ArticleScientific reports2022
Detecting SARS-CoV-2 lineages and mutational load in municipal wastewater and a use-case in the metropolitan area of Thessaloniki, Greece.
Article in Scientific reports, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 16 papers, 1 of them a synthesis that pooled it.
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Who cites it
16 citing papers in PubMed, 1 synthesis or guideline pooled it, 31 citations in OpenAlex.
- A Systematic Review of Methodological Approaches to SARS-CoV-2 Wastewater Surveillance.Viruses · 2026Pooled it
- WEPP: Phylogenetic placement achieves near-haplotype resolution in wastewater-based epidemiology.PLoS computational biology · 2026Article
- SARS-CoV-2 wastewater genomic surveillance: approaches, challenges, and opportunities.Genome biology · 2026Review
- Article
- Online dashboards for SARS-CoV-2 wastewater-based epidemiology.Future microbiology · 2024Review
- Tracking SARS-CoV-2 variants of concern in wastewater: an assessment of nine computational tools using simulated genomic data.Microbial genomics · 2024Article
- Detection of SARS-COV-2 variants and their proportions in wastewater samples using next-generation sequencing in Finland.Scientific reports · 2024Article
- Emergence and spread of SARS-CoV-2 variants of concern in Canada: a retrospective analysis from clinical and wastewater data.BMC infectious diseases · 2024Article
- Impact of reference design on estimating SARS-CoV-2 lineage abundances from wastewater sequencing data.GigaScience · 2024Article
- Long-term monitoring of COVID-19 prevalence in raw and treated wastewater in Salvador, the largest capital of the Brazilian Northeast.Scientific reports · 2023Article
- Wastewater surveillance uncovers regional diversity and dynamics of SARS-CoV-2 variants across nine states in the USA.The Science of the total environment · 2023Article
- VirPool: model-based estimation of SARS-CoV-2 variant proportions in wastewater samples.BMC bioinformatics · 2022Article
- SARS-CoV-2 wastewater monitoring using a novel PCR-based method rapidly captured the Delta-to-Omicron ΒΑ.1 transition patterns in the absence of conventional surveillance evidence.The Science of the total environment · 2022Article
- Wastewater Sequencing-An Innovative Method for Variant Monitoring of SARS-CoV-2 in Populations.International journal of environmental research and public health · 2022Review
- SARS-CoV-2 Amino Acid Mutations Detection in Greek Patients Infected in the First Wave of the Pandemic.Microorganisms · 2022Article
- Tracking the circulating SARS-CoV-2 variant of concern in South Africa using wastewater-based epidemiology.Scientific reports · 2022Article
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Authors and funding
18 authors at 3 institutions in 1 country.
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No grant is acknowledged in the PubMed record.
Abstract
The COVID-19 pandemic represents an unprecedented global crisis necessitating novel approaches for, amongst others, early detection of emerging variants relating to the evolution and spread of the virus. Recently, the detection of SARS-CoV-2 RNA in wastewater has emerged as a useful tool to monitor the prevalence of the virus in the community. Here, we propose a novel methodology, called lineagespot, for the monitoring of mutations and the detection of SARS-CoV-2 lineages in wastewater samples using next-generation sequencing (NGS). Our proposed method was tested and evaluated using NGS data produced by the sequencing of 14 wastewater samples from the municipality of Thessaloniki, Greece, covering a 6-month period. The results showed the presence of SARS-CoV-2 variants in wastewater data. lineagespot was able to record the evolution and rapid domination of the Alpha variant (B.1.1.7) in the community, and allowed the correlation between the mutations evident through our approach and the mutations observed in patients from the same area and time periods. lineagespot is an open-source tool, implemented in R, and is freely available on GitHub and registered on bio.tools.
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