Difference between revisions of "P1 Lab Activities"
| Line 1: | Line 1: | ||
[[File:Hackuarium_logo15.png|200px|thumb|]] | [[File:Hackuarium_logo15.png|200px|thumb|]] | ||
| − | + | Our P1 lab in Ecublens was inspected by representatives of the federal office for the environment in 2019 and more recently, in 2023. More documentation of our activities can be found linked from this page. | |
| − | + | ''Notre laboratoire P1 était inspecté par les mandataires de l'office fédéral de l'environnement (OFEV) en 2019 et en 2023. Plus de documentation de nos activités sont liées de cette page.'' | |
| − | |||
| − | |||
| − | |||
| − | |||
| − | |||
| − | |||
| − | |||
| − | ''Notre laboratoire P1 était inspecté par les mandataires de l'office fédéral de l'environnement en 2019 et 2023. Plus de documentation de nos activités | ||
<br> | <br> | ||
| Line 24: | Line 16: | ||
One catalyst to get the laboratory equipped was the participation of Dan Hernandez and Thomas Jordon to the "[https://bio.academany.org | How To Grow Almost Anything]" (HTGAA) course organised by MIT professor George Church.<br> | One catalyst to get the laboratory equipped was the participation of Dan Hernandez and Thomas Jordon to the "[https://bio.academany.org | How To Grow Almost Anything]" (HTGAA) course organised by MIT professor George Church.<br> | ||
| − | =Biosafety Officers= | + | =History and Biosafety Officers= |
| − | + | A P1 laboratory, allowing members to select for bacterial clones carrying plasmids they wanted to use or make, was officially functional at the old Hackuarium site in Renens between 1 November and 1 September 2018. The Hackuarium community laboratory then had to move to another location at this point. | |
| − | Rachel Aronoff is | + | After finding our new space in the context of a cooperative in Ecublens, we kept aiming to support members' projects and to safely pursue research, even during the time of the Covid-19 pandemic, when (not so surprisingly, after our friend Guy ran a GMO Detective workshop for our 5th anniversary festivities) we even contributed to a special 'Corona Detective' project.<br><br>One aspect that was particularly important to Hackuarium was to have professionally trained biosafety officers to oversee the work done in the P1 laboratory.<br> |
| + | |||
| + | Rachel Aronoff is the biosafety officer for the space, while Olivier Emery initially agreed to take on the role of deputy biosafety officer, and later Javier Ortiz took his place.<br> | ||
If you need to contact them in particular about any proposed or in progress P1 activities, this is the best email address: biolab@hackuarium.ch <br> | If you need to contact them in particular about any proposed or in progress P1 activities, this is the best email address: biolab@hackuarium.ch <br> | ||
| − | More than a dozen people have already taken the "Introduction to biosafety" training. More training sessions can be organised upon request. <br> | + | More than a dozen people have already taken the "Introduction to biosafety" training necessary for full access to the P1 space. More training sessions can be organised upon request. <br> |
| − | <br> | + | This page needs more updates and is still lacking its French translation. If you are interested in helping, please reach out!<br> |
=P1 experiments at Hackuarium= | =P1 experiments at Hackuarium= | ||
| − | Initially, these will all be limited to bacterial growth of plasmid constructs. <br> | + | Initially, these will all be limited to bacterial growth of plasmid constructs**. <br> |
Both classical and 'synthetic biology' strategies are possible! <br> | Both classical and 'synthetic biology' strategies are possible! <br> | ||
| − | Notification to OFEV of ''C. elegans'' crispr collaboration with colleagues at Biozentrum (Basel) also made.<br> | + | Notification to OFEV of ''C. elegans'' crispr collaboration with colleagues at Biozentrum (Basel) also made. |
| + | |||
| + | |||
| + | <nowiki>**</nowiki> 'Construct' is the old school term for a plasmid, and 'to construct' is the proper verb for this process, btw, even if many people like to talk about cloning when putting bits of DNA together.<br> | ||
==List of P1 Experiments== | ==List of P1 Experiments== | ||
''Make sure to link your project pages here!'' <br> | ''Make sure to link your project pages here!'' <br> | ||
(more to come soon! ) <br> | (more to come soon! ) <br> | ||
| − | [http://wiki.hackuarium.ch/w/Normalfreezer_expt DH5alpha test] | + | A [http://wiki.hackuarium.ch/w/Normalfreezer_expt DH5alpha test] began this adventure, with first test streaks done late in 2017... <br> |
| − | Bioluminescent strain growth <br> | + | Bioluminescent strain growth (turned out our presumptive ''Vibrio fischeri'' was actually ''Photobacterium phosphoreum''!)<br> |
| − | Mixed biosensor strain (containing 2 plasmids, an arsenic inducible GFP and constitutive mCherry)<br> | + | Mixed biosensor strain (containing 2 plasmids, an arsenic inducible GFP and constitutive mCherry from DMF-UNIL) *images below)<br> |
HTGAA set [http://wiki.hackuarium.ch/w/HTGAA in the old space especially!]<br> | HTGAA set [http://wiki.hackuarium.ch/w/HTGAA in the old space especially!]<br> | ||
[[OpenInsulin|Open Insulin]] | [[OpenInsulin|Open Insulin]] | ||
| Line 57: | Line 54: | ||
| − | Validation of OGM inactivation for disposal... (done with pJAMA-GFP | + | Validation of OGM inactivation for disposal... (done with pJAMA-GFP - new page to come soon. ) |
| + | |||
| + | ==SOPs and List of Potential P1 Experiments== | ||
| + | SOP for inactivation of GMO (bilingual) | ||
| − | |||
<br>Lumina project? | <br>Lumina project? | ||
| − | more<br> | + | more for Open Insulin? |
| + | |||
| + | <br> | ||
others??<br> | others??<br> | ||
Revision as of 09:08, 31 May 2023
Our P1 lab in Ecublens was inspected by representatives of the federal office for the environment in 2019 and more recently, in 2023. More documentation of our activities can be found linked from this page.
Notre laboratoire P1 était inspecté par les mandataires de l'office fédéral de l'environnement (OFEV) en 2019 et en 2023. Plus de documentation de nos activités sont liées de cette page.
Inspiration
Several Hackuarium members have been working towards the goal of having a certified P1 laboratory since the foundation of the association in the spring of 2014.
In particular Yann P, Sam S and others did great leg-work, and even installed a 'green house' enclosure in the former open space (prior to renovation of UniverCité's second floor space).
All the work leading up to us finally getting the lab up and running is documented in this page (work in progress).
One catalyst to get the laboratory equipped was the participation of Dan Hernandez and Thomas Jordon to the "| How To Grow Almost Anything" (HTGAA) course organised by MIT professor George Church.
History and Biosafety Officers
A P1 laboratory, allowing members to select for bacterial clones carrying plasmids they wanted to use or make, was officially functional at the old Hackuarium site in Renens between 1 November and 1 September 2018. The Hackuarium community laboratory then had to move to another location at this point.
After finding our new space in the context of a cooperative in Ecublens, we kept aiming to support members' projects and to safely pursue research, even during the time of the Covid-19 pandemic, when (not so surprisingly, after our friend Guy ran a GMO Detective workshop for our 5th anniversary festivities) we even contributed to a special 'Corona Detective' project.
One aspect that was particularly important to Hackuarium was to have professionally trained biosafety officers to oversee the work done in the P1 laboratory.
Rachel Aronoff is the biosafety officer for the space, while Olivier Emery initially agreed to take on the role of deputy biosafety officer, and later Javier Ortiz took his place.
If you need to contact them in particular about any proposed or in progress P1 activities, this is the best email address: biolab@hackuarium.ch
More than a dozen people have already taken the "Introduction to biosafety" training necessary for full access to the P1 space. More training sessions can be organised upon request.
This page needs more updates and is still lacking its French translation. If you are interested in helping, please reach out!
P1 experiments at Hackuarium
Initially, these will all be limited to bacterial growth of plasmid constructs**.
Both classical and 'synthetic biology' strategies are possible!
Notification to OFEV of C. elegans crispr collaboration with colleagues at Biozentrum (Basel) also made.
** 'Construct' is the old school term for a plasmid, and 'to construct' is the proper verb for this process, btw, even if many people like to talk about cloning when putting bits of DNA together.
List of P1 Experiments
Make sure to link your project pages here!
(more to come soon! )
A DH5alpha test began this adventure, with first test streaks done late in 2017...
Bioluminescent strain growth (turned out our presumptive Vibrio fischeri was actually Photobacterium phosphoreum!)
Mixed biosensor strain (containing 2 plasmids, an arsenic inducible GFP and constitutive mCherry from DMF-UNIL) *images below)
HTGAA set in the old space especially!
Open Insulin
smg-4 revisited (C. elegans gene for quality control of gene expression)
Validation of OGM inactivation for disposal... (done with pJAMA-GFP - new page to come soon. )
SOPs and List of Potential P1 Experiments
SOP for inactivation of GMO (bilingual)
Lumina project?
more for Open Insulin?
others??
Key Aims
To learn, have fun, and avoid problems!
Here is the link to all the P1 safety info, list of users and list of strains for future reference.
Watch this space for more soon!
Gallery
The first images are of plates carrying our first plasmid strains, streaked at UNIL and grown in our own incubator, and of Vlad streaking the bioluminescent strain...
The big -80 freezer behind him can hold our stock, at DMF UNIL, until we know if the -20 method will work, or are more fully equipped!
To note: The bioluminescent strain is supposed to be moderately expressed, but on the plate after overnight incubation at 37oC, almost no light is visible by eye...
A liquid culture will be attempted next...
Vlad helpfully found it in the DMF collection, but more work is planned to make it bright!
The second strain actually carries two plasmids, a constitutive mCherry one, and an arsenic inducible GFP one... The experiment being tested is whether, by plating this strain on the two different antibiotics, new sub-strains can be selected carrying each plasmid alone... (we already have stocks of the parent strain in the UNIL freezer! It was actually made by Rachel for her 'nematode assisted biosensor analyses' from a few years back!)
There are a couple more images for the test of bacterial strain stability in the -20 freezer, with the DH5alpha strain frozen in either glycerol vs milk. This isn't strictly a P1 experiment, because these bacteria were not selected and carry no plasmids... If they are stable, however, in other words, if they can be repeatedly propagated from this stock, this will mean our P1 lab may not need (even though it would be good if we were able to get one!) a -80 freezer, as is the usual standard for strain stocks...
Come join us!
Timeline for Project Initiation
1) Talk with everyone about your ideas and what you would like to do.
2) Take the safety course and do risk assessment on your idea.
3) Start documenting your idea in the wiki. You can use this template developed by YannP as a guide.
4) Fill in the form, also developed by YannP!
5) Get going! (ask for a minigrant, if necessary for obtaining reagents or other materials.)
Further information
- Here is the P1 standard operating procedure, which is still a work in progress!
See something that needs mentioning? You can help contribute!
- Do you have questions? Maybe you can't reach Rachel or Javier, or want to find out more before even trying to ask them?? There is a service in the DIYBio community for this Ask a Biosafety Professional! Use it!
Remember, being clueless is no excuse!!