Detection, characterization, and phylogenetic analysis of novel astroviruses from endemic Malagasy fruit bats

Authors: Sophia Horigan, Gwenddolen Kettenburg, Amy Kistler, Hafaliana C. Ranaivoson, Angelo Andrianiaina, Santino Andry, Vololoniaina Raharinosy, Tsiry Hasina Randriambolamanantsoa, Cristina M. Tato, Vincent Lacoste, Jean-Michel Heraud, Philippe Dussart, Cara E. Brook

Source: Virology Journal, Vol 21, Iss 1, Pp 1-13 (2024)

Subject Terms: Infectious and parasitic diseases, RC109-216

File Description: electronic resource

Relation: https://doaj.org/toc/1743-422X

Access URL: https://doaj.org/article/ec2f2699897c45b0b243bd8256d0588f

Correction: Detection, characterization, and phylogenetic analysis of novel astroviruses from endemic Malagasy fruit bats

Authors: Sophia Horigan, Gwenddolen Kettenburg, Amy Kistler, Hafaliana C. Ranaivoson, Angelo Andrianiaina, Santino Andry, Vololoniaina Raharinosy, Tsiry Hasina Randriambolamanantsoa, Cristina M. Tato, Vincent Lacoste, Jean-Michel Heraud, Philippe Dussart, Cara E. Brook

Source: Virology Journal, Vol 21, Iss 1, Pp 1-1 (2024)

Subject Terms: Infectious and parasitic diseases, RC109-216

File Description: electronic resource

Relation: https://doaj.org/toc/1743-422X

Access URL: https://doaj.org/article/4189e67ca9174276a37667822199fffc

Metatranscriptomic investigation of single Ixodes pacificus ticks reveals diverse microbes, viruses, and novel mRNA-like endogenous viral elements

Authors: Calla Martyn, Beth M. Hayes, Domokos Lauko, Edward Midthun, Gloria Castaneda, Angela Bosco-Lauth, Daniel J. Salkeld, Amy Kistler, Katherine S. Pollard, Seemay Chou

Source: mSystems, Vol 9, Iss 6 (2024)

Subject Terms: arthropod vectors, vector-borne disease, metagenomics, endosymbionts, nonhuman microbiome, innate immunity, Microbiology, QR1-502

File Description: electronic resource

Relation: https://doaj.org/toc/2379-5077

Access URL: https://doaj.org/article/8a11399ded7b48e8859de9ca46880ca5

Implementation of California COVIDNet – a multi-sector collaboration for statewide SARS-CoV-2 genomic surveillance

Authors: Debra A. Wadford, Nikki Baumrind, Elizabeth F. Baylis, John M. Bell, Ellen L. Bouchard, Megan Crumpler, Eric M. Foote, Sabrina Gilliam, Carol A. Glaser, Jill K. Hacker, Katya Ledin, Sharon L. Messenger, Christina Morales, Emily A. Smith, Joel R. Sevinsky, Russell B. Corbett-Detig, Joseph DeRisi, Kathleen Jacobson, the COVIDNet Consortium, Summer Adams, Phacharee Arunleung, Matthew Bacinskas, Cynthia Bernas, Ricardo Berumen, Brandon Brown, Teal Bullick, Lyndsey Chaille, Alice Chen, Giorgio Cosentino, Yocelyn Cruz, Nick D’Angelo, Mojgan Deldari, Alex Espinosa, Ambar Espinoza, Shiffen Getabecha, Madeleine Glenn, Bianca Gonzaga, Ydelita Gonzales, Melanie Greengard, Hugo Guevara, Kim Hansard, April Hatada, Monica Haw, Thalia Huynh, Chantha Kath, Paul B. Kimsey, Deidra Lemoine, Ruth Lopez, Blanca Molinar, Samantha Munoz, Robert Nakamura, Nichole Osugi, Tasha Padilla, Chao-Yang Pan, Mayuri V. Panditrao, Chris Preas, Will Probert, Alexa Quintana, Maria Uribe-Fuentes, Mayra Ramirez, Clarence Reyes, Estela Saguar, Maria Salas, Ioana Seritan, Brandon Stavig, Hilary Tamnanchit, Serena Ting, Cindy Wong, Chelsea Wright, Shigeo Yagi, Venice Servellita, Alicia Sotomayor-Gonzalez, Charles Y. Chiu, Isabel Bjork, Joshua Kapp, Anouk van den Bout, Ellen Kephart, Mawadda Alnaeeli, Hau-Ling Poon, Scott Topper, Marzieh Shafii, Sara Sowko, Stephanie Trammell, Erik Wolfsohn, Patrick Ayscue, Amy Kistler, Emily Crawford, Cristina Tato, Valeria Arboledaz, Eleazar Eskin, Laila M. Sathe, Jacek Skarbinski, Abigail Duque, Jeffrey Schapiro, Ivy Yeung, Rama Ghatti, Zahra Shajani-Yi, Jacob M. Garrigues, Nicole Green, Peera Hemarajata, Carlos Anaya, Donna Ferguson, Beatrix Kapuszinsky, Favian Ramirez, Felipe Sta Agueda, Julia Wolfe, David Haussler, Marc Perry, Jakob McBroome, Nhi Duong, Deborah Forester, Anthony Gonzalez, Maria J. Victorio, Anna Liza M. Manlutac, Jeremy Corrigan, Nicholas S. Rhoades, Lina Castro, Godfred Masinde, Harmeet Kaur, Monica Paniagua-Alexander, Katrina G. Erwin, Glen Miller, Frances N. Sidhu, Morris Jones, Sangita Kothari, Christopher Ngo, Brandon Bonin, Daniel Castillo, Rensen Khoshabian, Kristian Andersen, Mark Zeller, Lisa Critchett, Carlos Gonzalez, Iryna V. Goraichuk, Rachel Rees, Frank Ambrosio, Curtis J. Kapsak, Kevin G. Libuit, Michelle R. Scribner, Sage M. Wright, Vanessa B. Cadiz, Denise Lopez, Matthew Rosman, Bryan Bach, Stacia Wyman, Charlotte Acharya, Ryan Davis, Richard Michelmore, Melanie Oakes, Suzanne Sandmeyer, Kathy Borkovich, Clay H. Clark, Holly Clark, Brandon Le, Peter De Hoff, Kristen Jepsen, Rob Knight, Louise C. Laurent, Zack Aralis, Carolina Arias, Varuzhan Balasanyan, Mark Duhon, Xinmin Li, Eric Chow, Nicole Leung, Delsy Martinez, Tyler T. Miyasaki, Ashlee Clow, Jared Hoffman, Thomas Rush

Source: Frontiers in Public Health, Vol 11 (2023)

Subject Terms: SARS-CoV-2, genomic surveillance, COVID-19, whole genome sequencing, cloud-based computing, data management, Public aspects of medicine, RA1-1270

File Description: electronic resource

Relation: https://www.frontiersin.org/articles/10.3389/fpubh.2023.1249614/full; https://doaj.org/toc/2296-2565

Access URL: https://doaj.org/article/70d4419c72944f60bdbb705c74bc8a0f

Deconvoluting complex correlates of COVID-19 severity with a multi-omic pandemic tracking strategy

Authors: Victoria N. Parikh, Alexander G. Ioannidis, David Jimenez-Morales, John E. Gorzynski, Hannah N. De Jong, Xiran Liu, Jonasel Roque, Victoria P. Cepeda-Espinoza, Kazutoyo Osoegawa, Chris Hughes, Shirley C. Sutton, Nathan Youlton, Ruchi Joshi, David Amar, Yosuke Tanigawa, Douglas Russo, Justin Wong, Jessie T. Lauzon, Jacob Edelson, Daniel Mas Montserrat, Yongchan Kwon, Simone Rubinacci, Olivier Delaneau, Lorenzo Cappello, Jaehee Kim, Massa J. Shoura, Archana N. Raja, Nathaniel Watson, Nathan Hammond, Elizabeth Spiteri, Kalyan C. Mallempati, Gonzalo Montero-Martín, Jeffrey Christle, Jennifer Kim, Anna Kirillova, Kinya Seo, Yong Huang, Chunli Zhao, Sonia Moreno-Grau, Steven G. Hershman, Karen P. Dalton, Jimmy Zhen, Jack Kamm, Karan D. Bhatt, Alina Isakova, Maurizio Morri, Thanmayi Ranganath, Catherine A. Blish, Angela J. Rogers, Kari Nadeau, Samuel Yang, Andra Blomkalns, Ruth O’Hara, Norma F. Neff, Christopher DeBoever, Sándor Szalma, Matthew T. Wheeler, Christian M. Gates, Kyle Farh, Gary P. Schroth, Phil Febbo, Francis deSouza, Omar E. Cornejo, Marcelo Fernandez-Vina, Amy Kistler, Julia A. Palacios, Benjamin A. Pinsky, Carlos D. Bustamante, Manuel A. Rivas, Euan A. Ashley

Source: Nature Communications, Vol 13, Iss 1, Pp 1-10 (2022)

Subject Terms: Science

File Description: electronic resource

Relation: https://doaj.org/toc/2041-1723

Access URL: https://doaj.org/article/10002eca5587461185e42393a7dc16a5

Upper airway gene expression shows a more robust adaptive immune response to SARS-CoV-2 in children

Authors: Eran Mick, Alexandra Tsitsiklis, Natasha Spottiswoode, Saharai Caldera, Paula Hayakawa Serpa, Angela M. Detweiler, Norma Neff, Angela Oliveira Pisco, Lucy M. Li, Hanna Retallack, Kalani Ratnasiri, Kayla M. Williamson, Victoria Soesanto, Eric A. F. Simões, Christiana Smith, Lisa Abuogi, Amy Kistler, Brandie D. Wagner, Joseph L. DeRisi, Lilliam Ambroggio, Peter M. Mourani, Charles R. Langelier

Source: Nature Communications, Vol 13, Iss 1, Pp 1-11 (2022)

Subject Terms: Science

File Description: electronic resource

Relation: https://doaj.org/toc/2041-1723

Access URL: https://doaj.org/article/c9e006ab7ba94c9dbbc5609925764a1e

A 2-Gene Host Signature for Improved Accuracy of COVID-19 Diagnosis Agnostic to Viral Variants

Authors: Jack Albright, Eran Mick, Estella Sanchez-Guerrero, Jack Kamm, Anthea Mitchell, Angela M. Detweiler, Norma Neff, Alexandra Tsitsiklis, Paula Hayakawa Serpa, Kalani Ratnasiri, Diane Havlir, Amy Kistler, Joseph L. DeRisi, Angela Oliveira Pisco, Charles R. Langelier

Source: mSystems, Vol 8, Iss 1 (2023)

Subject Terms: COVID-19, diagnostics, classifier, gene expression, metagenomics, transcriptomics, Microbiology, QR1-502

File Description: electronic resource

Relation: https://doaj.org/toc/2379-5077

Access URL: https://doaj.org/article/ecdfa09b3ddd409f8079623dee8daf85

Anti-nucleocapsid antibody levels and pulmonary comorbid conditions are linked to post–COVID-19 syndrome

Authors: Xiaolin Jia, Shu Cao, Alexandra S. Lee, Monali Manohar, Sayantani B. Sindher, Neera Ahuja, Maja Artandi, Catherine A. Blish, Andra L. Blomkalns, Iris Chang, William J. Collins, Manisha Desai, Hena Naz Din, Evan Do, Andrea Fernandes, Linda N. Geng, Yael Rosenberg-Hasson, Megan Ruth Mahoney, Abigail L. Glascock, Lienna Y. Chan, Sharon Y. Fong, CLIAHUB Consortium, Chan Zuckerberg Biohub, Maira Phelps, Olivia Raeber, Stanford COVID-19 Biobank Study Group, Natasha Purington, Katharina Röltgen, Angela J. Rogers, Theo Snow, Taia T. Wang, Daniel Solis, Laura Vaughan, Michelle Verghese, Holden Maecker, Richard Wittman, Rajan Puri, Amy Kistler, Samuel Yang, Scott D. Boyd, Benjamin A. Pinsky, Sharon Chinthrajah, Kari C. Nadeau

Source: JCI Insight, Vol 7, Iss 13 (2022)

Subject Terms: Infectious disease, Medicine

File Description: electronic resource

Relation: https://doaj.org/toc/2379-3708

Access URL: https://doaj.org/article/29fb8b337be04e9387a9661b78bef2c0

Upper airway gene expression reveals suppressed immune responses to SARS-CoV-2 compared with other respiratory viruses

Authors: Eran Mick, Jack Kamm, Angela Oliveira Pisco, Kalani Ratnasiri, Jennifer M. Babik, Gloria Castañeda, Joseph L. DeRisi, Angela M. Detweiler, Samantha L. Hao, Kirsten N. Kangelaris, G. Renuka Kumar, Lucy M. Li, Sabrina A. Mann, Norma Neff, Priya A. Prasad, Paula Hayakawa Serpa, Sachin J. Shah, Natasha Spottiswoode, Michelle Tan, Carolyn S. Calfee, Stephanie A. Christenson, Amy Kistler, Charles Langelier

Source: Nature Communications, Vol 11, Iss 1, Pp 1-7 (2020)

Subject Terms: Science

File Description: electronic resource

Relation: https://doaj.org/toc/2041-1723

Access URL: https://doaj.org/article/408b6cd697fa4ad18907bc9b834782d0

Full Genome Nobecovirus Sequences From Malagasy Fruit Bats Define a Unique Evolutionary History for This Coronavirus Clade

Authors: Gwenddolen Kettenburg, Amy Kistler, Hafaliana Christian Ranaivoson, Vida Ahyong, Angelo Andrianiaina, Santino Andry, Joseph L. DeRisi, Anecia Gentles, Vololoniaina Raharinosy, Tsiry Hasina Randriambolamanantsoa, Ny Anjara Fifi Ravelomanantsoa, Cristina M. Tato, Philippe Dussart, Jean-Michel Heraud, Cara E. Brook

Source: Frontiers in Public Health, Vol 10 (2022)

Subject Terms: Nobecovirus, bat-borne coronavirus, recombination, zoonosis, Madagascar, Public aspects of medicine, RA1-1270

File Description: electronic resource

Relation: https://www.frontiersin.org/articles/10.3389/fpubh.2022.786060/full; https://doaj.org/toc/2296-2565

Access URL: https://doaj.org/article/aa375f1c683844fa904793cd82331ce4

Quantitative reverse transcription PCR assay to detect a genetic marker of pyrethroid resistance in Culex mosquitoes.

Authors: Kelli M Hager, Erick Gaona, Amy Kistler, Kalani Ratnasiri, Hanna Retallack, Miguel Barretto, Sarah S Wheeler, Christopher M Hoover, Eric J Haas-Stapleton

Source: PLoS ONE, Vol 17, Iss 8, p e0252498 (2022)

Subject Terms: Medicine, Science

File Description: electronic resource

Relation: https://doaj.org/toc/1932-6203

Access URL: https://doaj.org/article/0eb22a0ef6c84cb5b8660e4f92b0c1cd

SARS-CoV-2 Infection of Rhesus Macaques Treated Early with Human COVID-19 Convalescent Plasma

Authors: Jesse D. Deere, Timothy D. Carroll, Joseph Dutra, Linda Fritts, Rebecca Lee Sammak, JoAnn L. Yee, Katherine J. Olstad, J. Rachel Reader, Amy Kistler, Jack Kamm, Clara Di Germanio, Yashavanth Shaan Lakshmanappa, Sonny R. Elizaldi, Jamin W. Roh, Graham Simmons, Jennifer Watanabe, Rachel E. Pollard, Jodie Usachenko, Ramya Immareddy, Brian A. Schmidt, Shelby L. O’Connor, Joseph DeRisi, Michael P. Busch, Smita S. Iyer, Koen K. A. Van Rompay, Dennis J. Hartigan-O’Connor, Christopher J. Miller

Source: Microbiology Spectrum, Vol 9, Iss 3 (2021)

Subject Terms: SARS-CoV-2, COVID-19, convalescent plasma, passive immunization, nonhuman primate, animal models of infectious diseases, Microbiology, QR1-502

File Description: electronic resource

Relation: https://doaj.org/toc/2165-0497

Access URL: https://doaj.org/article/3f4d8726ec444ae2af71e04f89a95447

Rapid deployment of SARS-CoV-2 testing: The CLIAHUB.

Authors: Emily D Crawford, Irene Acosta, Vida Ahyong, Erika C Anderson, Shaun Arevalo, Daniel Asarnow, Shannon Axelrod, Patrick Ayscue, Camillia S Azimi, Caleigh M Azumaya, Stefanie Bachl, Iris Bachmutsky, Aparna Bhaduri, Jeremy Bancroft Brown, Joshua Batson, Astrid Behnert, Ryan M Boileau, Saumya R Bollam, Alain R Bonny, David Booth, Michael Jerico B Borja, David Brown, Bryan Buie, Cassandra E Burnett, Lauren E Byrnes, Katelyn A Cabral, Joana P Cabrera, Saharai Caldera, Gabriela Canales, Gloria R Castañeda, Agnes Protacio Chan, Christopher R Chang, Arthur Charles-Orszag, Carly Cheung, Unseng Chio, Eric D Chow, Y Rose Citron, Allison Cohen, Lillian B Cohn, Charles Chiu, Mitchel A Cole, Daniel N Conrad, Angela Constantino, Andrew Cote, Tre'Jon Crayton-Hall, Spyros Darmanis, Angela M Detweiler, Rebekah L Dial, Shen Dong, Elias M Duarte, David Dynerman, Rebecca Egger, Alison Fanton, Stacey M Frumm, Becky Xu Hua Fu, Valentina E Garcia, Julie Garcia, Christina Gladkova, Miriam Goldman, Rafael Gomez-Sjoberg, M Grace Gordon, James C R Grove, Shweta Gupta, Alexis Haddjeri-Hopkins, Pierce Hadley, John Haliburton, Samantha L Hao, George Hartoularos, Nadia Herrera, Melissa Hilberg, Kit Ying E Ho, Nicholas Hoppe, Shayan Hosseinzadeh, Conor J Howard, Jeffrey A Hussmann, Elizabeth Hwang, Danielle Ingebrigtsen, Julia R Jackson, Ziad M Jowhar, Danielle Kain, James Y S Kim, Amy Kistler, Oriana Kreutzfeld, Jessie Kulsuptrakul, Andrew F Kung, Charles Langelier, Matthew T Laurie, Lena Lee, Kun Leng, Kristoffer E Leon, Manuel D Leonetti, Sophia R Levan, Sam Li, Aileen W Li, Jamin Liu, Heidi S Lubin, Amy Lyden, Jennifer Mann, Sabrina Mann, Gorica Margulis, Diana M Marquez, Bryan P Marsh, Calla Martyn, Elizabeth E McCarthy, Aaron McGeever, Alexander F Merriman, Lauren K Meyer, Steve Miller, Megan K Moore, Cody T Mowery, Tanzila Mukhtar, Lusajo L Mwakibete, Noelle Narez, Norma F Neff, Lindsay A Osso, Diter Oviedo, Suping Peng, Maira Phelps, Kiet Phong, Peter Picard, Lindsey M Pieper, Neha Pincha, Angela Oliveira Pisco, Angela Pogson, Sergei Pourmal, Robert R Puccinelli, Andreas S Puschnik, Elze Rackaityte, Preethi Raghavan, Madhura Raghavan, James Reese, Joseph M Replogle, Hanna Retallack, Helen Reyes, Donald Rose, Marci F Rosenberg, Estella Sanchez-Guerrero, Sydney M Sattler, Laura Savy, Stephanie K See, Kristin K Sellers, Paula Hayakawa Serpa, Maureen Sheehy, Jonathan Sheu, Sukrit Silas, Jessica A Streithorst, Jack Strickland, Doug Stryke, Sara Sunshine, Peter Suslow, Renaldo Sutanto, Serena Tamura, Michelle Tan, Jiongyi Tan, Alice Tang, Cristina M Tato, Jack C Taylor, Iliana Tenvooren, Erin M Thompson, Edward C Thornborrow, Eric Tse, Tony Tung, Marc L Turner, Victoria S Turner, Rigney E Turnham, Mary J Turocy, Trisha V Vaidyanathan, Ilia D Vainchtein, Manu Vanaerschot, Sara E Vazquez, Anica M Wandler, Anne Wapniarski, James T Webber, Zara Y Weinberg, Alexandra Westbrook, Allison W Wong, Emily Wong, Gajus Worthington, Fang Xie, Albert Xu, Terrina Yamamoto, Ying Yang, Fauna Yarza, Yefim Zaltsman, Tina Zheng, Joseph L DeRisi

Source: PLoS Pathogens, Vol 16, Iss 10, p e1008966 (2020)

Subject Terms: Immunologic diseases. Allergy, RC581-607, Biology (General), QH301-705.5

File Description: electronic resource

Relation: https://doaj.org/toc/1553-7366; https://doaj.org/toc/1553-7374

Access URL: https://doaj.org/article/3bbb68a359bd42bc9db996dc6d89e140

Clinical features, diagnostics, and outcomes of patients presenting with acute respiratory illness: A retrospective cohort study of patients with and without COVID-19

Authors: Sachin J. Shah, Peter N. Barish, Priya A. Prasad, Amy Kistler, Norma Neff, Jack Kamm, Lucy M. Li, Charles Y. Chiu, Jennifer M. Babik, Margaret C. Fang, Yumiko Abe-Jones, Narges Alipanah, Francisco N. Alvarez, Olga Borisovna Botvinnik, Gloria Castaneda, Rand M. Dadasovich, Jennifer Davis, Xianding Deng, Joseph L. DeRisi, Angela M. Detweiler, Scot Federman, John Haliburton, Samantha Hao, Andrew D. Kerkhoff, G. Renuka Kumar, Katherine B. Malcolm, Sabrina A. Mann, Sandra Martinez, Rupa K. Mary, Eran Mick, Lusajo Mwakibete, Nader Najafi, Michael J. Peluso, Maira Phelps, Angela Oliveira Pisco, Kalani Ratnasiri, Luis A. Rubio, Anna Sellas, Kyla D. Sherwood, Jonathan Sheu, Natasha Spottiswoode, Michelle Tan, Guixia Yu, Kirsten Neudoerffer Kangelaris, Charles Langelier

Source: EClinicalMedicine, Vol 27, Iss , Pp 100518- (2020)

Subject Terms: Medicine (General), R5-920

File Description: electronic resource

Relation: http://www.sciencedirect.com/science/article/pii/S2589537020302625; https://doaj.org/toc/2589-5370

Access URL: https://doaj.org/article/2d343b2b38d34defb7023809f69ef7d7

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