Delta SARS-CoV-2 variant is entirely substituted by the omicron variant during the fifth COVID-19 wave in Attica region

Galani, Aikaterini; Markou, Athina; Dimitrakopoulos, Lampros; Kontou, Aikaterini; Kostakis, Marios; Kapes, Vasileios; Diamantopoulos, Marios A.; Adamopoulos, Panagiotis G.; Avgeris, Margaritis; Lianidou, Evi; Scorilas, Andreas; Paraskevis, Dimitrios; Tsiodras, Sotirios; Dimopoulos, Meletios-Athanasios; Τhomaidis, Νikolaos S.

doi:10.1016/j.scitotenv.2022.159062

Cited by 10 publications

(6 citation statements)

References 35 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…This was a similar WBE result seen by Galani et al in Greece (e.g., the Delta variant being replaced by B.1.1.519, signifying the start of the Omicron wave). [ 38 ] The B.1.1.529 (Omicron) variant was first detected in our study on December 6th, 2021, which preceded the Omicron wave by one week, and consisted of predominantly BA.1, BA.1.1.18, BA.1.1.12, BA.1.1.13, and BA.2 variants.…”

Section: Discussionmentioning

confidence: 70%

Significance of wastewater surveillance in detecting the prevalence of SARS-CoV-2 variants and other respiratory viruses in the community – A multi-site evaluation

Khan

Haak

et al. 2023

One Health

View full text Add to dashboard Cite

Section: Discussionmentioning

confidence: 70%

Significance of wastewater surveillance in detecting the prevalence of SARS-CoV-2 variants and other respiratory viruses in the community – A multi-site evaluation

Khan

Haak

et al. 2023

One Health

View full text Add to dashboard Cite

“…This was a similar WBE result seen by Galani et al in Greece (e.g., the Delta variant being replaced by B.1.1.519, signifying the start of the Omicron wave). 38 The B.1.1.529 (Omicron) variant was first detected in our study on December 6 th , 2021, which preceded the Omicron wave by one week, and consisted of predominantly BA.1, BA.1.1.18, BA.1.1.12, BA.1.1.13, and BA.2 variants.…”

Section: Discussionmentioning

confidence: 54%

Significance of Wastewater Surveillance in Detecting the Prevalence of SARS-CoV-2 Variants and Other Respiratory Viruses in the Community – A Multi-Site Evaluation

Khan

Haak

et al. 2023

Preprint

View full text Add to dashboard Cite

Detection of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) viral genome in wastewater has proven to be useful for tracking the trends of virus prevalence within the community. The surveillance also provides precise and early detection of any new and circulating variants, which aids in response to viral outbreaks. Site-specific monitoring of SARS-CoV-2 variants provides valuable information on the prevalence of new or emerging variants in the community. We sequenced the genomic RNA of viruses present in the wastewater samples and analyzed for the prevalence of SARS-CoV-2 variants as well as other respiratory viruses for a period of one year to account for seasonal variations. The samples were collected from the Reno-Sparks metropolitan area on a weekly basis between November 2021 to November 2022. Samples were analyzed to detect the levels of SARS-CoV-2 genomic copies and variants identification. This study confirmed that wastewater monitoring of SARS-CoV-2 variants could be used for community surveillance and early detection of circulating variants and supports wastewater-based epidemiology (WBE) as a complement to clinical respiratory virus testing as a healthcare response effort. Our study showed the persistence of the SARS-CoV-2 virus throughout the year compared to a seasonal presence of other respiratory viruses, implicating SARS-CoV-2 broad genetic diversity and strength to persist and infect susceptible hosts. Through secondary analysis, we further identified antimicrobial resistance (AMR) genes in the same wastewater samples and found WBE to be a feasible tool for community AMR detection and monitoring.

show abstract

“…Omicron has more rapid transmission and mutation sites than other VOCs ( 7 ), displaying over 30 mutations in the gene coding for the coronavirus spike (S) protein and some missense sites. Among them, 15 mutations are in the receptor binding domain (RBD), which is over 2-fold the number in the Delta variant ( 7 – 9 ). At the time of manuscript submission, the newly emerged Omicron variant had five distinct subvariants (with sublineages): BA.1, BA.2, BA.3, BA.4, and BA.5 ( 4 ).…”

Section: Introductionmentioning

confidence: 99%

Rapid Detection of Predominant SARS-CoV-2 Variants Using Multiplex High-Resolution Melting Analysis

et al. 2023

View full text Add to dashboard Cite

show abstract

Delta SARS-CoV-2 variant is entirely substituted by the omicron variant during the fifth COVID-19 wave in Attica region

Cited by 10 publications

References 35 publications

Significance of wastewater surveillance in detecting the prevalence of SARS-CoV-2 variants and other respiratory viruses in the community – A multi-site evaluation

Significance of wastewater surveillance in detecting the prevalence of SARS-CoV-2 variants and other respiratory viruses in the community – A multi-site evaluation

Significance of Wastewater Surveillance in Detecting the Prevalence of SARS-CoV-2 Variants and Other Respiratory Viruses in the Community – A Multi-Site Evaluation

Rapid Detection of Predominant SARS-CoV-2 Variants Using Multiplex High-Resolution Melting Analysis

Contact Info

Product

Resources

About