Contribution

Here are all of the contributions that we made to iGEM's repository and group as a whole. It's been so great working with everyone from this growing community.

Best Basic Part Contribution

Documented and characterised a new dapA part for E. coli. Although there is an existing part for dapA this is from Bacillus Subtilis and has a sequence diversion of 50% from our part (BBa_I718005 ). dapA is involved in lysine biosynthesis and we confirmed with digestions and colony PCR correct assembly and devised a ninhydrin assay for quantifying the levels of amino acids in our cells as a rapid test before further metabolomics. We showed that this part when overexpressed does result in a significant increase in lysine. Future teams should seek metabolomic confirmation that the ninhydrin results correspond specifically to lysine increases and not other amino acids. Edinburgh sent samples for mass spec analysis but unfortunately, results did not arrive before the wiki freeze.

AOBA

We made an educational leaflet for the general public about cyanobacteria, genetic engineering, the risks of GMO release and containment strategies using our projects as examples.


Biologix Collaboration

The idea for the Biologix was raised by the KCL team at the UK meetup organized by Edinburgh. The project was an educational collaboration between teams Kings College London, Warwick, Cambridge, Oxford, Edinburgh and Exeter. The aim was to design a PowerPoint lecture and textbook series aimed at English-speaking high school students. These materials would then be available for distribution to schools. Edinburgh has not focused on Education as an award, so we did not contact high schools for potential distribution.


KCIS-Xiugang-Taipei

KCIS reached out to us about doing a postcard collaboration where teams around design and send them a postcard depicting their projects. We did not end up sending the postcard, but the design was emailed to them online.

IISER Pune

IISER Pune approached us about a collaboration to promote sustainable and healthy living, by suggesting a joint Instagram post where teams around the world send photos of them biking to school instead of taking private vehicles/public transport.

SVCE Chennai

To celebrate World Nature Conservation Day, SVCE Chennai invited us to plant a tree on our campus and take photos for them. We coupled this into a fundraising event by inviting our professors to dress up as characters in The Lorax with us while we planted the tree.

UK Team Meetup

We organized an online meeting to get in contact with other UK teams, exchange preliminary project ideas and discuss potential collaborations.

We started with each team introducing their projects, followed by a breakout room rotation where individual teams could ask each other questions and discuss potential collaborations. In this meeting, we discussed a potential software collaboration with the Cambridge dry lab team.

UniCrete

In celebration of World Biodiversity Day, team UniCrete invited us to an Instagram post collaboration showcasing the national animal of our country.

Demonstrated Usage of CyanoGate

The work and results demonstrate that the newly developed CyanoGate system is user-friendly and can be a good option for any scientist interested in introducing new genes or operons into cyanobacteria. This will provide an example for future iGEM teams of molecular cloning using CyanoGate in a wide variety of genes.

Parts List

This year, the 2023 iGEM Edinburgh Team has created a collection of parts centred around CyanoGate. We have submitted a few new basic parts (for example BBa_K4849001) and used these to create a range of composite parts. These submissions contribute to the small yet growing collection of parts that can be expressed in cyanobacteria. CyanoGate was the primary technique we used to assemble our DNA, and our experiences and designs will be invaluable to future teams hoping to work with cyanobacteria. We hope that our contribution makes cyanobacteria more accessible to work with, and that future teams will use our parts in their CyanoGate designs!

Basic Parts:


Part Name Part Type Description Designer Cyanogate Type Design Build Test
BBa_K4849014 Coding MtrB - periplasmic decaheme cytochrome protein Devansh Kumar and Catarina Almeida Level 0 v v
BBa_K4849016 Coding MtrA - periplasmic decaheme cytochrome protein Devansh Kumar and Catarina Almeida Level 0 v v
BBa_K4849025 Coding sequence MtrC - Outer membrane protein, a decaheme c-type cytochrome Devansh Kumar & Catarina Almeida Level 0 v v
BBa_K4849026 Coding sequence CymA - membrane-associated tetraheme c-type cytochrome Devansh Kumar & Catarina Almeida Level 0 v v
BBa_K4849027 Coding sequence MtrCAB - cytochrome protein complex Devansh Kumar & Catarina Almeida Level 0 v v
BBa_K4849028 Coding sequence MtrCA - cytochrome protein complex Devansh Kumar & Catarina Almeida Level 0 v v
BBa_K4849030 Coding sequence MtrAB - cytochrome protein complex Devansh Kumar & Catarina Almeida Level 0 v v
BBa_K4849001 Coding sequence ggpS (glucosylglycerol phosphate synthase) Karen Leung, Matthew Whitehead Level 0 v v
BBa_K4849006 Coding sequence stpA (salt tolerance protein A) Karen Leung, Matthew Whitehead Level 0 v v
BBa K4849032 Coding DapA - aspartokinase Hannah Kerr & Will Green Level 0 v v v
BBa K4849040 Coding HisG - histidinol dehydrogenase Hannah Kerr & Will Green Level 0 v v v
BBa K4849000 Promoter PrbcL1C constitutive Synechocystis promoter Edvardas Eigminas and Devansh Kumar Level 0 v v
BBa_K4849002 Promoter PcopM195-BCD zinc-inducible Synechocystis promoter Edvardas Eigminas and Devansh Kumar Level 0 v v
BBa_K4849003 Coding sequence NucA nuclease toxin from Anabaena sp. PCC 7120 Edvardas Eigminas and Devansh Kumar Level 0 v v
BBa_K4849004 Coding sequence NuiA antitoxin from Anabaena sp. PCC 7120 Edvardas Eigminas and Devansh Kumar Level 0 v v
BBa_K4849005 Promoter PrnpB weak constitutive Synechocystis promoter received from McCormick's lab McCormick Lab Level 0 v v
BBa_K4849012 Coding sequence eYFP fluorescent marker McCormick Lab Level 0 v v v
BBa_K4849013 Promoter Ptrc10 promoter McCormick Lab Level 0 v v
BBa_K4849017 DNA End-linker 1 for CyanoGate assembly McCormick Lab Level 0 v v v
BBa_K4849018 DNA End-linker 2 for CyanoGate assembly McCormick Lab Level 0 v v v

Composite Parts:


Part Name Part Type Description Designer Cyanogate Type Design Build Test
BBa_K4849031 Composite MtrA - cytochrome protein complex Devansh Kumar & Catarina Almeida Level T v
BBa_K4849033 Composite MtrB - cytochrome protein complex Devansh Kumar & Caterina Almeida Level T v
BBa_K4849034 Composite MtrC - decaheme c-type cytochrome Devansh Kumar & Caterina Almeida Level T v
BBa_K4849035 Composite MtrCAB - cytochrome protein complex Devansh Kumar & Caterina Almeida Level T v
BBa_K4849036 Composite MtrCA - cytochrome protein complex Devansh Kumar & Caterina Almeida Level T v
BBa_K4849037 Composite MtrAB - cytochrome protein complex Devansh Kumar & Caterina Almeida Level T v
BBa_K4849038 Composite CymA - membrane-associated cytochrome Devansh Kumar & Caterina Almeida Level T v
BBa_K4849039 Composite MtrCAB + CymA Devansh Kumar & Caterina Almeida Level T v
BBa_K4849024 Transcriptional Unit Ptrc10->stpA->TrrnB Karen Leung, Matthew Whitehead Level 1 v v
BBa_K4849029 Transcriptional Unit Ptrc10->ggpS->TrrnB Karen Leung, Matthew Whitehead Level 1 v v
BBa K4849041 Composite DapA - aspartokinase Hannah Kerr & Will Green Level 1 v v v
BBa K4849042 Composite HisG - histidinol dehydrogenase Hannah Kerr and Will Green Level 1 v v v
BBa_K4849007 Transcriptional Unit eYFP expression construct under the control of PrnpB promoter Edvardas Eigminas Level 1 Position 1 v v
BBa_K4849008 Transcriptional Unit eYFP expression construct under the control of PcopM195-BCD zinc-inducible promoter Edvardas Eigminas Level 1 Position 1 v v
BBa_K4849009 Transcriptional Unit NuiA antitoxin under the control of PcopM195-BCD zinc-inducible promoter Edvardas Eigminas & Devansh Kumar Level 1 Position 1 v v
BBa_K4849010 Transcriptional Unit NucA toxin under the control of PrnpB promoter Edvardas Eigminas and Devansh Kumar Level 1 Position 2 v v
BBa_K4849011 Transcriptional Unit NucA toxin under the control of PrbcL1C promoter Edvardas Eigminas and Devansh Kumar Level 1 Position 2 v v
BBa_K4849019 Transcriptional Unit PrnpB->eYFP expression construct for Synechocystis sp. Edvardas Eigminas Level 1 v v
BBa_K4849020 Transcriptional Unit PcopM->eYFP Edvardas Eigminas Level 1 v v
BBa_K4849021 Synechocystis Kill Switch NuiA under PcopM195-BCD zinc-inducible promoter and NucA toxin under control of PrnpB promoter. Edvardas Eigminas and Devansh Kumar Level T v
BBa_K4849022 Synechocystis Kill Switch NuiA antitoxin under control of PcopM195-BCD zinc-inducible promoter and NucA toxin under control of PrbcL1C promoter. Edvardas Eigminas and Devansh Kumar Level T v
BBa_K4849023 Synechocystis Kill Switch NuiA antitoxin under control of modified Pznt promoter and NucA toxin under control of P_J23114 weak constitutive promoter. Edvardas Eigminas and Devansh Kumar Level T v