TITLE: DNA EXTRACTION Protocol Template
AUTHORS: Kathleen Pitz, Raïssa Meyer

[DESCRIPTION]
A protocol template created through the BeBOP project for DNA Extraction. For more information please visit our github site at https://github.com/BeBOP-OBON.

[STEPS]
SECTION: MIOP: Minimum Information about an Omics Protocol
1. 
  
MIOP Term
Value
   
methodology category

 
project

 
purpose

 
analyses

 
geographic location

 
broad-scale environmental context

 
local environmental context

 
environmental medium

 
target

 
creator

 
materials required

 
skills required

 
time required

 
personnel required

 
language

 
issued

 
audience

 
publisher

 
hasVersion

 
license

 
maturity level

  

SECTION: AUTHORS
2. 
  
PREPARED BY All authors known to have contributed to the preparation of this protocol, including those who filled in the template.
AFFILIATION
ORCID (visit https://orcid.org/ to register)
DATE
   
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SECTION: RELATED PROTOCOLS
3. 
  
PROTOCOL NAME AND LINK
VERSION The version of the protocol you linked to
RELEASE DATE This is the date corresponding to the version listed to the left
   
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yyyy-mm-dd
 
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SECTION: ACRONYMS AND ABBREVIATIONS
4. 
  
ACRONYM / ABBREVIATION
DEFINITION
   
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SECTION: GLOSSARY
5. 
  
SPECIALISED TERM
DEFINITION
   
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SECTION: EQUIPMENT
13. 
  
DESCRIPTION e.g. filter
PRODUCT NAME AND MODEL Provide the official name of the product
MANUFACTURER Provide the name of the manufacturer of the product.
QUANTITY Provide quantities necessary for one application of the standard operating procedure (e.g. number of filters).
REMARK For example, some of the consumable may need to be sterilized, some commercial solution may need to be diluted or shielded from light during the operating procedure.
   
Durable equipment




 
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Consumable equipment




 
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Chemicals




 
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SECTION: STANDARD OPERATING PROCEDURE
14. In the following SOP, please use the exact names of equipment as noted in the table above.

Provide a step-by-step description of the protocol. The identification of difficult steps in the protocol and the provision of recommendations for the execution of those steps are encouraged.
SECTION: REFERENCES
22. Insert all references cited in the document.

Please insert full DOI address when available, e.g. http://doi.dx.org/10.1007/s11258-014-0404-1
SECTION: APPENDIX A: DATASHEETS
23. Link templates (e.g. preformatted spreadsheets) used to record measurements and report on the quality of the data as well as any documents such as manufacturer specifications, images, etc that support this protocol. Please include a short note describing the document’s relevance.
SECTION: BACKGROUND
6. Summary

Insert a short description of the background for the method/protocol (e.g. why and for which purpose do you perform water sampling).

Please provide a brief summary of your method including, as appropriate, a brief description of what techniques your best practice is about, which ocean environments or regions it targets, the primary sensors covered, what type of data/measurements/observing platform it covers, limits to its applicability.
SECTION: BACKGROUND
7. Method description and rationale

Insert a short description of the functioning principal of the methodology used in the protocol (i.e. how does the method work?). Please note that this is different from the step-by-step description of the protocol procedure.

Insert a short statement explaining why the specific methodology used in the protocol has been selected (e.g. it is highly reproducible, highly accurate, procedures are easy to execute etc….).

SECTION: BACKGROUND
8. Spatial coverage and environment(s) of relevance

If applicable, please specify the region where the protocol is applied. If applicable, please indicate here the environment(s) of relevance for the protocol, e.g. Abyssal plain. Select from the ENVO terminology.
https://www.ebi.ac.uk/ols/ontologies/envo
SECTION: BACKGROUND
9. Personnel Required

Describe the number of technicians, data managers, and scientists required for the good execution of the procedure
SECTION: BACKGROUND
10. Safety

Identify hazards associated with the procedure and specify protective equipment and safety training required to safely execute the procedure
SECTION: BACKGROUND
11. Training requirements

Specify technical training required for the good execution of the procedure.
SECTION: BACKGROUND
12. Time needed to execute the procedure

Specify how much time is necessary to execute the procedure.
SECTION: PREPARATION
15. Please specify the preparatory actions you took prior to running this protocol and note what equipment was used to do so (e.g. disinfection of work surfaces, preparations to the equipment you intend to use later on).

Step
SECTION: EXTRACTION
18. Please specify the actions you took to extract the DNA from your samples and note what equipment was used to do so (e.g. incubation, vortexing, washing, elution, use of controls).

Step
SECTION: EXTRACTION
18.1. Sub-Step
SECTION: EXTRACTION
18.2. Sub-Step
SECTION: QUALITY CONTROL
20. Describe and explain criteria used to validate results of the standard operating procedure.
SECTION: BASIC TROUBLESHOOTING GUIDE
21. Identify known issues associated with the procedure, if any.

Provide troubleshooting guidelines when available.
SECTION: EXTRACTION
19. Step
SECTION: PREPARATION
16. Step
SECTION: PREPARATION
17. Step