Help:Assembly Compatibility
- Registry Help Pages:
- TOC
- At-a-Glance
- FAQ
Add a Part to the Registry: Related Registry Help Pages
- Add a Basic Part - A tutorial on how to add a basic part
- Add a Composite Part - A tutorial on how to add a composite part
- Scars - Information on assembly scars, and how to specify them for a composite part
- Synthesis - Things to keep in mind if you're adding and documenting a part you've synthesized
- Assembly Compatibility - Make sure your part is compatible with an assembly standard
- Twins - Parts are twins if they have the same sequence
- Document Parts - Recommendations on how to document your parts
- Make a Contribution - Improve existing parts
Have questions on adding a part to the Registry? Send an email to hq (at) igem . org.
Accepted Standards: BioBrick RFC[10] | iGEM Type IIS RFC[1000]
Assembly Compatibility
Choose your assembly method, support the standard
Choose your assembly method and assemble your parts with a variety of assembly techniques. You can use 3A Assembly, Type IIS, synthesis, Gibson, and more.
Support the standard. Although users can add parts to the Registry that adhere to other assembly standards, BioBrick RFC[10] and Type IIS are the Registry's current de facto standards; all parts on the Registry that will be considered for the iGEM competition (medals, awards, etc.) must be assembly compatible for BioBrick or Type IIS.
In 2019, sample submission is no longer required. However, ensuring your parts are assembly compatible allows the Registry to synthesize your parts in BioBrick and/or Type IIS format. Registry members can easily and reliably use and assemble these parts in the future.
How is a part compatible?
The part's sequence must not contain illegal restriction sites (or other specified sequences) as defined by the assembly standard.
BioBrick compatible parts must not have the following restriction sites:
| Sequence | Type | Enzyme | Note |
|---|---|---|---|
| gaattc | Illegal | EcoRI | |
| tctaga | Illegal | XbaI | |
| actagt | Illegal | SpeI | |
| ctgcag | Illegal | PstI | |
| gcggccgc | Avoid | NotI |
All of these restriction sites belong to the prefix and suffix of the BioBrick assembly standard.
Supported Standards
By supporting an assembly standard, the Registry software can detect and understand the assembly process for parts. This includes:
- Detection of illegal restriction sites in a part's sequence
- Recognizing assembly scars in composite parts
- Identification of a sample's assembly standard, through sequence verification of the sample's prefix and suffix
- Remember, a part can have many samples in the Registry's Repository. Those samples can be in plasmid backbones of different assembly standards.
View the Assembly Systems Page to see exactly what the Registry software looks for in these supported assembly standards
Click below to view the supported assembly standards as specified by their original RFC
- 10 - BioBrick - [http://dspace.mit.edu/handle/1721.1/45138 RFC Documentation]
- 12 - BioBrick 2 - [http://dspace.mit.edu/handle/1721.1/45139 RFC Documentation]
- 21 - Berkeley/BglBricks - [http://dspace.mit.edu/handle/1721.1/46747 RFC Documentation]
- 23 - Silver Standard - [http://dspace.mit.edu/handle/1721.1/32535 RFC Documentation]
- 25 - Freiburg Standard - [http://dspace.mit.edu/handle/1721.1/45140 RFC Documentation]
- 1000 - MoClo
FAQ
Why is compatibility important?
The iGEM Registry is built on Standard Biological Parts.
- Assembly Standards are one of the facets of the standardization of biology
- All users can easily and reliably assemble and use these parts. They are not conducting an experiment when putting them together.
- BioBrick and Type IIS compatibility allows the Registry to test and maintain all received parts in the same way.
My part is not BioBrick or Type IIS compatible
Before working with your part in the lab (characterizing/measuring), make sure it is BioBrick compatible or Type IIS compatible. If not...
- Synthesize your part to remove any illegal restriction sites, through synonymous substitutions (silent mutations).
- Use site-specific mutagenesis to remove any illegal restriction sites, through synonymous substitutions (silent mutations).