Team:Newcastle/Meetings/30 March 2009
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Contents |
30/03/2009 - iGEM Meeting
- 14:00 start CLT601
- Team members absent: Craig, Arun
Action points from the last meeting
- Develop software systems which stimulates the system (Ongoing)
- 10% sporulate or 10% continue as vegetative cells - Modelling
- Familiarise self with [http://www.partsregistry.org BioBricks] - ALL
- List all the BioBricks needed (Current job)
- Create big flowchart (with gene names) (Current job)
- Organise a Biobrick tutorial with Anil for a week on Thursday?
- Use software such as [http://share.xmind.net/ X-Mind] for collaborative ideas (Ongoing)
- Look up [http://www.safety.ncl.ac.uk safety regulations] (Ongoing - Advisors)
Agenda of the Meeting
- Post paragraph, and maybe wiki-design on main wiki (DONE, No formatting)
- Create a Flowchart (big with genes) (Done on whiteboard, to create electronically)
Minutes
- Hand out work for preparation before meeting on Wednesday (11:00am CLT.601)
- Arun - DNA rearrangement + germination gene regulation
- Jess – SmtA BB + triggering
- James – CadA system biobrick
- Matt – Czr+ArsR+BS
- Goksel – SinI, SinR SS
- Hanny – Mnth BB (+Sporulation?)
- Jane – Triggering Spoulation
- Looked at other teams wikis (Not many with ideas up)
- Formal meeting on Thursday 4pm
Meeting 02/04/2009
Agenda of the meeting
- Show our flowchart/presentation
- Run through individual research/biobricks
Media:Flowchart_and_BioBricks_for_Bacillus_subtilis.ppt
Minutes of the meeting
- Members present - James, Matt, Jess, Hanny, Goksel
- Advisors present - Morgan, Matt
- Bacillus subtilis should always be written as italic. Gene names should start with lowercase whereas protein name should start with uppercase.
- Do not use green and red colous on presentations.
- When a protein sequence is known, to find similar proteins do a blast search.
- To control cadA system directly by ArsR and CzrR, we can insert the binding sites of these proteins into the binding site of CadA.
- Cd uptake in bacteria is preferred to other metals like Zinc.
Action Points
- Watch out for other team's wikis. Every week give a review for 5 minutes for other wikis
- Combine the first two boxes on the presentation.
- The diagram shouls also include the system that pumps out Cd
- The first stochastic switch should be wired to Cd sensing system directly whereas the second one should be influenced by the system.
- We should also model the state when there is no metal
- Always use DNa rearrangement upon Cd exposure.
- While doing a presentation, create a table and display which genes are ON and OFF for each step
- Model Cd uptake using a CellML model
- Display the spore timeline while presenting the required actions step by step
- Do not use GFP inside biobricks. In this way they are not modular.
- List the names of genes that need to be knocked out. E.g mntH.
- For each gene, specify whether the gene exits in B. subtilis or it is taken from another organism.
- Investigate if arsR has another name in literature.
- Investigate the operator site of arsR
- Investigate how cadA is regulated. We can use sigma factors to regulate cadA system or we can expres a repressor to deactivate the system.
- Model the following sub systems
- Cd pumps. we can then decide how many of them we need
- AND gate for metal sensing
- Stochastic swicthes
- DNA rearrangement
- Population of cells
- Smta - sponge system
- Number of metals that a spore can store
News
Events
- 20 – 21 June 2009 - Europe workshop (London)
- 23 – 24 June 2009 - UK iGEM meetup (Edinburgh)
- 23 October Practice Presentation (Newcastle)
- 23 October T-shirts are ready
- 27 October Practice Presentation (Sunderland)
- 27 October Poster is ready
- 30 October – 2 November 2009 - Jamboree (Boston)
Social Net
- Newcastle iGEM Twitter
- [http://www.facebook.com/home.php#/group.php?gid=131709337641 Newcastle on Facebook]
- [http://www.youtube.com/user/newcastle2009igem Newcastle Youtube Channel]