scholarly journals Wastewater-based epidemiology for tracking COVID-19 trend and variants of concern in Ohio, United States

2021 ◽  
Author(s):  
Yuehan Ai ◽  
Angela Davis ◽  
Daniel Jones ◽  
Stanley Lemeshow ◽  
Huolin Tu ◽  
...  
Keyword(s):  
Target Genes ◽  
Capital City ◽  
Strongly Correlated ◽  
Health Authorities ◽  
Global Pandemic ◽  
Normalization Methods ◽  
The World ◽  
Wastewater Samples ◽  
Sequencing Result ◽  
Human Specific

The global pandemic caused by severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) has resulted in more than 129 million confirm cases. Many health authorities around the world have implemented wastewater-based epidemiology as a rapid and complementary tool for the COVID-19 surveillance system and more recently for variants of concern emergence tracking. In this study, three SARS-CoV-2 target genes (N1, N2, and E) were quantified from wastewater influent samples (n = 250) obtained from the capital city and 7 other cities in various size in central Ohio from July 2020 to January 2021. To determine human-specific fecal strength in wastewater samples more accurately, two human fecal viruses (PMMoV and crAssphage) were quantified to normalize the SARS-CoV-2 gene concentrations in wastewater. To estimate the trend of new case numbers from SARS-CoV-2 gene levels, different statistical models were built and evaluated. From the longitudinal data, SARS-CoV-2 gene concentrations in wastewater strongly correlated with daily new confirmed COVID-19 cases (average Spearman r = 0.70, p < 0.05), with the N2 gene being the best predictor of the trend of confirmed cases. Moreover, average daily case numbers can help reduce the noise and variation from the clinical data. Among the models tested, the quadratic polynomial model performed best in correlating and predicting COVID-19 cases from the wastewater surveillance data, which can be used to track the effectiveness of vaccination in the later stage of the pandemic. Interestingly, neither of the normalization methods using PMMoV or crAssphage significantly enhanced the correlation with new case numbers, nor improved the estimation models. Whole-genome sequencing result showed that those detected SARS-CoV-2 variants of concern from the wastewater matched with the clinical isolates from the communities. The findings from this study suggest that wastewater surveillance is effective in COVID-19 trend tracking and variant emergence and transmission within a community.

scholarly journals National Institute for the Infectious Diseases “L. Spallanzani” IRCCS. Recommendations for COVID-19 Clinical Management

2020 ◽  
Vol 12 (1) ◽  
Author(s):  
Emanuele Nicastri ◽  
Nicola Petrosillo ◽  
Tommaso Ascoli Bartoli ◽  
Luciana Lepore ◽  
Annalisa Mondi ◽  
...  
Keyword(s):  
Infectious Diseases ◽  
World Health ◽  
Expert Opinions ◽  
Respiratory Involvement ◽  
Health Authorities ◽  
Global Pandemic ◽  
The World ◽  
Novel Coronavirus ◽  
Health Organization ◽  
Affected Country

On January 9th, 2020, the “World Health Organization” (WHO) declared the identification, by Chinese Health authorities, of a novel coronavirus, further classified as SARS-CoV-2 responsible of a diseases (COVID-19) ranging from asymptomatic cases to severe respiratory involvement. On March 9th, 2020, WHO declared COVID-19 a global pandemic. Italy is the second most affected country by COVID-19 infection after China. The “L. Spallanzani” National Institute for the Infectious Diseases, IRCCS has been the first Italian hospital to admit and manage patients affected by COVID-19. Hereby, we show our recommendations for the management of COVID-19 patients, based on very limited clinical evidences; these recomendations should be considered as expert opinions, which may be modified according to newly produced literature data. *for the INMI COVID-19 Treatment Group – ICOTREG Abdeddaim A, Agrati C, Albarello F, Antinori A, Ascoli Bartoli T, Baldini F, Bellagamba R, Bevilacqua N, Bibas M, Biava G, Boumis E, Busso D, Camici M, Capobianchi MR, Capone A, Caravella I, Cataldo A, Cerilli S, Chinello G, Cicalini S, Corpolongo A, Cristofaro M, D’Abramo A, Dantimi C, De Angelis G, De Palo MG, D’Offizi G, De Zottis F, Di Lorenzo R, Di Stefano F, Fusetti M, Galati V, Gagliardini R, Garotto G, Gebremeskel Tekle Saba, Giancola ML, Giansante F, Girardi E, Goletti D, Granata G, Greci MC, Grilli E, Grisetti S, Gualano G, Iacomi F, Iannicelli G, Ippolito G, Lepore L, Libertone R, Lionetti R, Liuzzi G, Loiacono L, Macchione M,  Marchioni L, Mariano A, Marini MC, Maritti M, Mastrobattista A, Mazzotta V, Mencarini P, Migliorisi-Ramazzini P, Mondi A, Montalbano M, Mosti S, Murachelli S, Musso M, Nicastri E, Noto P, Oliva A, Palazzolo C, Palmieri F, Pareo C, Petrone A, Pianura E, Pinnetti C, Pontarelli A, Puro V, Rianda A, Rosati S, Sampaolesi A, Santagata C, Scarcia D’Aprano S, Scarabello A, Schininà V, Scorzolini L, Stazi GV, Taibi C, Taglietti F, Tonnarini R, Topino S, Vergori A, Vincenzi L, Visco-Comandini U, Vittozzi P, Zaccarelli M, Zaccaro G.

scholarly journals Severe Acute Respiratory Syndrome Coronavirus-2 (SARS-CoV-2): Epidemiology and Vaccinology in Nigeria

2021 ◽  
Vol 9 (2) ◽  
pp. 60-69
Author(s):  
Ridwan Olamilekan Adesola ◽  
Oluwatobi Emmanuel Oladele ◽  
Ahmed Oluwasegun Tajudeen ◽  
Ogundepo Oluwatobi Moses ◽  
Murali Dinesh
Keyword(s):  
Severe Acute Respiratory Syndrome ◽  
Viral Infections ◽  
World Health ◽  
Great Level ◽  
Global Public Health ◽  
Wuhan City ◽  
Health Authorities ◽  
Global Pandemic ◽  
The World ◽  
Health Organization

Coronavirus disease 2019 (COVID-19), confirmed as the global pandemic on March 11, 2020, by the World Health Organization (WHO), was caused by the outbreak of an emergent severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2), which was first reported in Wuhan city, China, in December 2019. Based on the previous pandemic, such as severe acute respiratory syndrome (SARS) from 2002 to 2003, Middle East respiratory syndrome coronavirus (MERS-CoV) in 2012. The scientific developments have fast-tracked our insights SARS-CoV-2 epidemiology, likewise vaccinology relevant for developing drugs for viral infections treatment. As there are not many detailed interventions and vaccines available for disease control, the pandemic COVID-19 poses countless threats to global public health, causing a great level of insecurity and unrest worldwide. To provide an inclusive overview to global health authorities and prospective readers worldwide, we detailed in this review the epidemiology and vaccinology of SARS-CoV-2 in Nigeria.

scholarly journals A small interfering RNA (siRNA) database for SARS-CoV-2

2020 ◽  
Author(s):  
Inácio Gomes Medeiros ◽  
André Salim Khayat ◽  
Beatriz Stransky ◽  
Sidney Emanuel Batista dos Santos ◽  
Paulo Pimentel de Assumpção ◽  
...  
Keyword(s):  
Human Genome ◽  
Design Process ◽  
Small Interfering Rna ◽  
Target Genes ◽  
Information Base ◽  
Global Pandemic ◽  
The World ◽  
Rna Genome ◽  
Target Sequences ◽  
Interfering Rna

ABSTRACTCoronavirus disease 2019 (COVID-19) rapidly transformed into a global pandemic, for which a demand for developing antivirals capable of targeting the SARS-CoV-2 RNA genome and blocking the activity of its genes has emerged. In this work, we propose a database of SARS-CoV-2 targets for siRNA approaches, aiming to speed the design process by providing a broad set of possible targets and siRNA sequences. Beyond target sequences, it also displays more than 170 features, including thermodynamic information, base context, target genes and alignment information of sequences against the human genome, and diverse SARS-CoV-2 strains, to assess whether siRNAs targets bind or not off-target sequences. This dataset is available as a set of four tables in a single spreadsheet file, each table corresponding to sequences of 18, 19, 20, and 21 nucleotides length, respectively, aiming to meet the diversity of technology and expertise among labs around the world concerning siRNAs design of varied sizes, more specifically between 18 and 21nt length. We hope that this database helps to speed the development of new target antivirals for SARS-CoV-2, contributing to more rapid and effective responses to the COVID-19 pandemic.

scholarly journals First detection of SARS-CoV-2 proteins in wastewater samples by mass spectrometry

2021 ◽  
Author(s):  
Linda Lara-Jacobo ◽  
Golam Islam ◽  
Jean-Paul Desaulniers ◽  
Andrea Kirkwood ◽  
Denina Simmons
Keyword(s):  
Wastewater Treatment Plants ◽  
Quantitative Polymerase Chain Reaction ◽  
World Health ◽  
Biomolecule Detection ◽  
Untreated Wastewater ◽  
Global Pandemic ◽  
Proteomics Approach ◽  
The World ◽  
Wastewater Samples ◽  
Health Organization

Abstract On March 12, 2020, the World Health Organization (WHO) declared COVID-19 as a global pandemic. COVID-19 is produced by a novel β-coronavirus known as Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2) [1]. Several studies have detected SARS-CoV-2 RNA in urine, feces, and other biofluids from both symptomatic and asymptomatic people with COVID-19 [2], suggesting that SARS-CoV-2 RNA could be detected in human wastewater [3]. Thus, wastewater-based epidemiology (WBE) is now used as an approach to monitor COVID-19 prevalence in many different places around the world [4-10] . Reverse transcription quantitative polymerase chain reaction (RT-qPCR) is the most common SARS-CoV-2 detection method in WBE, but there are other methods for viral biomolecule detection that could work as well. The aim of this study was to evaluate the presence of SARS-CoV-2 proteins in untreated wastewater (WW) influents collected from six wastewater treatment plants (WWTPs), from Durham Region, Ontario, Canada, using a LC-MS/MS-based proteomics approach. We identified many SARS-CoV-2 proteins in these wastewater samples, with peptides from pp1ab being the most consistently detected and with consistent abundance.

scholarly journals First detection of SARS-CoV-2 proteins in wastewater samples by mass spectrometry

2021 ◽  
Author(s):  
Linda Lara-Jacobo ◽  
Golam Islam ◽  
Jean-Paul Desaulniers ◽  
Andrea Kirkwood ◽  
Denina Simmons
Keyword(s):  
Wastewater Treatment Plants ◽  
Quantitative Polymerase Chain Reaction ◽  
World Health ◽  
Biomolecule Detection ◽  
Untreated Wastewater ◽  
Global Pandemic ◽  
Proteomics Approach ◽  
The World ◽  
Wastewater Samples ◽  
Health Organization

Abstract On March 12, 2020, the World Health Organization (WHO) declared COVID-19 as a global pandemic. COVID-19 is produced by a novel β-coronavirus known as Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2) [1]. Several studies have detected SARS-CoV-2 RNA in urine, feces, and other biofluids from both symptomatic and asymptomatic people with COVID-19 [2], suggesting that SARS-CoV-2 RNA could be detected in human wastewater [3]. Thus, wastewater-based epidemiology (WBE) is now used as an approach to monitor COVID-19 prevalence in many different places around the world [4-10] . Reverse transcription quantitative polymerase chain reaction (RT-qPCR) is the most common SARS-CoV-2 detection method in WBE, but there are other methods for viral biomolecule detection that could work as well. The aim of this study was to evaluate the presence of SARS-CoV-2 proteins in untreated wastewater (WW) influents collected from six wastewater treatment plants (WWTPs), from Durham Region, Ontario, Canada, using a LC-MS/MS-based proteomics approach. We identified many SARS-CoV-2 proteins in these wastewater samples, with peptides from pp1ab being the most consistently detected and with consistent abundance.

scholarly journals Modeling the incidence and death rates of COVID-19 pandemic in different regions of the world

2020 ◽  
Vol 9 (s1) ◽  
Author(s):  
Ricardo Puziol de Oliveira ◽  
Jorge Alberto Achcar ◽  
Altacílio Aparecido Nunes
Keyword(s):  
The Novel ◽  
Factors Affecting ◽  
Health Authorities ◽  
Global Pandemic ◽  
Counting Data ◽  
Proposed Model ◽  
The World ◽  
Hard Times ◽  
The Face ◽  
Novel Coronavirus

AbstractThis paper reports a broad study using epidemic-related counting data of COVID-19 disease caused by the novel coronavirus (SARS-CoV-2). The considered dataset refers to 119 countries’ daily counts of reported cases and deaths in a fixed period. For the data analysis, it has been adopted a beta regression model assuming different regions of the world where it was possible to discover important economic, health and social factors affecting the behavior of the pandemic in different countries. The Bayesian method was applied to fit the proposed model. Some interesting conclusions were obtained in this study, which could be of great interest to epidemiologists, health authorities, and the general public in the face of the forthcoming hard times of the global pandemic.

scholarly journals First detection of SARS-CoV-2 proteins in wastewater samples by mass spectrometry

2021 ◽  
Author(s):  
Linda Lara-Jacobo ◽  
Golam Islam ◽  
Jean-Paul Desaulniers ◽  
Andrea Kirkwood ◽  
Denina Simmons
Keyword(s):  
Wastewater Treatment Plants ◽  
Quantitative Polymerase Chain Reaction ◽  
World Health ◽  
Biomolecule Detection ◽  
Untreated Wastewater ◽  
Global Pandemic ◽  
Proteomics Approach ◽  
The World ◽  
Wastewater Samples ◽  
Health Organization

Abstract On March 12, 2020, the World Health Organization (WHO) declared COVID-19 as a global pandemic. COVID-19 is produced by a novel β-coronavirus known as Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2) [1]. Several studies have detected SARS-CoV-2 RNA in urine, feces, and other biofluids from both symptomatic and asymptomatic people with COVID-19 [2], suggesting that SARS-CoV-2 RNA could be detected in human wastewater [3]. Thus, wastewater-based epidemiology (WBE) is now used as an approach to monitor COVID-19 prevalence in many different places around the world [4-10]. Reverse transcription quantitative polymerase chain reaction (RT-qPCR) is the most common SARS-CoV-2 detection method in WBE, but there are other methods for viral biomolecule detection that could work as well. The aim of this study was to evaluate the presence of SARS-CoV-2 proteins in untreated wastewater (WW) influents collected from six wastewater treatment plants (WWTPs), from Durham Region, Ontario, Canada, using a LC-MS/MS-based proteomics approach. We identified many SARS-CoV-2 proteins in these wastewater samples, with peptides from pp1ab being the most consistently detected and with consistent abundance.

scholarly journals A small interfering RNA (siRNA) database for SARS-CoV-2

2021 ◽  
Vol 11 (1) ◽  
Author(s):  
Inácio Gomes Medeiros ◽  
André Salim Khayat ◽  
Beatriz Stransky ◽  
Sidney Santos ◽  
Paulo Assumpção ◽  
...  
Keyword(s):  
Small Interfering Rna ◽  
Target Genes ◽  
Effective Response ◽  
Small Interference Rna ◽  
Information Base ◽  
Global Pandemic ◽  
The World ◽  
Speed Up ◽  
Interfering Rna ◽  
Interference Rna

AbstractCoronavirus disease 2019 (COVID-19) rapidly transformed into a global pandemic, for which a demand for developing antivirals capable of targeting the SARS-CoV-2 RNA genome and blocking the activity of its genes has emerged. In this work, we presented a database of SARS-CoV-2 targets for small interference RNA (siRNA) based approaches, aiming to speed the design process by providing a broad set of possible targets and siRNA sequences. The siRNAs sequences are characterized and evaluated by more than 170 features, including thermodynamic information, base context, target genes and alignment information of sequences against the human genome, and diverse SARS-CoV-2 strains, to assess possible bindings to off-target sequences. This dataset is available as a set of four tables, available in a spreadsheet and CSV (Comma-Separated Values) formats, each one corresponding to sequences of 18, 19, 20, and 21 nucleotides length, aiming to meet the diversity of technology and expertise among laboratories around the world. A metadata table (Supplementary Table S1), which describes each feature, is also provided in the aforementioned formats. We hope that this database helps to speed up the development of new target antivirals for SARS-CoV-2, contributing to a possible strategy for a faster and effective response to the COVID-19 pandemic.

scholarly journals Rationale for Mass Masking in Controlling the COVID-19 Pandemic

2021 ◽  
Vol 9 ◽  
Author(s):  
Shing Yau Tam ◽  
Victor C. W. Tam ◽  
Helen K. W. Law ◽  
May Ling Khaw ◽  
Shara W. Y. Lee
Keyword(s):  
Disease Control ◽  
Disease Outbreaks ◽  
Controversial Issues ◽  
Policy Makers ◽  
Health Authorities ◽  
Global Pandemic ◽  
Rapid Spread ◽  
The World ◽  
Lower Transmission

The rapid spread of the coronavirus disease 2019 (COVID-19) into a global pandemic caught the world unprepared. Previously effective measures for containing disease outbreaks were overwhelmed, necessitating strict controls such as lockdowns or curfews. Among the disease control interventions, community mass masking was one of the highly controversial issues with differing opinions on its indications or effectiveness from different health authorities around the world. Regions where community mass masking was timely introduced were associated with lower transmission rates, and more effective disease control. In this article, we discuss the evidence on the effectiveness, and rationale for community mass masking to prevent the COVID-19 transmission. Areas for further research to define the role of mass masking in light of the COVID-19 pandemic will be suggested. This would help policy makers in formulating mass masking policies.

scholarly journals First detection of SARS-CoV-2 proteins in wastewater samples by mass spectrometry

2021 ◽  
Author(s):  
Linda Lara-Jacobo ◽  
Golam Islam ◽  
Jean-Paul Desaulniers ◽  
Andrea Kirkwood ◽  
Denina Simmons
Keyword(s):  
Wastewater Treatment Plants ◽  
Quantitative Polymerase Chain Reaction ◽  
World Health ◽  
Biomolecule Detection ◽  
Untreated Wastewater ◽  
Global Pandemic ◽  
Proteomics Approach ◽  
The World ◽  
Wastewater Samples ◽  
Health Organization

Abstract On March 12, 2020, the World Health Organization (WHO) declared COVID-19 as a global pandemic. COVID-19 is produced by a novel β-coronavirus known as Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2) [1]. Several studies have detected SARS-CoV-2 RNA in urine, feces, and other biofluids from both symptomatic and asymptomatic people with COVID-19 [2], suggesting that SARS-CoV-2 RNA could be detected in human wastewater [3]. Thus, wastewater-based epidemiology (WBE) is now used as an approach to monitor COVID-19 prevalence in many different places around the world [4-10]. Reverse transcription quantitative polymerase chain reaction (RT-qPCR) is the most common SARS-CoV-2 detection method in WBE, but there are other methods for viral biomolecule detection that could work as well. The aim of this study was to evaluate the presence of SARS-CoV-2 proteins in untreated wastewater (WW) influents collected from six wastewater treatment plants (WWTPs), from Durham Region, Ontario, Canada, using a LC-MS/MS-based proteomics approach. We identified many SARS-CoV-2 proteins in these wastewater samples, with peptides from pp1ab being the most consistently detected and with consistent abundance.

Sign in / Sign up

Export Citation Format

Share Document