2022
DOI: 10.1016/j.watres.2022.119306
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City-wide wastewater genomic surveillance through the successive emergence of SARS-CoV-2 Alpha and Delta variants

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Cited by 26 publications
(21 citation statements)
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“…Subsequent studies have found that the abundance of SARS-CoV-2 in wastewater correlates with concurrent clinical case numbers [10,[20][21][22]. Furthermore, genomic wastewater surveillance has been shown to effectively capture lineage dynamics in the population and has proven to be able to detect the introduction of novel variants before their identification in local clinical samples [23][24][25][26]. In this way, sequencing SARS-CoV-2 in wastewater has been proposed as an effective way of detecting the emergence of new lineages in the community [26,27].…”
Section: Introductionmentioning
confidence: 99%
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“…Subsequent studies have found that the abundance of SARS-CoV-2 in wastewater correlates with concurrent clinical case numbers [10,[20][21][22]. Furthermore, genomic wastewater surveillance has been shown to effectively capture lineage dynamics in the population and has proven to be able to detect the introduction of novel variants before their identification in local clinical samples [23][24][25][26]. In this way, sequencing SARS-CoV-2 in wastewater has been proposed as an effective way of detecting the emergence of new lineages in the community [26,27].…”
Section: Introductionmentioning
confidence: 99%
“…Furthermore, genomic wastewater surveillance has been shown to effectively capture lineage dynamics in the population and has proven to be able to detect the introduction of novel variants before their identification in local clinical samples [23][24][25][26]. In this way, sequencing SARS-CoV-2 in wastewater has been proposed as an effective way of detecting the emergence of new lineages in the community [26,27]. Moreover, wastewater monitoring is a cost-effective and unbiased strategy for genomic epidemiology, requiring fewer samples to capture infections at a population-level and thereby reducing the required sequencing costs [28].…”
Section: Introductionmentioning
confidence: 99%
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“…In our experiments, we compare VirPool with an estimator based on median proportions previously used by Rios et al [ 21 ]; similar methods were also used by other studies [ 20 , 22 , 23 ]. For each selected variant, this estimator needs a list of characteristic mutations; we use the lists by Rios et al [ 21 ] from their code repository [ 40 ].…”
Section: Methodsmentioning
confidence: 99%
“…Pre-selected sites with mutations characteristic for individual variants were later also used to quantify the variant prevalence. At each such site, the proportion of the allele belonging to the variant is estimated, and the final proportion is determined as a mean or a median of single-site estimates [20][21][22][23]. Since each variant is considered independently of others, the method can produce inconsistent estimates (e.g.…”
Section: Introductionmentioning
confidence: 99%