Joyce Akello

Wastewater sequencing of amplicons using the Native Barcoding Kit SQK-NBD114.96 v2

Kirsten Williamson, Shannon Fitz, Joyce Akello, Alex Shaw et autres

This standard operating procedure (SOP) sets out the workflow for sequencing amplicons generated from wastewater samples using a nested or semi-nested PCR with the goal of sequencing viral pathogens. The protocol is adapted from 'Ligation Sequencing Amplicons - Native Barcoding Kit 96 …

my, kh, id (code pays fourni par la source)

Sensitive and Cost-Effective Processing of Wastewater Samples for Multiple Pathogen Detection

Shannon Fitz, Joyce Akello, Catherine Troman, Jonathan Rigby et autres

This repository contains the supplementary dataset supporting the research study: "Sensitive and Cost-Effective Processing of Wastewater Samples for Multiple Pathogen Detection". The data provided is split into the following sections: Text S1: Concentration methods summary Figure S1: S. Typhi Recovery using Nanotrap …

gb, in, Ghana, Zambie (code pays fourni par la source)

Sensitive and Cost-Effective Processing of Wastewater Samples for Multiple Pathogen Detection

Shannon Fitz, Joyce Akello, Catherine Troman, Jonathan Rigby et autres

This repository contains the supplementary dataset supporting the research study: "Sensitive and Cost-Effective Processing of Wastewater Samples for Multiple Pathogen Detection". The data provided is split into the following sections: Text S1: Concentration methods summary Figure S1: S. Typhi Recovery using Nanotrap …

gb, in, Ghana, Zambie (code pays fourni par la source)

Wastewater Concentration using the Electronegative Filtration method, Total Nucleic Acid Extraction and PCR inhibitor removal for recovery of viral pathogens v2

Joyce Akello, Shannon Fitz, Kirsten Williamson, Alex Shaw et autres

This standard operating procedure (SOP) sets out the workflow for processing wastewater samples with the goal of recovering and detecting viral pathogens. The steps include virus concentration using the electronegative filtration (ENF) method, total nucleic acid extraction using MagMAX Wastewater Ultra Nucleic …

Zambie, my, kh, id, gb (code pays fourni par la source)

Direct Detection of poliovirus and Nanopore Sequencing (DDNS) - Environmental Samples v2

Erika Bujáki, Ben Bellekom, Alison Tedcastle, Jasmaine Lee et autres

This protocol covers amplification of poliovirus nucleic acid from concentrated sewage samples following enrichment by sewage concentration and RNA purification with the subsequent sequencing of barcoded VP1 amplicons. An overview of the full procedure if shown in Figure 1. The protocol was …

gb (code pays fourni par la source)

Nanopore sequencing of poliovirus Isolates analysis and quality control checks v2

Ben Bellekom, Erika Bujáki, Joyce Akello, Catherine Pratt et autres

This standard operating procedure indicates how to perform data analysis, quality control checks, and data reporting after nanopore sequencing of poliovirus isolates and provides guidance on best practice for ensuring relevant sequencing run data are recorded. Procedure For isolate sequencing results to …

Nanopore sequencing of poliovirus Isolates analysis and quality control checks v2

Ben Bellekom, Erika Bujáki, Joyce Akello, Catherine Pratt et autres

This standard operating procedure indicates how to perform data analysis, quality control checks, and data reporting after nanopore sequencing of poliovirus isolates and provides guidance on best practice for ensuring relevant sequencing run data are recorded. Procedure For isolate sequencing results to …

Troubleshooting guide for DDNS v2

Joyce Akello, Alex Shaw, Catherine Troman, Ben Bellekom et autres

This document provides general guidance for troubleshooting problems encountered in the DDNS method. It outlines the factors that might influence the outcome of the DDNS PCR assay run, the common problems encountered, possible causes of the problems, and provides recommendations on corrective …

gb (code pays fourni par la source)

Principles and performance of wastewater concentration methods for environmental surveillance of viruses: a systematic review and meta-analysis

Joyce Akello, Ben Bellekom, Alex Shaw, Nicholas C. Grassly

Abstract Methods to concentrate wastewater samples are essential for sensitive environmental surveillance of infectious diseases. We defined six main principles used to concentrate viral pathogens in wastewater and performed a systematic review and meta-analysis of their performance. PubMed and Web of Science …

gb (code pays fourni par la source)

Wastewater sequencing of amplicons using the Native Barcoding Kit SQK-NBD114.96 v1

Kirsten Williamson, Shannon Fitz, Joyce Akello, Alex Shaw et autres

This standard operating procedure (SOP) sets out the workflow for sequencing amplicons generated from wastewater samples using a nested or semi-nested PCR with the goal of sequencing viral pathogens. The protocol is adapted from 'Ligation Sequencing Amplicons - Native Barcoding Kit 96 …

my, kh, id (code pays fourni par la source)

Wastewater Concentration using the Electronegative Filtration method, Total Nucleic Acid Extraction and PCR inhibitor removal for recovery of viral pathogens v2

Joyce Akello, Shannon Fitz, Kirsten Williamson, Alex Shaw et autres

This standard operating procedure (SOP) sets out the workflow for processing wastewater samples with the goal of recovering and detecting viral pathogens. The steps include virus concentration using the electronegative filtration (ENF) method, total nucleic acid extraction using MagMAX Wastewater Ultra Nucleic …

Zambie, my, kh, id, gb (code pays fourni par la source)

Wastewater Concentration Using the Ceres Nanotrap A Particles, Total Nucleic Acid Extraction, and PCR Inhibitor Removal for recovery of viral pathogens v3

Shannon Fitz, Joyce Akello, Amy Dighe, Alex Shaw et autres

This standard operating procedure (SOP) sets out the workflow for processing wastewater samples for with the goal of recovering and detecting viral pathogens. The steps include virus concentration using the Ceres Nanoparticles A method and total nucleic acid extraction using MagMAX Wastewater …

Zambie, my, kh, id (code pays fourni par la source)