Trajectory of Growth of Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2) Variants in Houston, Texas, January through May 2021, Based on 12,476 Genome Sequences.
Randall J. Olsen,Randall J. Olsen,Paul A. Christensen,S. Wesley Long,S. Wesley Long,Sishir Subedi,Parsa Hodjat,Robert Olson,Robert Olson,Marcus Nguyen,Marcus Nguyen,James J. Davis,James J. Davis,Prasanti Yerramilli,Matthew Ojeda Saavedra,Layne Pruitt,Kristina Reppond,Madison N. Shyer,Jessica Cambric,Ryan Gadd,Rashi M. Thakur,Akanksha Batajoo,Ilya J. Finkelstein,Jimmy Gollihar,Jimmy Gollihar,James M. Musser,James M. Musser +26 more
Reads0
Chats0
TLDR
In this article, the trajectory of SARS-CoV2 variants circulating in a major metropolitan area, documents B.1.7 as the major cause of new cases in Houston, TX, and heralds the arrival of B.617 variants in the metroplex.Abstract:
Certain genetic variants of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) are of substantial concern because they may be more transmissible or detrimentally alter the pandemic course and disease features in individual patients. SARS-CoV-2 genome sequences from 12,476 patients in the Houston Methodist health care system diagnosed from January 1 through May 31, 2021 are reported here. Prevalence of the B.1.1.7 (Alpha) variant increased rapidly and caused 63% to 90% of new cases in the latter half of May. Eleven B.1.1.7 genomes had an E484K replacement in spike protein, a change also identified in other SARS-CoV-2 lineages. Compared with non-B.1.1.7-infected patients, individuals with B.1.1.7 had a significantly lower cycle threshold (a proxy for higher virus load) and significantly higher hospitalization rate. Other variants [eg, B.1.429 and B.1.427 (Epsilon), P.1 (Gamma), P.2 (Zeta), and R.1] also increased rapidly, although the magnitude was less than that in B.1.1.7. Twenty-two patients infected with B.1.617.1 (Kappa) or B.1.617.2 (Delta) variants had a high rate of hospitalization. Breakthrough cases (n = 207) in fully vaccinated patients were caused by a heterogeneous array of virus genotypes, including many not currently designated variants of interest or concern. In the aggregate, this study delineates the trajectory of SARS-CoV-2 variants circulating in a major metropolitan area, documents B.1.1.7 as the major cause of new cases in Houston, TX, and heralds the arrival of B.1.617 variants in the metroplex.read more
Citations
More filters
Journal ArticleDOI
Signals of Significantly Increased Vaccine Breakthrough, Decreased Hospitalization Rates, and Less Severe Disease in Patients with Coronavirus Disease 2019 Caused by the Omicron Variant of Severe Acute Respiratory Syndrome Coronavirus 2 in Houston, Texas
Paul A. Christensen,Randall J. Olsen,S. Wesley Long,R. D. Snehal,James J. Davis,Matthew Ojeda Saavedra,K. Reppond,Madison N. Shyer,Jessica E. Cambric,Ryan D. H. Gadd,R. M. Thakur,A. Batajoo,R. Mangham,S Silva Peña,Tri Quang Trinh,Jacob C. Kinskey,Guy Williams,Robert Olson,Jimmy Gollihar,James M. Musser +19 more
TL;DR: In this article , a genome sequencing study of SARS-CoV-2 in the Houston Methodist health care system identified 4468 symptomatic patients with infections caused by Omicron (B.1.529) from late November 2021 through January 5, 2022.
Journal ArticleDOI
Multiple spillovers from humans and onward transmission of SARS-CoV-2 in white-tailed deer
Suresh V. Kuchipudi,Meera Surendran-Nair,Rachel Ruden,Michèle Gan Yon,Ruth H. Nissly,Kurt J. Vandegrift,Rahul K. Nelli,Lingling Li,Bhushan M. Jayarao,Costas D. Maranas,Nicole Levine,Katriina Willgert,Andrew J. K. Conlan,Randall J. Olsen,James J. Davis,James M. Musser,Peter J. Hudson,Vivek Kapur +17 more
TL;DR: The discovery of widespread infection of white-tailed deer indicates their establishment as potential reservoir hosts for SARS-CoV-2, a finding with important implications for the ecology, long-term persistence, and evolution of the virus, including the potential for spillback to humans.
Journal ArticleDOI
Delta variants of SARS-CoV-2 cause significantly increased vaccine breakthrough COVID-19 cases in Houston, Texas.
Paul A. Christensen,Randall J. Olsen,S. Wesley Long,Sishir Subedi,James J. Davis,Parsa Hodjat,Debbie R. Walley,Jacob C. Kinskey,Matthew Ojeda Saavedra,Layne Pruitt,Kristina Reppond,Madison N. Shyer,Jessica Cambric,Ryan Gadd,Rashi M. Thakur,Akanksha Batajoo,Regan Mangham,Sindy Pena,Trina Trinh,Prasanti Yerramilli,Marcus Nguyen,Robert Olson,Richard Snehal,Jimmy Gollihar,James M. Musser +24 more
TL;DR: In this paper, the authors sequenced the genomes of 16,965 SARS-CoV-2 from samples acquired March 15, 2021 through September 20, 2021 in the Houston Methodist hospital system.
Journal ArticleDOI
Delta Variants of SARS-CoV-2 Cause Significantly Increased Vaccine Breakthrough COVID-19 Cases in Houston, Texas
TL;DR: The integrated analysis indicates that vaccines used in the United States are highly effective in decreasing severe acute respiratory syndrome coronavirus disease 2019 (COVID-19) pandemic, hospitalizations, and deaths as mentioned in this paper .
Journal ArticleDOI
Efficacy of mRNA, adenoviral vector, and perfusion protein COVID-19 vaccines
TL;DR: In 2019, the Centers for Disease Control and Prevention (CDC) and the World Health Organization (WHO) separately developed a categorization system for differentiating new strains of SARS-CoV-2 into variants of concern and variants of interest as mentioned in this paper .
References
More filters
Journal ArticleDOI
An observational cohort study on the incidence of SARS-CoV-2 infection and B.1.1.7 variant infection in healthcare workers by antibody and vaccination status.
Sheila F Lumley,Gillian Rodger,Bede Constantinides,Nicholas D Sanderson,Kevin K Chau,Teresa L Street,Denise O'Donnell,Alison Howarth,Stephanie B Hatch,Brian D. Marsden,Stuart Cox,Tim James,Fiona Warren,Liam J Peck,Thomas G Ritter,Zoe de Toledo,Laura Warren,David Axten,Richard J. Cornall,E. Yvonne Jones,David I. Stuart,Gavin R. Screaton,Daniel Ebner,Sarah Hoosdally,Sarah Hoosdally,Meera Chand,Derrick W. Crook,Derrick W. Crook,Anne-Marie O'Donnell,Christopher P. Conlon,Koen B. Pouwels,Koen B. Pouwels,A. Sarah Walker,A. Sarah Walker,Tim E. A. Peto,Tim E. A. Peto,Susan Hopkins,Timothy M Walker,Nicole Stoesser,Philippa C Matthews,Katie Jeffery,David W Eyre +41 more
TL;DR: In this paper, the authors investigated the protection from symptomatic and asymptomatic polymerase chain reaction (PCR)-confirmed SARS-CoV-2 infection conferred by vaccination (Pfizer-BioNTech BNT162b2, Oxford-AstraZeneca ChAdOx1 nCOV-19) using Poisson regression adjusted for age, sex, temporal changes in incidence and role.
Posted ContentDOI
Increased infections, but not viral burden, with a new SARS-CoV-2 variant
A S Walker,Vihta K-D.,Vihta K-D.,Owen Gethings,Emma Pritchard,Emma Pritchard,Joel Jones,Thomas House,Thomas House,I Bell,John I. Bell,John N Newton,Jeremy Farrar,Ian Diamond,Ruth Studley,Emma Rourke,Jodie Hay,Susan Hopkins,Susan Hopkins,D Crook,T Peto,Philippa C Matthews,Philippa C Matthews,David W Eyre,Nicole Stoesser,Koen B. Pouwels,Koen B. Pouwels +26 more
TL;DR: Direct population-representative estimates show that the new variant of SARS-CoV-2 leads to higher infection rates, but does not seem particularly adapted to any age group.
Journal ArticleDOI
501Y.V2 and 501Y.V3 variants of SARS-CoV-2 lose binding to bamlanivimab in vitro .
Haolin Liu,Pengcheng Wei,Qianqian Zhang,Zhongzhou Chen,Katja Aviszus,Walter Downing,Shelley Peterson,Lyndon Reynoso,Gregory P. Downey,Stephen K. Frankel,John W. Kappler,Philippa Marrack,Gongyi Zhang +12 more
TL;DR: In this article, the authors found that the mutations K417N, E484K, and N501Y within the receptor-binding domains (RBDs) of the SARS-CoV-2 could confer 2-fold higher binding affinity to the human receptor, angiotensin converting enzyme 2 (ACE2), compared to the wild type RBD.
Posted ContentDOI
SARS CoV-2 variant B.1.617.1 is highly pathogenic in hamsters than B.1 variant
Pragya D Yadav,Sreelekshmy Mohandas,Anita M. Shete,Dimpal A Nyayanit,Nivedita Gupta,Deepak Y. Patil,Gajanan Sapkal,Varsha Potdar,Manoj Kadam,Abhimanyu Kumar,Sanjay Kumar,Deepak Suryavanshi,Chandrashekhar Mote,Priya Abraham,Samiran Panda,Balram Bhargava +15 more
TL;DR: This study demonstrates higher pathogenicity in hamsters evident with reduced body weight, higher viral load in lungs and pronounced lung lesions as compared to B.1.617.1, the new SARS-CoV-2 lineage that emerged in India.
Journal ArticleDOI
Sequence Analysis of 20,453 Severe Acute Respiratory Syndrome Coronavirus 2 Genomes from the Houston Metropolitan Area Identifies the Emergence and Widespread Distribution of Multiple Isolates of All Major Variants of Concern.
S. Wesley Long,S. Wesley Long,Randall J. Olsen,Randall J. Olsen,Paul A. Christensen,Sishir Subedi,Robert Olson,Robert Olson,James J. Davis,James J. Davis,Matthew Ojeda Saavedra,Prasanti Yerramilli,Layne Pruitt,Kristina Reppond,Madison N. Shyer,Jessica Cambric,Ilya J. Finkelstein,Jimmy Gollihar,Jimmy Gollihar,James M. Musser,James M. Musser +20 more
TL;DR: In this paper, the authors report identification of all six SARS-CoV-2 variants among Houston Methodist Hospital (Houston, TX) patients residing in the greater metropolitan area.
Related Papers (5)
Association of E484K spike protein mutation with SARS-CoV-2 infection in vaccinated persons---Maryland, January - May 2021.
Linked Clusters of SARS-CoV-2 Variant B.1.351 - Maryland, January-February 2021.
Kenneth A. Feder,Marcia Pearlowitz,Alexandra Goode,Monique Duwell,Thelonious W. Williams,Ping An Chen-Carrington,Ami Patel,Catherine Dominguez,Eric N. Keller,Liore Klein,Alessandra Rivera-Colon,Heba H. Mostafa,C. Paul Morris,Neil Patel,Anna M. Schauer,Robert Myers,David Blythe,Katherine A. Feldman +17 more