Team:Edinburgh/Collaboration

An important part of iGEM is how the work of a team should relate to past projects by previous years' teams, as well as current projects by other teams in the same year.

As a result of our work, we have discovered some useful information about several parts in the Registry. We have entered this information in the "experience" section of the relevant pages.

K415151

This part by MIT 2010 is supposed to encode FIXME

This information has been added to the Registry on the relevant [http://partsregistry.org/Part:BBa_K415151:Experience experience page].

K392008

This part by Osaka 2010 encodes a β-glucosidase from the bacterium Cellulomonas fimi. It is known to work in the lab of Chris French (Edinburgh's supervisor) and yet we discovered that an apparent frameshift is present near the start of the sequence.

Trieste's project this year also involves this part, and they too sequenced it and found the same "frameshift". Since a part with an early frameshift cannot possibly work, we looked for a different explanation.

Some 220 bases into the part, a 2nd ATG codon is found. This codon is in-frame and there is a plausible ribosome binding site (containing "gaagga") just upstream of it. We therefore believe that this 2nd ATG is the true start codon. The RBS would explain why the part can be expressed and work.

Indeed, there is [http://www.ncbi.nlm.nih.gov/nuccore/332337569?from=3105074&to=3106528 a published sequence] of a C. fimi protein which is labelled as a β-glucosidase by [http://enzyme.expasy.org/EC/3.2.1.21 Expasy] (though NCBI labels it a β-galactosidase). Anyway, this protein is clearly related to K392008 and starts at the 2nd ATG codon of K392008.

This information has been added to the Registry on the relevant [http://partsregistry.org/Part:BBa_K392008:Experience experience page].