Toolbox: Protocols and Information
Toolbox

Toolbox

The Toolbox was created to house those procedures that can be used in various parts of the workflow.
Protocol TitleDescription/Goal
Using a Gel-Doc Camera to Take Plaque Pictures
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To keep a visual record of plaque morphology using a GelDoc XR+ System.
Notebooks
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Measuring DNA Concentration by NanoDrop
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To quantify the amount of DNA in a phage or genomic DNA sample.
Picking a Plaque
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To obtain a liquid sample of phage from a plaque (or putative plaque) on a lawn of bacteria.
Making Serial Dilutions
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Create standard dilutions of a phage sample in order to perform plaque assays or titers.
Taking Plaque Pictures
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To keep a visual record of findings.
Titering
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To quantify the number of phage in a sample expressed as PFU (plaque forming unit)/mL.
Controls
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To ascertain whether the plaque detection system is working.
Obtaining GPS Coordinates
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Making Thumbnails for PhagesDB
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Describes how to select, crop, and prepare good pictures for use as thumbnail images on PhagesDB.org.
Checking phage lysates by PCR
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PCR verification is used to provide evidence that the phage lysate you are working with is the one that you want. Read the Helpful Tips to understand its limitations. A list of cluster- or phage- specific primer sets is found here.
Archive Protocols
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If you submit information about a phage to PhagesDB.org, please submit a sample of the lysate to our archive inventory. Archiving includes sending a sample for our inventory AND making sure the info at PhagesDB is complete and accurate. If you are a member of the SEA-PHAGES program, the protocol for those samples is found here. if you are not a member of SEA-PHAGES, please consider submitting a sample and keeping your phage data up-to-date. Protocol was modified October 26, 2017. Video Protocol