit systems, sewage systems, hospitals, and other environmental sampling. These collections have been ongoing since 2015 and have continued when possible, even throughout the COVID-19 pandemic. The consortium has optimized their workflow for the collection, isolation, and sequencing of DNA and RNA collected from these various sites and processing them for metagenomics analysis, including the identification of SARS-CoV-2 and its variants. Here, the Consortium describes its foundations, and its ongoing work to expand on this network and to focus its scope on the mapping, annotation, and prediction of emerging pathogens, mapping microbial evolution and antibiotic resistance, and the discovery of novel organisms and biosynthetic gene clusters.
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- 2022
36. A history of the MetaSUB consortium : Tracking urban microbes around the globe
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Ryon, Krista A., Tierney, Braden T., Frolova, Alina, Kahles, Andre, Desnues, Christelle, Ouzounis, Christos, Gibas, Cynthis, Bezdan, Daniela, Deng, Youping, He, Ding, Dias-Neto, Emmanuel, Elhaik, Eran, Afshin, Evan, Grills, George, Iraola, Gregorio, Suzuki, Haruo, Werner, Johannes, Udekwu, Klas, Schriml, Lynn, Bhattacharyya, Malay, Oliveira, Manuela, Zambrano, Maria Mercedes, Hazrin-Chong, Nur Hazlin, Osuolale, Olayinka, Labaj, Pawel P., Tiasse, Prisca, Rapuri, Sampath, Borras, Silvia, Pozdniakova, Sofya, Shi, Tieliu, Sezerman, Ugur, Rodo, Xavier, Sezer, Zehra Hazal, Mason, Christopher E., Ryon, Krista A., Tierney, Braden T., Frolova, Alina, Kahles, Andre, Desnues, Christelle, Ouzounis, Christos, Gibas, Cynthis, Bezdan, Daniela, Deng, Youping, He, Ding, Dias-Neto, Emmanuel, Elhaik, Eran, Afshin, Evan, Grills, George, Iraola, Gregorio, Suzuki, Haruo, Werner, Johannes, Udekwu, Klas, Schriml, Lynn, Bhattacharyya, Malay, Oliveira, Manuela, Zambrano, Maria Mercedes, Hazrin-Chong, Nur Hazlin, Osuolale, Olayinka, Labaj, Pawel P., Tiasse, Prisca, Rapuri, Sampath, Borras, Silvia, Pozdniakova, Sofya, Shi, Tieliu, Sezerman, Ugur, Rodo, Xavier, Sezer, Zehra Hazal, and Mason, Christopher E.
- Abstract
The MetaSUB Consortium, founded in 2015, is a global consortium with an interdisciplinary team of clinicians, scientists, bioinformaticians, engineers, and designers, with members from more than 100 countries across the globe. This network has continually collected samples from urban and rural sites including subways and transit systems, sewage systems, hospitals, and other environmental sampling. These collections have been ongoing since 2015 and have continued when possible, even throughout the COVID-19 pandemic. The consortium has optimized their workflow for the collection, isolation, and sequencing of DNA and RNA collected from these various sites and processing them for metagenomics analysis, including the identification of SARS-CoV-2 and its variants. Here, the Consortium describes its foundations, and its ongoing work to expand on this network and to focus its scope on the mapping, annotation, and prediction of emerging pathogens, mapping microbial evolution and antibiotic resistance, and the discovery of novel organisms and biosynthetic gene clusters.
- Published
- 2022
- Full Text
- View/download PDF
37. Relationships between SARS-CoV-2 in Wastewater and COVID-19 Clinical Cases and Hospitalizations, with and without Normalization against Indicators of Human Waste
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Zhan, Qingyu, primary, Babler, Kristina M., additional, Sharkey, Mark E., additional, Amirali, Ayaaz, additional, Beaver, Cynthia C., additional, Boone, Melinda M., additional, Comerford, Samuel, additional, Cooper, Daniel, additional, Cortizas, Elena M., additional, Currall, Benjamin B., additional, Foox, Jonathan, additional, Grills, George S., additional, Kobetz, Erin, additional, Kumar, Naresh, additional, Laine, Jennifer, additional, Lamar, Walter E., additional, Mantero, Alejandro M.A., additional, Mason, Christopher E., additional, Reding, Brian D., additional, Robertson, Maria, additional, Roca, Matthew A., additional, Ryon, Krista, additional, Schürer, Stephan C., additional, Shukla, Bhavarth S., additional, Solle, Natasha Schaefer, additional, Stevenson, Mario, additional, Tallon Jr, John J., additional, Thomas, Collette, additional, Thomas, Tori, additional, Vidović, Dušica, additional, Williams, Sion L., additional, Yin, Xue, additional, and Solo-Gabriele, Helena M., additional
- Published
- 2022
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38. Cross-kingdom metagenomic profiling of Lake Hillier reveals pigment-rich polyextremophiles and wide-ranging metabolic adaptations
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Sierra, Maria A., primary, Ryon, Krista A., additional, Tierney, Braden T., additional, Foox, Jonathan, additional, Bhattacharya, Chandrima, additional, Afshin, Evan, additional, Butler, Daniel, additional, Green, Stefan J., additional, Thomas, W. Kelley, additional, Ramsdell, Jordan, additional, Bivens, Nathan J., additional, McGrath, Ken, additional, Mason, Christopher E., additional, and Tighe, Scott W., additional
- Published
- 2022
- Full Text
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39. Additional file 9 of A comprehensive metagenomics framework to characterize organisms relevant for planetary protection
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Danko, David C., Sierra, Maria A., Benardini, James N., Guan, Lisa, Wood, Jason M., Nitin Singh, Seuylemezian, Arman, Butler, Daniel J., Ryon, Krista, Kuchin, Katerina, Meleshko, Dmitry, Bhattacharya, Chandrima, Kasthuri J. Venkateswaran, and Mason, Christopher E.
- Abstract
Additional file 8: Figure S7. Prevalence of species in different categories. Heatmap showing the prevalence (fraction of samples where a taxon is detected) of different taxa across categories. Too many taxa are present to individually name taxa.
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- 2021
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40. Additional file 7 of A comprehensive metagenomics framework to characterize organisms relevant for planetary protection
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Danko, David C., Sierra, Maria A., Benardini, James N., Guan, Lisa, Wood, Jason M., Nitin Singh, Seuylemezian, Arman, Butler, Daniel J., Ryon, Krista, Kuchin, Katerina, Meleshko, Dmitry, Bhattacharya, Chandrima, Kasthuri J. Venkateswaran, and Mason, Christopher E.
- Abstract
Additional file 6: Figure S5. Rarefaction Analysis. The number of unique species detected in multiple samples of the same type. A) Sample sets appear to reach a maximum suggesting that the majority of species have been fully categorized in each category and ISO level. B) number of species detected when individual samples are rarefied to a maximum read count
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- 2021
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41. Additional file of A comprehensive metagenomics framework to characterize organisms relevant for planetary protection
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Danko, David C., Sierra, Maria A., Benardini, James N., Guan, Lisa, Wood, Jason M., Nitin Singh, Seuylemezian, Arman, Butler, Daniel J., Ryon, Krista, Kuchin, Katerina, Meleshko, Dmitry, Bhattacharya, Chandrima, Kasthuri J. Venkateswaran, and Mason, Christopher E.
- Abstract
Additional file of A comprehensive metagenomics framework to characterize organisms relevant for planetary protection
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- 2021
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42. Additional file 2 of A comprehensive metagenomics framework to characterize organisms relevant for planetary protection
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Danko, David C., Sierra, Maria A., Benardini, James N., Guan, Lisa, Wood, Jason M., Nitin Singh, Seuylemezian, Arman, Butler, Daniel J., Ryon, Krista, Kuchin, Katerina, Meleshko, Dmitry, Bhattacharya, Chandrima, Kasthuri J. Venkateswaran, and Mason, Christopher E.
- Abstract
Additional file 1: Table S1. Sample Sets and Categories for JPL Planetary Protection Testing
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- 2021
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43. Additional file 5 of A comprehensive metagenomics framework to characterize organisms relevant for planetary protection
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Danko, David C., Sierra, Maria A., Benardini, James N., Guan, Lisa, Wood, Jason M., Nitin Singh, Seuylemezian, Arman, Butler, Daniel J., Ryon, Krista, Kuchin, Katerina, Meleshko, Dmitry, Bhattacharya, Chandrima, Kasthuri J. Venkateswaran, and Mason, Christopher E.
- Abstract
Additional file 4: Figure S3. Comparison of QC Metrics in cases to controls. We detected 24 species across all control samples after initial filtering. Environmental metagenomic samples are qualitatively similar to samples of laboratory contamination so filtering based on controls is non-trivial. We compared the number of unique marker k-mers found for each taxa in each case sample to the maximum number found in one control (A) and, analogously, the total number of reads (B). We took all taxonomic assignments with a read ratio greater than 2 and a k-mer ratio greater than 5 (C). If a taxonomic assignment met both criteria in at least two samples, it was permitted (red taxa on bottom right) otherwise the taxa was filtered from all assignments (blue taxa on bottom right).
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- 2021
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44. Shotgun Transcriptome and Isothermal Profiling of SARS-CoV-2 Infection Reveals Unique Host Responses, Viral Diversification, and Drug Interactions
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Butler, Daniel J., primary, Mozsary, Christopher, additional, Meydan, Cem, additional, Danko, David, additional, Foox, Jonathan, additional, Rosiene, Joel, additional, Shaiber, Alon, additional, Afshinnekoo, Ebrahim, additional, MacKay, Matthew, additional, Sedlazeck, Fritz J., additional, Ivanov, Nikolay A., additional, Sierra, Maria, additional, Pohle, Diana, additional, Zietz, Michael, additional, Gisladottir, Undina, additional, Ramlall, Vijendra, additional, Westover, Craig D., additional, Ryon, Krista, additional, Young, Benjamin, additional, Bhattacharya, Chandrima, additional, Ruggiero, Phyllis, additional, Langhorst, Bradley W., additional, Tanner, Nathan, additional, Gawrys, Justyna, additional, Meleshko, Dmitry, additional, Xu, Dong, additional, Steel, Peter A. D., additional, Shemesh, Amos J., additional, Xiang, Jenny, additional, Thierry-Mieg, Jean, additional, Thierry-Mieg, Danielle, additional, Schwartz, Robert E., additional, Iftner, Angelika, additional, Bezdan, Daniela, additional, Sipley, John, additional, Cong, Lin, additional, Craney, Arryn, additional, Velu, Priya, additional, Melnick, Ari M., additional, Hajirasouliha, Iman, additional, Horner, Stacy M., additional, Iftner, Thomas, additional, Salvatore, Mirella, additional, Loda, Massimo, additional, Westblade, Lars F., additional, Cushing, Melissa, additional, Levy, Shawn, additional, Wu, Shixiu, additional, Tatonetti, Nicholas, additional, Imielinski, Marcin, additional, Rennert, Hanna, additional, and Mason, Christopher E., additional
- Published
- 2020
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45. The Microbe Directory v2.0: An Expanded Database of Ecological and Phenotypical Features of Microbes
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Sierra, Maria A., primary, Bhattacharya, Chandrima, additional, Ryon, Krista, additional, Meierovich, Sophie, additional, Shaaban, Heba, additional, Westfall, David, additional, Mohammad, Rawhi, additional, Kuchin, Katerina, additional, Afshinnekoo, Ebrahim, additional, Danko, David C., additional, and Mason, Christopher E., additional
- Published
- 2019
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46. Detecting Non-cognitive Features of Prodromal Neurodegenerative Diseases
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Seifan, Alon, primary, Ganzer, Christine A., additional, Ryon, Krista, additional, Lin, Michael, additional, Mahmudur, Rahman, additional, Adolfo, Henriquez, additional, Shih, Cindy, additional, Jacobs, Alan R., additional, Greenwald, Molly, additional, and Isaacson, Richard S., additional
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- 2019
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47. Angiotensin Receptor Blockers and ACE Inhibitors for Migraine Prophylaxis - A Systematic Review (P4.10-014)
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Dorosh, Tara, primary, Ryon, Krista, additional, Ganzer, Christine, additional, and Seifan, Alon, additional
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- 2019
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48. Detecting Non-cognitive Features of Prodromal Neurodegenerative Diseases
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Seifan, Alon, Ganzer, Christine A., Ryon, Krista, Lin, Michael, Mahmudur, Rahman, Adolfo, Henriquez, Shih, Cindy, Jacobs, Alan R., Greenwald, Molly, and Isaacson, Richard S.
- Abstract
Background: Prodromal Neurodegenerative Disease (ND) due to tauopathies such as Alzheimer’s Disease (AD) and Synucleinopathies (SN) such as Parkinson's Disease (PD) and Dementia with Lewy Bodies (DLB) present subtly. Although ND are considered cognitive disorders, in fact ND present with behavioral and even medical symptomatology years to decades prior to the onset of cognitive changes. Recognizing prodromal ND syndromes is a public health priority because ND is common, disabling and expensive. Diagnosing prodromal ND in real world clinical settings is challenging because ND of the same pathology can present with different symptoms in different people. Individual variability in nature and variability in nurture across the life course influence how ND pathology manifests clinically. The objective of this study was to describe how non-cognitive symptoms from behavioral, medical, neurological and psychiatric domains cluster in prodromal and early stages of ND. Methods: This was an observational study of patients receiving routine clinical care for memory disorders. All patients receiving a standardized evaluation including complete neurological history and examination and standardized brief neuropsychological testing. A Principal Component Analysis (PCA) considering emotion, motor, sensory and sleep factors was performed on the entire sample of patients in order to identify co-occurring symptom clusters. All patients received a consensus diagnosis adjudicated by at least two dementia experts. Patients were grouped into Cognitively Normal, Detectable Cognitive Impairment, and Mild Cognitive Impairment categories due to AD and/or PD/LBD or NOS pathology. Symptom cluster scores were compared between clinical diagnostic groups. Results: In this study 165 patients completed baseline neuropsychological testing and reported subjective measures of non-cognitive symptoms. Four syndrome specific symptom factors emerged and eight non-specific symptom factors. Symptoms of personality changes, paranoia, hallucinations, cravings, agitation, and changes in appetite grouped together into a cluster consistent with an "SN Non-motor Phenotype". Appetite, walking, balance, hearing, increased falls, and dandruff grouped together into a cluster consistent with an "SN Motor Phenotype". The Prodromal AD phenotype included symptoms of anxiety, irritability, apathy, sleep disturbance and social isolation. The fourth factor included symptoms of increased sweating, twitching, and tremor grouped into a cluster consistent with an Autonomic phenotype. Conclusion: Non-cognitive features can be reliably measured by self-report in busy clinical settings. Such measurement can be useful in distinguishing patients with different etiologies of ND. Better characterization of unique, prodromal, non-cognitive ND trajectories could improve public health efforts to modify the course of ND for all patients at risk.
- Published
- 2018
49. 56326 Heart to Heart: An Interdisciplinary Community Collaboration to Address Health Disparities Through Cardiovascular Disease Risk Assessments in Underserved Urban Neighborhoods.
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Bales, Michael E., Zhu, Jifeng, Aboharb, Farid, Dusaj, Neville, Shtayer, Lior, Balaji, Venkatesh, Keeler, Allegra, Ganzer, Christine A., Ryon, Krista A., Ehrmann, Brett J., and Imperato-McGinley, Julianne
- Subjects
HEALTH equity ,CARDIOVASCULAR diseases ,CARDIOVASCULAR diseases risk factors ,URBAN health ,MEDICALLY underserved areas ,NEIGHBORHOODS ,RISK assessment - Published
- 2021
- Full Text
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50. Cyanobacteria newly isolated from marine volcanic seeps display rapid sinking and robust, high-density growth.
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Schubert, Max G., Tzu-Chieh Tang, Goodchild-Michelman, Isabella M., Ryon, Krista A., Henriksen, James R., Chavkin, Theodore, Yanqi Wu, Miettinen, Teemu P., Van Wychen, Stefanie, Dahlin, Lukas R., Spatafora, Davide, Turco, Gabriele, Guarnieri, Michael T., Manalis, Scott R., Kowitz, John, Hann, Elizabeth C., Dhir, Raja, Quatrini, Paola, Mason, Christopher E., and Church, George M.
- Subjects
- *
WHOLE genome sequencing , *CARBON sequestration , *CULTURAL maintenance , *MICROBIAL diversity , *CARBON cycle - Abstract
Cyanobacteria are photosynthetic organisms that play important roles in carbon cycling and are promising bioproduction chassis. Here, we isolate two novel cyanobacteria with 4.6Mbp genomes, UTEX 3221 and UTEX 3222, from a unique marine environment with naturally elevated CO₂. We describe complete genome sequences for both isolates and, focusing on UTEX 3222 due to its planktonic growth in liquid, characterize biotechnologically relevant growth and biomass characteristics. UTEX 3222 outpaces other fast-growing model strains on a solid medium. It can double every 2.35 hours in a liquid medium and grows to high density (>31 g/L biomass dry weight) in batch culture, nearly double that of Synechococcus sp. PCC 11901, whose high-density growth was recently reported. In addition, UTEX 3222 sinks readily, settling more quickly than other fast-growing strains, suggesting favorable economics of harvesting UTEX 3222 biomass. These traits may make UTEX 3222 a compelling choice for marine carbon dioxide removal (CDR) and photosynthetic bioproduction from CO₂. Overall, we find that bio-prospecting in environments with naturally elevated CO₂ may uncover novel CO₂-metabolizing organisms with unique characteristics. IMPORTANCE Cyanobacteria provide a potential avenue for both biomanufacturing and combatting climate change via high-efficiency photosynthetic carbon sequestration. This study identifies novel photosynthetic organisms isolated from a unique geochemical environment and describes their genomes, growth behavior in culture, and biochemical composition. These cyanobacteria appear to make a tractable research model, and cultures are made publicly available alongside information about their culture and maintenance. Application of these organisms to carbon sequestration and/or biomanufacturing is discussed, including unusual, rapid settling characteristics of the strains relevant to scaled culture. [ABSTRACT FROM AUTHOR]
- Published
- 2024
- Full Text
- View/download PDF
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