These Standard Operating Procedures (SOPs) have been developed by the STOP project partners and are made available to the broad scientific community.

Baermann Procedure for the Detection of 'Strongyloides stercoralis' Larvae

Written by Woyneshet Gelaye

This Standard Operating Procedure (SOP) provides instructions for preparing and examining fresh stool samples collected from participants of the ALIVE trial for the diagnosis of Strongyloides stercoralis infection by a modified Baermann technique. This protocol is applicable to all fresh stool samples collected and received at the laboratory for testing in the context of the ALIVE trial.

File: SOP_006_v02   |  Date: 20 Dec 2021

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Kato-Katz

Written by Augusto Messa Jr.

This Standard Operating Procedure (SOP) describes the procedures for Soil Transmitted Helminths eggs screening and quantitation by the Kato-Katz technique from stool samples for participants in the ALIVE Trial. This protocol is applicable to all fresh stool samples collected in the context of the ALIVE trial and received in the Parasitology Laboratory for testing.

File: SOP_005_v02   |  Date: 24 Feb 2022

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Stool DNA Extraction for Multiplex qPCR and Resistance Studies

Written by Maria Demontis and Michel Bengtson

This Standard Operating Procedure (SOP) describes the method for extracting genomic DNA from either ethanol preserved or unpreserved stool samples. The SOP includes two different steps. The first step describes how to remove ethanol from the preserved samples. The second step describes the process of DNA extraction using the QIAamp DNA Mini Kit, including a bead beating phase which is recommended to facilitate the DNA extraction by mechanical disruption of the helminth’s eggs.

File: SOP_007_v02   |  Date: 20 Dec 2021

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Reception, Aliquoting and Storage of Phocine Herpes Virus 1 (PhHV) Stock Solution

Written by Maria Demontis and Michel Bengtson

This Standard Operating Procedure (SOP) describes the steps required for (i) ordering, (ii) receiving, (iii) determining the concentration of the working solution to be added to each sample, and (iv) aliquoting of the stock solution of PhHV when used as DNA extraction internal control in the context of the ALIVE trial.

File: SOP_014_v02   |  Date: 20 Dec 2021

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Multiplex Real-Time PCR for the Detection of Soil-Transmitted Helminths (STH)

Written by Maria Demontis and Michel Bengtson

The purpose of this standard operating procedure (SOP) is to give a detailed guide on how to perform real-time PCR for STH (A. lumbricoides, T. trichiura, N. americanus, A. duodenale and S. stercoralis) and Schistosoma spp in DNA extracts obtained from stool samples collected in the context of the ALIVE trial.

File: SOP_008_v02   |  Date: 20 Dec 2021

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