Boston UniversityStatus
From 2007.igem.org
Contents |
What We've Accomplished
Making Shewanella Competent and Transforming Plasmid
Materials We Need
Error-Prone PCR: Need to Buy
Ligases: Need to Buy?
Short-Term To-Do List
David: 1)Look up metal-sensitive/redox-sensitive chelating dyes for Tim's grant 2)Look up how to control alginate bead size for Tim's grant 3)Begin primer design for pJQ200 (regulator, promoter, global transcription regulators) 4)send stuff to Danny for wiki update 5)grow overnight of the shewie zymo for miniprep tomorrow
Rahul: 1)Work on compiling documents, protocols, results and send to Danny for Wiki updates 2)Understand error-prone PCR and write a short summary/outline of important details and key steps (and problem areas and controls)
Christian: 1)Decide on promoters, regulators to put into pJQ200 2)document this stuff so we can wiki it
Danny: 1)Wiki needs a format update /new look. we'll email some suggestions for you to look at later today 2)receive info from us and update wiki
Protocols
Calcium Chloride/Heat Shock Plasmid Transformations Protocol
pTrcHis TOPO TA Expression Kit Cloning Protocol
Using NEBCutter for checking specific restriction enzymes against a sequence
Procedure for 50 mL E. Coli mixture in Zymo Broth or SOB
Question and Answer
Bold=new question/answer
Q: Can we get the kanR gene with appropriate sticky ends for BsaI and Tth111I? (DB)
A: yeah, we can get the DNA template for the kanR gene from the lab. we'll need to design some primers to PCR amplify it out with the BsaI and Tth111I cut sites. after cutting with the restriction enzymes, the kanR will have the appropriate sticky ends. frank suggested that we try ligating the kanR gene to the global regulator gene. (ie. kanR ligated to hlyU) and then stick that into the pJQ200. this way we can select for succesfull hlyU transformations with kanamycin
Q: Ok, good. Do those primers still need to be ordered? And if we follow Frank's suggestion, what will go in place of the gtmR gene?
A: the hlyU-kanR gene will be inserted into gmtR. the sacB will be left untouched if this method is used. the other method we can do is to just kill the gmtR gene, then insert hlyU into sacB. we will then add sucrose so any bacteria with a sacB site will die. since hlyU will be interrupting the sacB site, successfull transformations with hlyU will survive the sucrose selection
Q: So according to the first method, you'd have to never expose the bacteria to sucrose. Are we sure this is possible (some of the media might contain sucrose). According to the second method, won't bacteria without plasmids survive? I suppose we could expose them to more antibiotics then. Is there a problem with the plan I think I got out of our talks on Friday (ie the one on this wiki--inserting kanR into gtmR and hlyU into sacB?)
A: so if we insert kan into gmtr and hlyu into sacb we could have several possible plasmids: (1)(ideally) kan inserts into gmtr and hlyu inserts into sacb. so this is conjugated into shewy which has a gent resistance already. a double selection with the antibiotic kan and gent will select for this plasmid (and add some sucrose too to get rid of the unwanted plasmid (2) (2)kan inserts into gmtr, hlyU insertion doesnt happen. so we have kan resistance and sacB in this plasmid. adding sucrose will kill this plasmid cuz of the presence of sacB (3)hlyU inserts into sacB but kan doesn't insert into gmtr. so we have gent resistance and have no sacB. a double selection plate will kill this because there's no kan resistance. (4)hlyU does not insert into sacB, kan does not insert into gmtr. so this is just plasmid pJQ200. kan and sucrose will kill this guy.
shewy that don't have plasmid will not survive in the presence of kanamicin.
the e.coli S17-1 has no kan resistance so it will die in the double selection methods
Q: Also, can someone update the primer design section? Also also, have thank you letters been sent?
A: i'll get on both of those by monday's end
Q: hey danny not quite sure how to make the image i just uploaded fit well (the figure with what we plan to do over the next month)
A: Looks pretty good to me
Q: Can I move the Lab Design and Notes sections to the What We've Accomplished section?
A: yeah
Q: OK, I think that all three things from the Lab Design and Notes sections are now put in other places--the first section under What We've Accomplishd, the final two under Protocols. Just verify that before we get rid of that page.
A: looks good. delete away!
