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Your search keyword '"Knapp, Jennifer J."' showing total 11 results
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11 results on '"Knapp, Jennifer J."'

1. Genomic surveillance of Canadian airport wastewater samples allows early detection of emerging SARS-CoV-2 lineages

Author

Overton, Alyssa K., Knapp, Jennifer J., Lawal, Opeyemi U., Gibson, Richard, Fedynak, Anastasia A., Adebiyi, Adebowale I., Maxwell, Brittany, Cheng, Lydia, Bee, Carina, Qasim, Asim, Atanas, Kyle, Payne, Mark, Stuart, Rebecca, Fleury, Manon D., Knox, Natalie C., Nash, Delaney, Hungwe, Yemurayi C., Prasla, Samran R., Ho, Hannifer, Agboola, Simininuoluwa O., Kwon, Su-Hyun, Naik, Shiv, Parreira, Valeria R., Rizvi, Fozia, Precious, Melinda J., Thomas, Steven, Zambrano, Marcos, Fang, Vixey, Gilliland, Elaine, Varia, Monali, Horn, Maureen, Landgraff, Chrystal, Arts, Eric J., Goodridge, Lawrence, Becker, Devan, and Charles, Trevor C.

Published
2024
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4. Next-generation large-scale binary protein interaction network for Drosophila melanogaster

Author

Tang, Hong-Wen, Spirohn, Kerstin, Hu, Yanhui, Hao, Tong, Kovács, István A., Gao, Yue, Binari, Richard, Yang-Zhou, Donghui, Wan, Kenneth H., Bader, Joel S., Balcha, Dawit, Bian, Wenting, Booth, Benjamin W., Coté, Atina G., de Rouck, Steffi, Desbuleux, Alice, Goh, Kah Yong, Kim, Dae-Kyum, Knapp, Jennifer J., Lee, Wen Xing, Lemmens, Irma, Li, Cathleen, Li, Mian, Li, Roujia, Lim, Hyobin Julianne, Liu, Yifang, Luck, Katja, Markey, Dylan, Pollis, Carl, Rangarajan, Sudharshan, Rodiger, Jonathan, Schlabach, Sadie, Shen, Yun, Sheykhkarimli, Dayag, TeeKing, Bridget, Roth, Frederick P., Tavernier, Jan, Calderwood, Michael A., Hill, David E., Celniker, Susan E., Vidal, Marc, Perrimon, Norbert, and Mohr, Stephanie E.

Published
2023
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5. A proteome-scale map of the SARS-CoV-2–human contactome

Author

Kim, Dae-Kyum, Weller, Benjamin, Lin, Chung-Wen, Sheykhkarimli, Dayag, Knapp, Jennifer J., Dugied, Guillaume, Zanzoni, Andreas, Pons, Carles, Tofaute, Marie J., Maseko, Sibusiso B., Spirohn, Kerstin, Laval, Florent, Lambourne, Luke, Kishore, Nishka, Rayhan, Ashyad, Sauer, Mayra, Young, Veronika, Halder, Hridi, la Rosa, Nora Marín-de, Pogoutse, Oxana, Strobel, Alexandra, Schwehn, Patrick, Li, Roujia, Rothballer, Simin T., Altmann, Melina, Cassonnet, Patricia, Coté, Atina G., Vergara, Lena Elorduy, Hazelwood, Isaiah, Liu, Betty B., Nguyen, Maria, Pandiarajan, Ramakrishnan, Dohai, Bushra, Coloma, Patricia A. Rodriguez, Poirson, Juline, Giuliana, Paolo, Willems, Luc, Taipale, Mikko, Jacob, Yves, Hao, Tong, Hill, David E., Brun, Christine, Twizere, Jean-Claude, Krappmann, Daniel, Heinig, Matthias, Falter, Claudia, Aloy, Patrick, Demeret, Caroline, Vidal, Marc, Calderwood, Michael A., Roth, Frederick P., and Falter-Braun, Pascal

Published
2023
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6. A reference map of the human binary protein interactome

Author

Luck, Katja, Kim, Dae-Kyum, Lambourne, Luke, Spirohn, Kerstin, Begg, Bridget E., Bian, Wenting, Brignall, Ruth, Cafarelli, Tiziana, Campos-Laborie, Francisco J., Charloteaux, Benoit, Choi, Dongsic, Coté, Atina G., Daley, Meaghan, Deimling, Steven, Desbuleux, Alice, Dricot, Amélie, Gebbia, Marinella, Hardy, Madeleine F., Kishore, Nishka, Knapp, Jennifer J., Kovács, István A., Lemmens, Irma, Mee, Miles W., Mellor, Joseph C., Pollis, Carl, Pons, Carles, Richardson, Aaron D., Schlabach, Sadie, Teeking, Bridget, Yadav, Anupama, Babor, Mariana, Balcha, Dawit, Basha, Omer, Bowman-Colin, Christian, Chin, Suet-Feung, Choi, Soon Gang, Colabella, Claudia, Coppin, Georges, D’Amata, Cassandra, De Ridder, David, De Rouck, Steffi, Duran-Frigola, Miquel, Ennajdaoui, Hanane, Goebels, Florian, Goehring, Liana, Gopal, Anjali, Haddad, Ghazal, Hatchi, Elodie, Helmy, Mohamed, Jacob, Yves, Kassa, Yoseph, Landini, Serena, Li, Roujia, van Lieshout, Natascha, MacWilliams, Andrew, Markey, Dylan, Paulson, Joseph N., Rangarajan, Sudharshan, Rasla, John, Rayhan, Ashyad, Rolland, Thomas, San-Miguel, Adriana, Shen, Yun, Sheykhkarimli, Dayag, Sheynkman, Gloria M., Simonovsky, Eyal, Taşan, Murat, Tejeda, Alexander, Tropepe, Vincent, Twizere, Jean-Claude, Wang, Yang, Weatheritt, Robert J., Weile, Jochen, Xia, Yu, Yang, Xinping, Yeger-Lotem, Esti, Zhong, Quan, Aloy, Patrick, Bader, Gary D., De Las Rivas, Javier, Gaudet, Suzanne, Hao, Tong, Rak, Janusz, Tavernier, Jan, Hill, David E., Vidal, Marc, Roth, Frederick P., and Calderwood, Michael A.

Published
2020
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7. A Novel Tiled Amplicon Sequencing Assay Targeting the Tomato Brown Rugose Fruit Virus (ToBRFV) Genome Reveals Widespread Distribution in Municipal Wastewater Treatment Systems in the Province of Ontario, Canada.

Author

Nash, Delaney, Ellmen, Isaac, Knapp, Jennifer J., Menon, Ria, Overton, Alyssa K., Cheng, Jiujun, Lynch, Michael D. J., Nissimov, Jozef I., and Charles, Trevor C.

Subjects
WASTEWATER treatment, TOMATOES, FRUIT, PHYTOPATHOGENIC microorganisms, CROP yields, GENOMES
Abstract

Tomato Brown Rugose Fruit Virus (ToBRFV) is a plant pathogen that infects important Solanaceae crop species and can dramatically reduce tomato crop yields. The ToBRFV has rapidly spread around the globe due to its ability to escape detection by antiviral host genes which confer resistance to other tobamoviruses in tomato plants. The development of robust and reproducible methods for detecting viruses in the environment aids in the tracking and reduction of pathogen transmission. We detected ToBRFV in municipal wastewater influent (WWI) samples, likely due to its presence in human waste, demonstrating a widespread distribution of ToBRFV in WWI throughout Ontario, Canada. To aid in global ToBRFV surveillance efforts, we developed a tiled amplicon approach to sequence and track the evolution of ToBRFV genomes in municipal WWI. Our assay recovers 95.7% of the 6393 bp ToBRFV RefSeq genome, omitting the terminal 5′ and 3′ ends. We demonstrate that our sequencing assay is a robust, sensitive, and highly specific method for recovering ToBRFV genomes. Our ToBRFV assay was developed using existing ARTIC Network resources, including primer design, sequencing library prep, and read analysis. Additionally, we adapted our lineage abundance estimation tool, Alcov, to estimate the abundance of ToBRFV clades in samples. [ABSTRACT FROM AUTHOR]

Published
2024
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8. Pooled‐matrix protein interaction screens using Barcode Fusion Genetics

Author

Yachie, Nozomu, Petsalaki, Evangelia, Mellor, Joseph C, Weile, Jochen, Jacob, Yves, Verby, Marta, Ozturk, Sedide B, Li, Siyang, Cote, Atina G, Mosca, Roberto, Knapp, Jennifer J, Ko, Minjeong, Yu, Analyn, Gebbia, Marinella, Sahni, Nidhi, Yi, Song, Tyagi, Tanya, Sheykhkarimli, Dayag, Roth, Jonathan F, Wong, Cassandra, Musa, Louai, Snider, Jamie, Liu, Yi‐Chun, Yu, Haiyuan, Braun, Pascal, Stagljar, Igor, Hao, Tong, Calderwood, Michael A, Pelletier, Laurence, Aloy, Patrick, Hill, David E, Vidal, Marc, and Roth, Frederick P

Published
2016
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10. A Comprehensive, Flexible Collection of SARS-CoV-2 Coding Regions.

Author

Kim, Dae-Kyum, Knapp, Jennifer J., Da Kuang, Chawla, Aditya, Cassonnet, Patricia, Hunsang Lee, Sheykhkarimli, Dayag, Samavarchi-Tehrani, Payman, Abdouni, Hala, Rayhan, Ashyad, Roujia Li, Pogoutse, Oxana, Coyaud, Étienne, der Werf, Sylvie van, Demeret, Caroline, Gingras, Anne-Claude, Taipale, Mikko, Raught, Brian, Jacob, Yves, and Roth, Frederick P.

Subjects
*SARS-CoV-2, *COVID-19 pandemic
Abstract

The world is facing a global pandemic of COVID-19 caused by the SARS-CoV-2 coronavirus. Here we describe a collection of codon-optimized coding sequences for SARS-CoV-2 cloned into Gateway-compatible entry vectors, which enable rapid transfer into a variety of expression and tagging vectors. The collection is freely available. We hope that widespread availability of this SARS-CoV-2 resource will enable many subsequent molecular studies to better understand the viral life cycle and how to block it. [ABSTRACT FROM AUTHOR]

Published
2020
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11. A resource of human coronavirus protein-coding sequences in a flexible, multipurpose Gateway Entry clone collection.

Author

Weller, Benjamin, Chung-Wen Lin, Pogoutse, Oxana, Sauer, Mayra, la Rosa, Nora Marin-de, Strobel, Alexandra, Young, Veronika, Knapp, Jennifer J., Rayhan, Ashyad, Falter, Claudia, Dae-Kyum Kim, Roth, Frederick P., and Falter-Braun, Pascal

Subjects
*CORONAVIRUSES, *MOLECULAR cloning, *CORONAVIRUS diseases, *VIROLOGY, *COVID-19, *SARS-CoV-2
Abstract

The COVID-19 pandemic has catalyzed unprecedented scientific data and reagent sharing and collaboration, which enabled understanding the virology of the SARS-CoV-2 virus and vaccine development at record speed. The pandemic, however, has also raised awareness of the danger posed by the family of coronaviruses, of which 7 are known to infect humans and dozens have been identified in reservoir species, such as bats, rodents, or livestock. To facilitate understanding the commonalities and specifics of coronavirus infections and aspects of viral biology that determine their level of lethality to the human host, we have generated a collection of freely available clones encoding nearly all human coronavirus proteins known to date. We hope that this flexible, Gateway-compatible vector collection will encourage further research into the interactions of coronaviruses with their human host, to increase preparedness for future zoonotic viral outbreaks. [ABSTRACT FROM AUTHOR]

Published
2023
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