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Safety/Risk Group Guide
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Revision as of 16:11, 19 May 2014
Email safety AT igem DOT org!
Risk Groups
Most countries use a four-level Risk Group system to classify microorganisms (bacteria, fungi, and viruses) according to how dangerous they are to humans. The World Health Organization, an agency of the United Nations, uses four Risk Groups: Risk Group 1 is for the most safe organisms, and Risk Group 4 is for the most dangerous organisms. Risk Groups 2 and 3 fall in between.
Common iGEM Organisms
| Species | Risk Group |
|---|---|
| Escherichia coli K-12 (and derivatives: DH5alpha, TOP10, etc) | RG 1 |
| Bacillus subtilis | RG 1 |
| Yeast (Saccharomyces cerevisiae) | RG 1 |
| Lactobacillus spp. | RG 1 |
- RG 1: Low risk -- organisms generally do not cause disease in healthy adult humans.
- RG 2: Moderate risk -- organisms cause disease in humans, but the disease is treatable, and it should not present a serious hazard to public health.
- RG 3: High risk -- organisms cause serious disease in humans. Treatments and vaccines for the disease are usually available.
- RG 4: Extreme risk -- organisms cause deadly disease in humans, and there are no effective treatments or vaccinations.
The four laboratory BioSafety Levels correspond with Risk Groups -- so if you are working with Risk Group 2 organisms, you should work in a Level 2 laboratory.
International Variation
- Reversed numbering: Some countries, especially those that were formerly part of the Soviet Union, use a system similar to that described above, but with the numbers reversed. In this system, Risk Group 1 contains the most dangerous pathogens, and Level 1 labs have the strongest safety measures. Make sure you know which system your country uses, and whether it is the reverse of what iGEM uses!
- "In-Between" categories: Each country has its own specific laws that govern microbiology research, and its own rules for how to work with different organisms safely in the lab. In addition to the four basic Risk Groups, many countries also define special "in-between" Risk Group / BioSafety Level categories for special microorganisms. For example, there might be a category "2+" for organisms that are among the most dangerous of Risk Group 2, or a category "2-Agricultural" for organisms that cause disease in farm animals or crop plants.
- Disagreements about Risk Group: Different countries may disagree about the danger of some microorganisms, and may assign the same organism to different Risk Groups. Often, this is because the same organism is more dangerous in certain parts of the world. For example, a pathogen that is more deadly in hot climates might be rated Risk Group 3 by countries with hot weather, but the same organism might be rated Risk Group 2 in countries with very cold weather.
How can I find out the Risk Group of my organism?
There is no world-wide standard list of microorganisms and their Risk Groups. To determine the Risk Group of an organism, we must consult reliable sources. Because different countries sometimes disagree about Risk Groups, we suggest that you consult multiple sources. iGEM recommends three sources for Risk Group information: Canadian PSDS, NIH Guidelines, and DSMZ.
Canadian Pathogen Safety Data Sheets (PSDS)
The Public Health Agency of Canada has published safety data sheets for a wide variety of microorganisms.
To use the PSDS, begin by scrolling down and finding your species in the list. Click on the species name to bring up extensive safety information about that species. Scroll down to "SECTION VII". Some species will have a "RISK GROUP" explicitly listed. Other species will only have "CONTAINMENT REQUIREMENTS", which will recommend a laboratory Biosafety Level.
NIH Guidelines
The NIH Guidelines are a set of rules that govern research on recombinant/synthetic DNA in the United States. Appendix B of the guidelines gives a list of pathogens in Risk Groups 2, 3, and 4. It does not list Risk Group 1 organisms.
Click here to go directly to Appendix B.
DSMZ
"Always check your strain!"
A note about E. coli K-12
Escherichia coli is the most commonly used bacterium in molecular biology. E. coli bacteria naturally live inside the human digestive system. We scientists are used to thinking of E. coli as "safe" and even "boring", but many strains of E. coli cause terrible diseases! Famous strains such as E. coli O157:H7 have caused many deaths. Most disease-causing strains of E. coli are considered Risk Group 2.
E. coli K-12 is a "lab strain". The K-12 strain cannot survive in the human digestive system, and does not produce toxins. Therefore, it is considered Risk Group 1, and it may be used safely in the laboratory. Similarly, the strains derived from K-12 (such as DH5alpha, TOP10, etc.) are also considered Risk Group 1.
Always check your strain!
DSMZ (Deutsche Sammlung von Mikroorganismen und Zellkulturen / German Collection of Microorganisms and Cell Cultures) is a large collection that includes Risk Group information for thousands of different species, strains, and cell lines. It is more difficult to use, but it includes the most species of any source we have found.
- Catalogue Microorganisms -- search bacteria. Enter your genus, species, and/or strain information in the "Search term" box, and click Search. You will receive a long list of results, which may include many different strains and species. Examine the list to find the correct strain, and click on its DSM number to view its catalogue page. The Risk Group is listed in the table.
- Catalogue Human and Animal Cell Lines -- search this catalogue by the same method as for Catalogue Microorganisms.
- Prokaryotic Nomenclature Up to Date is an alphabetical list of all bacterial and archaeal species names with standing in the literature. Find your species in the list, and click on its name to view details. In the table row "Type strain", look for a blue DSM link. If one is present, it will bring you to a DSMZ catalogue page where you can find details, including Risk Group in the table. If there is no blue DSM link, it means that the DSMZ does not offer that species. Note: Prokaryotic Nomenclature Up to Date concerns wild organisms, not lab strains. Therefore, it will tell you that E. coli is Risk Group 2. E. coli K-12, or "lab strain" E. coli, is not the same as "wild" E. coli! (For more information, read the orange box on the right.)
Other sources
If you cannot find your species in any of the recommended sources, you must find another source. There may be a paper in the peer-reviewed scientific literature that describes your species. Your country's government might have a list of microorganisms and their Risk Groups. (It is always a good idea to check with your country's government. Remember that different countries may disagree about Risk Groups!)
For help finding a reliable source, you can consult your advisor, or speak to the biosafety authorities of your university. You can also contact <safety AT igem DOT org> for help.
What about animals and plants?
The four Risk Groups only apply to microorganisms (bacteria, fungi, and viruses), with very few exceptions. For animals, plants, and other multicellular organisms, there are different safety guidelines. Your country and your university will have their own set of guidelines governing experiments on animals and plants. You should consult your advisor, your lab manager, or the authorities at your university.
Some multicellular organisms are very popular in molecular biology. Worms (C. elegans), frogs (Xenopus), moss (Physcomitrella patens), thale cress (Arabidopsis), and fruit flies (Drosophila) have all been used by iGEM teams in the past.
If you are using a part from an animal/plant, you should consider the function of the part, and consider whether it might be dangerous to humans. For example, the gene that codes for Green Fluorescent Protein comes from the jellyfish Aequorea victoria. Therefore, in the strictest interpretation, GFP does not have any associated Risk Group. However, GFP is only a fluorescent protein, absorbing and emitting light, so it is completely safe for humans. If you consider a different gene from A. victoria, such as the gene that produces the toxin in its stinging tentacles, you might come up with a very different answer!
Laboratory Biosafety Levels
Quick Lesson on Biosafety Levels
This "Quick Learn Lesson" will give you a general idea of what the four BioSafety Levels look like. It should take about 15 minutes to complete. It is prepared by the U.S. Government, so it uses U.S. definitions for each Level. Most countries will use a very similar system, but some details may vary.
Most countries divide biological laboratories into four levels, based on their ability to contain increasingly dangerous pathogens.
The World Health Organization defines Level 1 as the most safe, and Level 4 as the most dangerous. Most countries in the world follow this system, and iGEM follows this system as well.
iGEM participants usually use Level 1 labs, because the most common chassis organisms are Risk Group 1. Some iGEM projects use Level 2 labs. Level 3 and Level 4 labs are not used in iGEM.
Note: A smaller number of countries, mostly those that were formerly part of the Soviet Union, use a different system where the numbers are reversed (with Level 1 being the most dangerous). Make sure you know which system your country uses!
This section is under construction.
To learn more about BioSafety Levels, speak to your faculty advisor or lab manager, or consult the WHO Biosafety Manual.
