Lineage abundance estimation for SARS-CoV-2 in wastewater using transcriptome quantification techniques
Abstract Effectively monitoring the spread of SARS-CoV-2 mutants is essential to efforts to counter the ongoing pandemic. Predicting lineage abundance from wastewater, however, is technically challenging. We show that by sequencing SARS-CoV-2 RNA in wastewater and applying algorithms initially used...
Main Authors: | Jasmijn A. Baaijens, Alessandro Zulli, Isabel M. Ott, Ioanna Nika, Mart J. van der Lugt, Mary E. Petrone, Tara Alpert, Joseph R. Fauver, Chaney C. Kalinich, Chantal B. F. Vogels, Mallery I. Breban, Claire Duvallet, Kyle A. McElroy, Newsha Ghaeli, Maxim Imakaev, Malaika F. Mckenzie-Bennett, Keith Robison, Alex Plocik, Rebecca Schilling, Martha Pierson, Rebecca Littlefield, Michelle L. Spencer, Birgitte B. Simen, Yale SARS-CoV-2 Genomic Surveillance Initiative, William P. Hanage, Nathan D. Grubaugh, Jordan Peccia, Michael Baym |
---|---|
Format: | Article |
Language: | English |
Published: |
BMC
2022-11-01
|
Series: | Genome Biology |
Online Access: | https://doi.org/10.1186/s13059-022-02805-9 |
Similar Items
-
Rapid Assessment of Opioid Exposure and Treatment in Cities Through Robotic Collection and Chemical Analysis of Wastewater
by: Endo, Norkio, et al.
Published: (2020) -
Amplidiff: an optimized amplicon sequencing approach to estimating lineage abundances in viral metagenomes
by: Jasper van Bemmelen, et al.
Published: (2024-03-01) -
“Waste Not, Want Not” — Leveraging Sewer Systems and Wastewater-Based Epidemiology for Drug Use Trends and Pharmaceutical Monitoring
by: Erickson, Timothy B., et al.
Published: (2021) -
Multiplex qPCR discriminates variants of concern to enhance global surveillance of SARS-CoV-2.
by: Chantal B F Vogels, et al.
Published: (2021-05-01) -
Wastewater network infrastructure in public health: Applications and learnings from the COVID-19 pandemic.
by: Nour Sharara, et al.
Published: (2021-01-01)