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15 results on '"Koch, Robert T."'

1. Travel surveillance uncovers dengue virus dynamics and introductions in the Caribbean

Author

Taylor-Salmon, Emma, Hill, Verity, Paul, Lauren M., Koch, Robert T., Breban, Mallery I., Chaguza, Chrispin, Sodeinde, Afeez, Warren, Joshua L., Bunch, Sylvia, Cano, Natalia, Cone, Marshall, Eysoldt, Sarah, Garcia, Alezaundra, Gilles, Nicadia, Hagy, Andrew, Heberlein, Lea, Jaber, Rayah, Kassens, Elizabeth, Colarusso, Pamela, Davis, Amanda, Baudin, Samantha, Rico, Edhelene, Mejía-Echeverri, Álvaro, Scott, Blake, Stanek, Danielle, Zimler, Rebecca, Muñoz-Jordán, Jorge L., Santiago, Gilberto A., Adams, Laura E., Paz-Bailey, Gabriela, Spillane, Melanie, Katebi, Volha, Paulino-Ramírez, Robert, Mueses, Sayira, Peguero, Armando, Sánchez, Nelissa, Norman, Francesca F., Galán, Juan-Carlos, Huits, Ralph, Hamer, Davidson H., Vogels, Chantal B. F., Morrison, Andrea, Michael, Scott F., and Grubaugh, Nathan D.

Published
2024
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2. Survey of white-footed mice (Peromyscus leucopus) in Connecticut, USA reveals low SARS-CoV-2 seroprevalence and infection with divergent betacoronaviruses

Author

Earnest, Rebecca, Hahn, Anne M., Feriancek, Nicole M., Brandt, Matthew, Filler, Renata B., Zhao, Zhe, Breban, Mallery I., Vogels, Chantal B. F., Chen, Nicholas F. G., Koch, Robert T., Porzucek, Abbey J., Sodeinde, Afeez, Garbiel, Alexa, Keanna, Claire, Litwak, Hannah, Stuber, Heidi R., Cantoni, Jamie L., Pitzer, Virginia E., Olarte Castillo, Ximena A., Goodman, Laura B., Wilen, Craig B., Linske, Megan A., Williams, Scott C., and Grubaugh, Nathan D.

Published
2023
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3. Dynamics of eastern equine encephalitis virus during the 2019 outbreak in the Northeast United States

Author

Hill, Verity, Koch, Robert T., Bialosuknia, Sean M., Ngo, Kiet, Zink, Steven D., Koetzner, Cheri A., Maffei, Joseph G., Dupuis, Alan P., Backenson, P. Bryon, Oliver, JoAnne, Bransfield, Angela B., Misencik, Michael J., Petruff, Tanya A., Shepard, John J., Warren, Joshua L., Gill, Mandev S., Baele, Guy, Vogels, Chantal B.F., Gallagher, Glen, Burns, Paul, Hentoff, Aaron, Smole, Sandra, Brown, Catherine, Osborne, Matthew, Kramer, Laura D., Armstrong, Philip M., Ciota, Alexander T., and Grubaugh, Nathan D.

Published
2023
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4. Travel surveillance uncovers dengue virus dynamics and introductions in the Caribbean

Author

Taylor-Salmon, Emma, primary, Hill, Verity, additional, Paul, Lauren M., additional, Koch, Robert T., additional, Breban, Mallery I., additional, Chaguza, Chrispin, additional, Sodeinde, Afeez, additional, Warren, Joshua L., additional, Bunch, Sylvia, additional, Cano, Natalia, additional, Cone, Marshall, additional, Eysoldt, Sarah, additional, Garcia, Alezaundra, additional, Gilles, Nicadia, additional, Hagy, Andrew, additional, Heberlein, Lea, additional, Jaber, Rayah, additional, Kassens, Elizabeth, additional, Colarusso, Pamela, additional, Davis, Amanda, additional, Baudin, Samantha, additional, Rico, Edhelene, additional, Mejia-Echeverri, Alvaro, additional, Scott, Blake, additional, Stanek, Danielle, additional, Zimler, Rebecca, additional, Munoz-Jordan, Jorge L., additional, Santiago, Gilberto A., additional, Adams, Laura E., additional, Paz-Bailey, Gabriela, additional, Spillane, Melanie, additional, Katebi, Volha, additional, Paulino-Ramirez, Robert, additional, Mueses, Sayira, additional, Peguero, Armando, additional, Sanchez, Nelissa, additional, Norman, Francesca F., additional, Galan, Juan-Carlos Galan, additional, Huits, Ralph Huits, additional, Hamer, Davidison H., additional, Vogels, Chantal B.F., additional, Morrison, Andrea Morrison, additional, Michael, Scott F., additional, and Grubaugh, Nathan D., additional

Published
2023
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5. Survey of white-footed mice in Connecticut, USA reveals low SARS-CoV-2 seroprevalence and infection with divergent betacoronaviruses

Author

Earnest, Rebecca, primary, Hahn, Anne M., additional, Feriancek, Nicole M., additional, Brandt, Matthew, additional, Filler, Renata B., additional, Zhao, Zhe, additional, Breban, Mallery I., additional, Vogels, Chantal B.F., additional, Chen, Nicholas F.G., additional, Koch, Robert T., additional, Porzucek, Abbey J., additional, Sodeinde, Afeez, additional, Garbiel, Alexa, additional, Keanna, Claire, additional, Litwak, Hannah, additional, Stuber, Heidi R., additional, Cantoni, Jamie L., additional, Pitzer, Virginia E., additional, Olarte Castillo, Ximena A., additional, Goodman, Laura B., additional, Wilen, Craig B., additional, Linske, Megan A., additional, Williams, Scott C., additional, and Grubaugh, Nathan D., additional

Published
2023
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6. Dynamics of Eastern equine encephalitis virus during the 2019 outbreak in the Northeast United States

Author

Hill, Verity, primary, Koch, Robert T., additional, Bialosuknia, Sean M., additional, Ngo, Kiet, additional, Zink, Steven D., additional, Koetzner, Cheri A., additional, Maffei, Joseph G., additional, Dupuis, Alan P., additional, Backenson, P. Bryon, additional, Oliver, JoAnne, additional, Bransfield, Angela B., additional, Misencik, Michael J., additional, Petruff, Tanya A., additional, Shepard, John J., additional, Warren, Joshua L., additional, Gill, Mandev S., additional, Baele, Guy, additional, Vogels, Chantal B.F., additional, Gallagher, Glen, additional, Burns, Paul, additional, Hentoff, Aaron, additional, Smole, Sandra, additional, Brown, Catherine, additional, Osborne, Matthew, additional, Kramer, Laura D., additional, Armstrong, Philip M., additional, Ciota, Alexander T., additional, and Grubaugh, Nathan D., additional

Published
2023
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12. Travel surveillance uncovers dengue virus dynamics and introductions in the Caribbean.

Author

Taylor-Salmon E, Hill V, Paul LM, Koch RT, Breban MI, Chaguza C, Sodeinde A, Warren JL, Bunch S, Cano N, Cone M, Eysoldt S, Garcia A, Gilles N, Hagy A, Heberlein L, Jaber R, Kassens E, Colarusso P, Davis A, Baudin S, Rico E, Mejía-Echeverri Á, Scott B, Stanek D, Zimler R, Muñoz-Jordán JL, Santiago GA, Adams LE, Paz-Bailey G, Spillane M, Katebi V, Paulino-Ramírez R, Mueses S, Peguero A, Sánchez N, Norman FF, Galán JC, Huits R, Hamer DH, Vogels CBF, Morrison A, Michael SF, and Grubaugh ND

Abstract

Dengue is the most prevalent mosquito-borne viral disease in humans, and cases are continuing to rise globally. In particular, islands in the Caribbean have experienced more frequent outbreaks, and all four dengue virus (DENV) serotypes have been reported in the region, leading to hyperendemicity and increased rates of severe disease. However, there is significant variability regarding virus surveillance and reporting between islands, making it difficult to obtain an accurate understanding of the epidemiological patterns in the Caribbean. To investigate this, we used travel surveillance and genomic epidemiology to reconstruct outbreak dynamics, DENV serotype turnover, and patterns of spread within the region from 2009-2022. We uncovered two recent DENV-3 introductions from Asia, one of which resulted in a large outbreak in Cuba, which was previously under-reported. We also show that while outbreaks can be synchronized between islands, they are often caused by different serotypes. Our study highlights the importance of surveillance of infected travelers to provide a snapshot of local introductions and transmission in areas with limited local surveillance and suggests that the recent DENV-3 introductions may pose a major public health threat in the region.

Published
2023
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13. Survey of white-footed mice in Connecticut, USA reveals low SARS-CoV-2 seroprevalence and infection with divergent betacoronaviruses.

Author

Earnest R, Hahn AM, Feriancek NM, Brandt M, Filler RB, Zhao Z, Breban MI, Vogels CBF, Chen NFG, Koch RT, Porzucek AJ, Sodeinde A, Garbiel A, Keanna C, Litwak H, Stuber HR, Cantoni JL, Pitzer VE, Olarte Castillo XA, Goodman LB, Wilen CB, Linske MA, Williams SC, and Grubaugh ND

Abstract

Diverse mammalian species display susceptibility to and infection with SARS-CoV-2. Potential SARS-CoV-2 spillback into rodents is understudied despite their host role for numerous zoonoses and human proximity. We assessed exposure and infection among white-footed mice ( Peromyscus leucopus ) in Connecticut, USA. We observed 1% (6/540) wild-type neutralizing antibody seroprevalence among 2020-2022 residential mice with no cross-neutralization of variants. We detected no SARS-CoV-2 infections via RT-qPCR, but identified non-SARS-CoV-2 betacoronavirus infections via pan-coronavirus PCR among 1% (5/468) of residential mice. Sequencing revealed two divergent betacoronaviruses, preliminarily named Peromyscus coronavirus-1 and - 2 . Both belong to the Betacoronavirus 1 species and are ~90% identical to the closest known relative, Porcine hemagglutinating encephalomyelitis virus . Low SARS-CoV-2 seroprevalence suggests white-footed mice may not be sufficiently susceptible or exposed to SARS-CoV-2 to present a long-term human health risk. However, the discovery of divergent, non-SARS-CoV-2 betacoronaviruses expands the diversity of known rodent coronaviruses and further investigation is required to understand their transmission extent.

Published
2023
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14. Dynamics of Eastern equine encephalitis virus during the 2019 outbreak in the Northeast United States.

Author

Hill V, Koch RT, Bialosuknia SM, Ngo K, Zink SD, Koetzner CA, Maffei JG, Dupuis AP, Backenson PB, Oliver J, Bransfield AB, Misencik MJ, Petruff TA, Shepard JJ, Warren JL, Gill MS, Baele G, Vogels CBF, Gallagher G, Burns P, Hentoff A, Smole S, Brown C, Osborne M, Kramer LD, Armstrong PM, Ciota AT, and Grubaugh ND

Abstract

Eastern equine encephalitis virus (EEEV) causes a rare but severe disease in horses and humans, and is maintained in an enzootic transmission cycle between songbirds and Culiseta melanura mosquitoes. In 2019, the largest EEEV outbreak in the United States for more than 50 years occurred, centered in the Northeast. To explore the dynamics of the outbreak, we sequenced 80 isolates of EEEV and combined them with existing genomic data. We found that, like previous years, cases were driven by frequent short-lived virus introductions into the Northeast from Florida. Once in the Northeast, we found that Massachusetts was important for regional spread. We found no evidence of any changes in viral, human, or bird factors which would explain the increase in cases in 2019. By using detailed mosquito surveillance data collected by Massachusetts and Connecticut, however, we found that the abundance of Cs. melanura was exceptionally high in 2019, as was the EEEV infection rate. We employed these mosquito data to build a negative binomial regression model and applied it to estimate early season risks of human or horse cases. We found that the month of first detection of EEEV in mosquito surveillance data and vector index (abundance multiplied by infection rate) were predictive of cases later in the season. We therefore highlight the importance of mosquito surveillance programs as an integral part of public health and disease control.

Published
2023
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15. Partial ORF1ab Gene Target Failure with Omicron BA.2.12.1.

Author

Rodino KG, Peaper DR, Kelly BJ, Bushman F, Marques A, Adhikari H, Tu ZJ, Marrero Rolon R, Westblade LF, Green DA, Berry GJ, Wu F, Annavajhala MK, Uhlemann AC, Parikh BA, McMillen T, Jani K, Babady NE, Hahn AM, Koch RT, Grubaugh ND, and Rhoads DD

Subjects
Base Sequence, Humans, Mutation, COVID-19, SARS-CoV-2 genetics
Abstract

Mutations in the genome of SARS-CoV-2 can affect the performance of molecular diagnostic assays. In some cases, such as S-gene target failure, the impact can serve as a unique indicator of a particular SARS-CoV-2 variant and provide a method for rapid detection. Here, we describe partial ORF1ab gene target failure (pOGTF) on the cobas SARS-CoV-2 assays, defined by a ≥2-thermocycle delay in detection of the ORF1ab gene compared to that of the E-gene. We demonstrate that pOGTF is 98.6% sensitive and 99.9% specific for SARS-CoV-2 lineage BA.2.12.1, an emerging variant in the United States with spike L452Q and S704L mutations that may affect transmission, infectivity, and/or immune evasion. Increasing rates of pOGTF closely mirrored rates of BA.2.12.1 sequences uploaded to public databases, and, importantly, increasing local rates of pOGTF also mirrored increasing overall test positivity. Use of pOGTF as a proxy for BA.2.12.1 provides faster tracking of the variant than whole-genome sequencing and can benefit laboratories without sequencing capabilities.

Published
2022
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