Team:WashU StLouis/Daily
| June 2018 | ||||||
|---|---|---|---|---|---|---|
| Sunday | Monday | Tuesday | Wednesday | Thursday | Friday | Saturday |
| 1 | 2 | |||||
| 3 | 4 | 5 | 6 | 7 | 8 | 9 |
| 10 | 11 | 12 | 13 | 14 | 15 | 16 |
| 17 | 18 | 19 | 20 | 21 | 22 | 23 |
| 24 | 25 | 26 | 27 | 28 | 29 | 30 |
Friday, June 1
No work done today!
Saturday, June 2
No work done today!
Sunday, June 3
No work done today!
Monday, June 4
Present: Cam, Diva, Elizabeth, Havisha, Kyle
- Researched different resistance genes to identify ones that are sequenced and applicable to the project [Elizabeth, Diva, Cam]
- Studied glucosamine detection mechanisms to signal the presence the presence of fungi [Havisha]
- Planned trip to Uganda and human practices potential abroad [Kyle]
Tuesday, June 5
Present: Cam, Diva, Elizabeth, Havisha, Kyle
- Researched different resistance genes to identify ones that are sequenced and applicable to the project [Elizabeth, Diva]
- Compared different aspects of Sr genes [Cam]
- Examined a protocol for rapid cloning of plant disease resistance genes [Diva]
- Studied glucosamine detection mechanisms to signal the presence the presence of fungi [Havisha, Diva]
- Planned trip to Uganda and potential human practices abroad [Kyle]
Wednesday, June 6
Present: Cam, Diva, Elizabeth, Havisha, Kyle
- Examined lengths of resistance gene sequences to begin ordering material [Elizabeth]
- Studied fungal spore traps to limit specificity to Puccinia graminis [Havisha]
- Investigated different detection and reporting mechanisms for reporting information with a device [Cam, Diva]
- Planned trip to Uganda and potential human practices abroad [Kyle]
Thursday, June 7
Present: Cam, Diva, Elizabeth, Havisha, Kyle
- Met with Dr. Brennan to redefine project goals and timeline [Cam, Diva, Elizabeth, Havisha, Kyle]
- Reviewed videos from the BGRI to determine locations of wheat rust fungus prevalence [Elizabeth]
- Prepared presentation for Microsoft partnership meeting and consulted Dr. Brennan on areas for improvement [Cam]
- Studied fungal spore traps to limit specificity to Puccinia graminis [Havisha]
- Continued research on various detection mechanisms [Diva]
- Planned trip to Uganda and potential human practices abroad [Kyle]
Friday, June 8
Present: Cam, Diva, Elizabeth, Havisha
- Met with a representative from Microsoft to establish a technology partnership [Cam]
- Reviewed papers regarding resistance gene interactions (Sr35, Sr22, and Sr45) [Elizabeth]
- Considered phage related detection mechanisms, alongside the use of CRISPR/CAS9 [Diva]
- Studied fungal spore traps to select only ones of Puccinia graminis [Havisha]
Saturday, June 9
No work done today!
Sunday, June 10
No work done today!
Monday, June 11
Present: Cam, Diva, Elizabeth, Havisha
- Prepared a summary of the global impact of rust for Microsoft [Cam]
- Planned for the use of Sr33 and Sr13 [Elizabeth]
- Studied compounds unique to germinated P. graminis and infectious structures [Havisha]
- Investigated the DNA repair mechanism of eukaryotes (fungi in particular) [Diva]
Tuesday, June 12
Present: Cam, Diva, Elizabeth, Havisha
- Revised our project abstract to incorporate changes made over the past week [Cam, Diva, Elizabeth, Havisha]
- Conducted a marketing brainstorming session [Cam, Diva, Elizabeth, Havisha]
- Researched Sr50 and truncating resistance genes [Elizabeth]
- Compiled a research summary for Microsoft [Cam]
- Examined different detection mechanisms for ribitol [Havisha]
- Investigated the DNA repair mechanism of eukaryotes (fungi in particular) [Diva]
Wednesday, June 13
Present: Cam, Diva, Elizabeth, Havisha, Kyle
- Met with Dr. Brennan to assess abstract and project design in preparation to meet with Monsanto [Cam, Diva, Elizabeth, Kyle, Havisha]
- Compiled gene sequences needed for the project [Elizabeth]
- Began developing the wiki [Havisha]
- Identified the sequence for a gene induced by ribotin to transfer into a plasmid and transform E. coli with [Havisha]
- Investigated the DNA repair mechanism of eukaryotes (fungi in particular) [Diva]
- Planned trip to Uganda and potential human practices abroad [Kyle]
Thursday, June 14
Present: Cam, Diva, Elizabeth, Havisha
- Connected with many iGEM teams through social media [Elizabeth, Cam]
- Developed the wiki template and daily notebook log pages [Havisha]
- Attempted to identify promoter sequences induced by ribotin [Diva]
- Investigated truncating Sr50 and fusion proteins [Elizabeth]
Friday, June 15
Present: Cam, Diva, Elizabeth, Havisha
- Developed footer and human practices page of the wiki [Havisha]
- Conducted a call with a grain farmer for fundraising and human practices efforts [Cam]
- Organized presentation in preparation for a meeting with Monsanto [Cam]
- Investigated Sr35 and fusion proteins [Elizabeth]
- Met with Jeff to discuss logistics of project [Havisha, Elizabeth]
Saturday, June 16
No work done today!
Sunday, June 17
No work done today!
Monday, June 18
Present: Cam, Diva, Elizabeth, Havisha
- Worked on presentation in preparation for meeting with Monsanto [Cam, Diva, Elizabeth, Havisha]
- Prepared PBS buffer and LB Agar plates in preparation for interlab [Cam, Diva, Elizabeth, Havisha]
- Developed technology partnership with Microsoft. [Cam]
Tuesday, June 19
Present: Cam, Diva, Elizabeth, Havisha
- Met with Dr. Brennan to prepare for Monsanto presentation. [Cam, Diva, Elizabeth, Havisha]
- Prepared LB buffer and began overnight culture. [Cam, Diva, Elizabeth, Havisha]
Control agar + CM plates made on 6/18
Wednesday, June 20
Present: Cam, Diva, Elizabeth, Havisha
- Prepared chemically competent DH5α E. coli cells [Cam, Diva, Elizabeth, Havisha]
- Developed list of protocols for the wiki [Havisha, Diva]
Thursday, June 21
Present: Cam, Diva, Elizabeth, Havisha
- Toured Monsanto and Pfizer facilities [Cam, Diva, Elizabeth, Havisha]
- Presented to Monsanto researchers to solicit advice and feedback from people in the field [Cam, Diva, Elizabeth, Havisha]
Friday, June 22
Present: Cam, Diva, Elizabeth, Havisha
- Identified gene sequences for ribitol metabolism [Havisha]
- Began investigating LAMP and primers [Diva]
- Studied protein-protein interactions of CC-NLR proteins [Diva, Elizabeth]
- Continued with fundraising efforts and coordinating partnership with Monsanto [Cam]
Saturday, June 23
No work done today!
Sunday, June 24
No work done today!
Monday, June 25
Present: Cam, Diva, Havisha
- Worked on Day 1 of the interlab study protocol [Cam, Diva, Havisha]
Tuesday, June 26
Present: Cam, Diva, Havisha
- Troubleshooted problems with Day 1 transformation [Cam, Diva, Havisha]
- Corresponded with Microsoft regarding digital lab notebook [Cam]
- Solidified gene sequences needed for general detection mechanism [Havisha]
- Began filling out iGEM safety form part 1 [Diva]
Transformed DH5α from interlab studies day one on 6/25
Wednesday, June 27
Present: Cam, Diva, Havisha
- Wrote project overview, background, and general detection mechanism summary for wiki [Havisha]
- Completed safety form [Diva, Havisha]
- Made LB Agar Media [Diva, Havisha]
- Started an overnight culture of DH5α [Diva, Havisha]
Thursday, June 28
Present: Diva, Elizabeth, Havisha
- Submitted safety form [Diva]
- Plated LB Agar plates [Diva, Elizabeth, Havisha]
- Made chemically competent DH5α [Diva, Elizabeth, Havisha]
- Developed banners for wiki pages [Havisha]
Friday, June 29
Present: Diva, Elizabeth, Havisha
- Worked on members’ introductions for the wiki [Diva, Elizabeth, Havisha]
- Tested competency of cells prepared on 6/28 [Diva, Elizabeth, Havisha]
Control agar plate made on 6/28
Saturday, June 30
No work done today!
Sunday, July 1
Present: Diva, Havisha
- Performed calibration protocol for interlab study [Diva, Havisha]
Control agar plate with non-transformed competent cells plated on 6/29
Agar + CM plates with cells transformed with iGEM test kit from 6/29
Monday, July 2
Present: Diva, Elizabeth, Havisha
- Made LB Agar + CM plates [Diva, Elizabeth, Havisha]
- Transformed E. coli DH5α for Interlab Protocol Day 1 [Diva, Elizabeth, Havisha]
Tuesday, July 3
Present: Diva, Elizabeth, Havisha
- Met with Jeff to discuss project goals and progress [Diva, Elizabeth, Havisha]
Wednesday, July 4
Present: Cam, Diva, Elizabeth
- Worked on Day 2 of interlab protocol [Cam, Diva, Elizabeth]
Thursday, July 5
Present: Cam, Diva, Elizabeth
- Worked on Day 3 of interlab protocol [Cam, Diva, Elizabeth]
- Informed of contamination with E. coli and materials [Cam, Diva, Elizabeth]
Friday, July 6
Present: Cam, Diva, Elizabeth, Kyle
- Made 1L LB Broth [Diva]
- Made LB Agar + CM plates [Cam, Elizabeth]
- Made TSS Buffer [Elizabeth, Diva]
- Looked into GPCRs [Kyle]
Saturday, July 7
Present: Cam, Elizabeth
- Transformed DH5α cells using competent cell test kit [Cam, Elizabeth]
Sunday, July 8
Present: Elizabeth
- Checked transformed cell plates for growth [Elizabeth]
Agar + CM plates with cells transformed with iGEM test kit from 7/7
Monday, July 9
Present: Cam, Diva, Elizabeth, Havisha, Kyle
- Consulted with Microsoft computing experts on modelling and device [Cam]
- Finalized ribitol operon sequences to order [Havisha]
- Studied resistance genes and sequences to order [Elizabeth]
Tuesday, July 10
Present: Cam, Diva, Elizabeth, Havisha, Kyle
- Met with Dr. Brennan to discuss project checkpoints and progress [Elizabeth, Havisha, Kyle]
- Made new LB media [Diva]
- Made and plated LB agar and LB agar + CM [Diva, Elizabeth, Havisha]
- Studied resistance genes and sequences to order [Elizabeth]
- Ordered ribitol operon gene sequences [Havisha]
- Met with Dr. Parikh and attended a lecture to develop international human practices [Kyle]
- Began DH5α overnight culture [Diva, Elizabeth, Havisha]
Wednesday, July 11
Present: Diva, Elizabeth, Havisha
- Plated DH5α cells on LB agar plate to check for plate contamination [Havisha]
- Checked plated DH5α cells [Diva, Elizabeth]
Agar plate with overnight culture of DH5α from 7/11
Thursday, July 12
Present: Cam, Diva, Elizabeth, Havisha, Kyle
- Conducted Day 1 of interlab protocol with competent cells from NEB [Cam, Diva, Elizabeth, Havisha, Kyle]
- Discussed human practices progress and integration into project [Cam, Diva, Elizabeth, Havisha, Kyle]
- Checked plated transformed DH5α cells [Diva, Elizabeth]
Agar + CM plates with transformed cells from Day 1 of interlab protocol from 7/12
Friday, July 13
Present: Cam, Diva, Elizabeth, Kyle
- Conducted Day 2 of interlab protocol [Diva, Elizabeth]
- Met with Monsanto plant scientists to discuss project design and resistance genes [Diva, Elizabeth, Kyle]
- Conducted Hour 0 of Day 3 of interlab protocol [Cam, Diva, Elizabeth]
- Made LB Agar + CM plates [Cam, Diva]
Saturday, July 14
Present: Cam, Diva, Elizabeth, Kyle
- Conducted Hour 6 of Day 3 of interlab protocol [Diva, Elizabeth, Kyle]
- Made LB broth [Cam]
Sunday, July 15
No work done today!
Monday, July 16
Present: Cam, Diva, Elizabeth, Havisha, Kyle
- Conducted a production meeting to redefine project progress and delegate individual tasks [Cam, Diva, Elizabeth, Havisha, Kyle]
- Compiling gene sequences for resistance genes [Elizabeth]
- Met with a representative from the Missouri Coalition for the Environment [Kyle]
- Worked on device logistics and reached out to possible advisors for development [Kyle]
- Procured space in WashU makerspace for device prototyping [Cam]
- Solidified wiki homepage formatting [Havisha]
- Looked into longevity of E. coli and yeast and possible alternatives to maintaining a live culture in device [Diva]
Tuesday, July 17
Present: Cam, Diva, Elizabeth, Havisha, Kyle
- Researched biobrick scars and Gibson assembly as a possible alternative [Elizabeth]
- Finalized gene sequences for resistance genes [Elizabeth]
- Began developing poster for EECE interns presentation [Havisha]
- Ordered ribitol for testing transformed cells [Cam]
- Contacted Bayer for possible collaborations with education and human practices [Kyle]
- Worked on device design [Kyle]
- Explored powdered cells for one time use as an alternative to a live culture in device [Diva]
Wednesday, July 18
Present: Cam, Diva, Elizabeth, Havisha, Kyle
- Worked on poster for presentation [Cam, Diva, Elizabeth, Havisha, Kyle]
- Worked on summary presentation for video conference [Cam, Diva, Elizabeth, Havisha, Kyle]
- Looked into plasmids and promoter to use with ribitol operon [Havisha]
- Ordered AvrSr35 gene sequences [Elizabeth]
Thursday, July 19
Present: Cam, Elizabeth, Havisha, Kyle
- Attended and presented at Southern iGEM video conference [Elizabeth, Havisha, Kyle]
- Made Agar + CM plates [Cam, Havisha, Kyle]
- Discussed and consulted grad students regarding golden gate assembly for resistance gene sequences [Cam, Elizabeth, Havisha, Kyle]
- Worked on poster for presentation [Havisha]
Friday, July 20
Present: Cam, Diva, Elizabeth, Havisha, Kyle
- Met with the head of St. Louis Indoor Produce and toured facility for possible collaborations and human practices [Diva, Elizabeth, Havisha, Kyle]
- Met to discuss and define project timeline and goals [Cam, Diva, Elizabeth, Havisha, Kyle]
Saturday, July 21
Present: Diva, Elizabeth, Havisha, Kyle
- Conducted a collaborations video call with the ICT Mumbai iGEM team [Elizabeth, Kyle]
- Attended and presented at North American Kick-off event video conference [Elizabeth, Havisha, Kyle]
- Transformed DH5α with positive and negative controls for interlab CFU/mL protocol [Diva, Havisha]
- Checked plates and began four overnight cultures for interlab CFU/mL protocol [Diva]
Agar + CM plates with transformed cells from for CFU interlab protocol from 7/21
Sunday, July 22
Present: Diva, Havisha
- Conducted dilution and plating steps for interlab CFU/mL protocol [Diva, Havisha]
Monday, July 23
Present: Cam, Diva, Elizabeth, Havisha, Kyle
- Conducted a production meeting to redefine project progress and delegate individual tasks [Cam, Diva, Elizabeth, Havisha, Kyle]
- Met with Dr. Feher to discuss device logistics [Kyle]
- Counted colonies on plates for interlab CFU/mL protocol [Cam, Diva, Elizabeth, Kyle]
- Met with Microsoft to touch base on goals for the modeling component of our project [Cam, Diva, Elizabeth, Havisha, Kyle]
- Met with Dr. Brennan to discuss part assembly and testing of ordered parts [Diva, Elizabeth, Havisha]
Agar + CM plates with diluted cultures of transformed cells from for CFU interlab protocol from 7/22
Tuesday, July 24
Present: Cam, Diva, Elizabeth, Havisha, Kyle
- Toured the Danforth Plant Sciences Center [Cam, Elizabeth, Havisha, Kyle]
- Finished and printed poster [Diva]
Wednesday, July 25
Present: Cam, Diva, Elizabeth, Havisha, Kyle
- Presented at EECE Interns Poster Session [Cam, Diva, Elizabeth, Havisha, Kyle]
- Met with Dr. Kunkel to discuss resistance genes and application of project [Elizabeth, Havisha]
- Ordered Sr35 genes [Elizabeth]
Thursday, July 26
Present: Cam, Diva, Elizabeth, Kyle
- Made ampicillin and chloramphenicol [Cam]
- Made kanamycin [Elizabeth]
- Made LB+Cam plates [Kyle]
- Made overnight DH5α cultures [Diva]
Friday, July 27
Present: Diva, Elizabeth, Kyle
- Made glycerol stocks of DH5α cells [Diva]
- Made competent DH5α cells [Diva, Elizabeth, Kyle]
Saturday, July 28
Present: Elizabeth, Kyle
- Ran competent cell test kit [Elizabeth, Kyle]
- Discussed human practices [Elizabeth, Kyle]
Sunday, July 29
Present: Diva, Elizabeth, Kyle
- Checked plates from competent cell kit [Elizabeth]
- Worked on wiki content for global human practices [Diva, Kyle]
Monday, July 30
Present: Diva, Elizabeth, Kyle
- Grew an overnight culture of DH5α cells [Diva]
- Transformed NEB competent DH5α cells with pSB1C3 (pre-miniprep) [Elizabeth]
- Tested for competent cells [Kyle]
- Met with Dr. Brennan to discuss part assembly and competent cell preparation protocol [Diva, Elizabeth, Kyle]
- Met with Jeff and other grad students to discuss preventing contamination and improving efficacy of interlab technique [Diva, Elizabeth, Kyle]
Tuesday, July 31
Present: Diva, Elizabeth, Kyle
- Made competent DH5α cells [Kyle, Elizabeth]
- Tested TSS and SOC media pH with glass pH probe [Elizabeth, Diva]
Cells transformed with pSB1C3 from 7/30
Results from competent cell test kit from 7/30
Wednesday, August 1
Present: Diva
- Made LB agar plates [Diva]
Thursday, August 2
Present: Cam, Diva, Elizabeth, Kyle
- Made competent DH5α cells [Cam, Diva]
- Transformed competent cells with RFP [Kyle, Elizabeth]
Friday, August 3
Present: Cam, Diva, Elizabeth, Kyle
- Transformed competent cells with Part BBa_K2663000 [Elizabeth, Kyle]
- Made LB agar + CM plates [Diva, Cam]
- Made overnight cultures of cells transformed with RFP [Cam]
Saturday, August 4
Present: Elizabeth, Kyle
- Made LB [Elizabeth, Kyle]
- Made glycerol stocks of overnight cultures [Elizabeth, Kyle]
- Plated cells to check for contamination [Elizabeth, Kyle]
- Ordered miniprep kit [Elizabeth, Kyle]
- Checked plates to ensure lack of contamination [Elizabeth, Kyle]
- Plated overnight cultures [Elizabeth, Kyle]
Sunday, August 5
Present: Elizabeth
- Made glycerol stocks from overnight cultures [Elizabeth]
- Miniprepped RFP, ribitol component promoter, and RBS [Elizabeth]
- Autoclaved new tips and microcentrifuge tubes [Elizabeth]
- Made a negative control to test for contamination in the culture tubes [Elizabeth]
Monday, August 6
Present: Cam, Diva, Elizabeth, Kyle
- Made ampicillin plates [Cam, Diva]
- Measured DNA concentrations using nanodrop [Cam, Diva, Elizabeth, Kyle]
- Made more ampicillin, chloramphenicol, and kanamycin [Cam, Diva]
- Plated pRSII424 on ampicillin plate [Cam, Diva]
Tuesday, August 7
Present: Cam, Diva, Elizabeth, Kyle
- Made an overnight culture of pRSII424 [Cam, Elizabeth, Kyle]
Wednesday, August 8
Present: Elizabeth, Havisha, Kyle
- Minipreped pRSII424 plasmid [Elizabeth, Havisha, Kyle]
- Performed PCR on ribitol operon, ribitol transporter, and AvrSr35 [Elizabeth, Havisha, Kyle]
- Began an overnight culture of DH5α cells [Elizabeth, Havisha]
Thursday, August 9
Present: Cam, Havisha, Kyle
- Conducted collaboration video calls with Cardiff, Westminster, and University of Minnesota iGEM teams [Havisha, Kyle]
- Made competent DH5α cells [Cam]
- Performed PCR on yeast plasmid backbone [Havisha]
- Made and ran gel electrophoresis with PCR products [Havisha]
Friday, August 10
Present: Elizabeth, Havisha
- Performed PCR on ribitol operon, ribitol transporter, and AvrSr35 [Havisha]
- Made and ran gel electrophoresis with PCR products [Havisha]
- Transformed DH5α cells with mini prepped pSB1C3 plasmid with RFP [Elizabeth]
- Transformed DH5α cells with YFP Part BBa_I6031[Elizabeth]
Saturday, August 11
Present: Cam, Havisha
- Purified ribitol transporter and AvrSr35 from agarose gel [Cam, Havisha]
- Performed PCR on ribitol operon, ribitol transporter, and pRSII424 plasmid [Cam, Havisha]
- Made and ran gel electrophoresis with PCR products [Cam, Havisha]
Cells transformed with pSB1C3 from 8/10
Sunday, August 12
Present: Cam, Havisha
- Performed PCR on ribitol operon and ribitol transporter [Havisha]
- Made SOC Media [Cam]
- Purified pRSII424 plasmid from agarose gel [Cam, Havisha]
- Transformed DH5α cells with pSB1A3 plasmid [Cam, Havisha]
- Transformed DH5α cells with pSB1K3 plasmid [Cam, Havisha]
- Transformed DH5α cells with YFP Part BBa_I6031 [Cam, Havisha]
Monday, August 13
Present: Cam, Havisha
- Began an overnight culture of cells transformed with pSB1A3 plasmid [Havisha]
- Made LB agar + Kanamycin plates [Cam, Havisha]
- Transformed DH5α cells with pSB1K3 plasmid [Cam, Havisha]
- Transformed DH5α cells with YFP Part BBa_I6031 [Cam, Havisha]
Cells transformed with pSB1A3 from 8/12
Cells transformed with YFP from 8/12
Tuesday, August 14
Present: Cam, Havisha
- Made LB + Amp Media [Cam, Havisha]
- Made LB + Kan Media [Cam, Havisha]
- Began an overnight culture of DH5α cells with pSB1K3 plasmid [Cam, Havisha]
- Began an overnight culture of DH5α cells with YFP Part BBa_I6031 [Cam, Havisha]
- Began an overnight culture of DH5α cells with pSB1A3 plasmid [Cam, Havisha]
Cells transformed with pSB1K3 from 8/13
Cells transformed with YFP from 8/13
Wednesday, August 15
Present: Cam, Elizabeth, Havisha, Kyle
- Miniprepped pSB1K3 plasmid [Cam, Elizabeth, Havisha]
- Miniprepped YFP Part BBa_I6031 [Cam, Elizabeth, Havisha]
- Miniprepped pSB1A3 plasmid [Cam, Elizabeth, Havisha]
- Worked on arduino coding for device [Kyle]
- Transformed electrocompetent DH5α cells for practice [Cam, Elizabeth, Havisha, Kyle]
Overnight cultures of YFP, pSB1A3 plasmid, and pSB1K3 plasmid from 8/14
Thursday, August 16
Present: Cam, Elizabeth, Havisha, Kyle
- Met with Dr. Shah from the Danforth Plant Science Center [Cam, Elizabeth, Havisha, Kyle]
- Transformed DH5α cells for Day 1 of the interlab protocol [Cam, Elizabeth, Havisha, Kyle]
- Transformed electrocompetent DH5α cells for practice [Cam, Elizabeth, Havisha, Kyle]
Friday, August 17
Present: Cam, Elizabeth, Kyle
- Attended the iGEM Midwest Meetup [Cam, Elizabeth]
- Started overnight cultures for Day 2 of the interlab protocol [Kyle]
Saturday, August 18
Present: Cam, Elizabeth, Kyle
- Started overnight cultures for Day 2 of the interlab protocol [Elizabeth]
- Transformed DH5α cells with positive control, negative control, and test device two for Day 1 of the interlab protocol [Cam, Elizabeth, Kyle]
Sunday, August 19
Present: Cam, Elizabeth
- Made overnight cultures of positive control, negative control, and test device two for Day 2 of the interlab protocol [Cam]
- Performed part three of the interlab calibration protocol [Elizabeth]
- Made LB agar and chloramphenicol plates [Elizabeth]
Monday, August 20
Present: Cam, Elizabeth, Kyle
- Finalized sequencing primers [Elizabeth]
- Transformed DH5α cells with positive control, test device one, test device two, and test device three for Day 1 of the interlab protocol [Cam, Elizabeth, Kyle]
- Made LB agar and chloramphenicol plates [Cam, Elizabeth]
- Transformed DH5α cells with YFP [Kyle]
Tuesday, August 21
Present: Cam, Elizabeth, Kyle
- Transformed DH5α cells with Gal1, Tef2, and RFP + terminator [Cam, Elizabeth, Kyle]
Wednesday, August 22
Present: Cam, Kyle
- Autoclaved water and culture tubes [Cam, Kyle]
- Made overnight cultures of Gal1, Tef2, and RFP + terminator [Cam]
Thursday, August 23
Present: Cam
- Made overnight cultures of for Day 2 of the interlab protocol [Cam]
Friday, August 24
Present: Elizabeth, Havisha, Kyle
- Performed hour zero preparations for Interlab Day 3 [Havisha]
- Performed hour six for Interlab Day 3 [Elizabeth]
- Set up digestion reactions for Sr35 part 1, Sr35 part 2, GAL1, and TEF1 [Elizabeth]
- Ran gel with Sr35 part 1, Sr35 part 2, GAL1, and TEF1 [Elizabeth, Havisha]
- Performed PCR for AvrSr35 [Havisha]
- Autoclaved tips [Kyle]
Saturday, August 25
Present: Havisha, Kyle
- Purified GAL1 and TEF1 from gel [Havisha]
- Performed PCR for AvrSr35 [Kyle]
- Ran gel with AvrSr35 PCR product to confirm fragment size [Havisha]
Sunday, August 26
No work done today!
Monday, August 27
Present: Cam, Diva, Elizabeth, Havisha, Kyle
- Met with Dr. Brennan to discuss project progress, logistics, and possible troubleshooting [Cam, Diva, Elizabeth, Havisha, Kyle]
Tuesday, August 28
Present: Elizabeth, Havisha, Kyle
- Performed PCR for pRSII424 plasmid [Elizabeth]
- Set up digestion reactions for ribitol operon and ribitol transporter [Elizabeth, Kyle]
- Set up digestion reactions for RFP + terminator and promoter + RBS [Elizabeth, Havisha]
- Made and ran gel with ribitol operon and ribitol transporter [Elizabeth, Havisha]
Wednesday, August 29
Present: Cam, Havisha
- Purified ribitol transporter from gel [Havisha]
- Made and ran gel to confirm pRSII424 plasmid [Cam, Havisha]
- Purified digestion reactions for RFP + terminator [Cam, Havisha]
Thursday, August 30
Present: Cam, Elizabeth, Havisha, Kyle
- Made and ran gel to confirm pRSII424 plasmid and AvrSr35 [Cam, Elizabeth, Havisha]
- Set up ligation reaction for ribitol transporter and RFP + terminator [Cam, Elizabeth, Havisha]
- Transformed DH5α cells with ligation products [Cam, Elizabeth, Kyle]
Friday, August 31
Present: Elizabeth
- Checked transformation plates [Elizabeth]
Saturday, September 1
No work done today!
Sunday, September 2
Present: Elizabeth
- Checked transformation plates [Elizabeth]
Monday, September 3
Present: Elizabeth
- Made PCR Mix [Elizabeth]
- Performed PCR for Sr35 part 1, AvrSr35, RFP + terminator, ribitol operon, promoter + RBS, and ribiol transporter [Elizabeth]
- Made and ran gel with Sr35 part 1, AvrSr35, RFP + terminator, ribitol operon, promoter + RBS, and ribiol transporter [Elizabeth]
- Set up digestion reaction for Sr35 part 1, AvrSr35, RFP + terminator, ribitol operon, promoter + RBS, and ribiol transporter [Elizabeth]
Tuesday, September 4
Present: Cam, Elizabeth, Havisha
- Performed PCR for ribitol operon and ribitol transporter [Elizabeth]
- Set up digestion reactions for RFP + terminator, ribitol operon, promoter + RBS, and ribiol transporter [Elizabeth]
- Made and ran gel with RFP + terminator, ribitol operon, promoter + RBS, and ribiol transporter [Cam, Elizabeth]
- Made and ran gel with AvrSr35, Sr35 part 1, RFP + terminator, yeast plasmid, and promoter + RBS [Elizabeth]
- Purified AvrSr35, Sr35 part 1, yeast plasmid, and promoter + RBS from gel [Havisha]
Wednesday, September 5
Present: Elizabeth, Havisha
- Set up digestion reactions for Tef1 and RFP + terminator [Havisha]
- Made and ran gel with Tef1 and RFP + terminator [Havisha]
- Purified Tef1 and RFP + terminator from gel [Elizabeth, Havisha]
- Set up digestion reaction for Tef1 [Elizabeth]
- Made and ran gel with Tef1 and cut out bands [Elizabeth, Havisha]
Thursday, September 6
Present: Cam, Elizabeth, Havisha, Kyle
- Purified Tef 1 from gel [Elizabeth]
- Set up digestion reaction for AvrSr35 and Sr35 part 1 [Elizabeth]
- Made and ran gel with AvrSr35 and Sr35 part 1 [Havisha, Kyle]
- Made LB agar and ampicillin plates [Havisha, Kyle]
- Purified AvrSr35 and Sr35 part 1 from gel [Elizabeth]
- Set up ligation reaction for AvrSr35 + Gal1 and Sr35 + Gal1 [Havisha]
- Transformed DH5α cells with ligation products [Cam, Havisha]
Friday, September 7
Present:Cam, Diva, Elizabeth, Havisha, Kyle
- Met to discuss goals for the week and progress [Cam, Diva, Elizabeth, Havisha, Kyle]
- Checked plates [Havisha]
Saturday, September 8
Present: Elizabeth
- Performed PCR on ribitol transporter, AvrSr35, pRS424 plasmid, Sr35 [Elizabeth]
Sunday, September 9
Present: Cam, Diva, Elizabeth, Havisha
- Set up digestion reactions for pRS424 plasmid and pSB1K3 plasmid [Elizabeth, Havisha]
- Made and ran gel for pRS424 plasmid [Elizabeth, Havisha]
- Purified pRS424 plasmid from gel [Elizabeth, Havisha]
- Made and ran gel for pSB1K3 plasmid [Havisha]
- pSB1K3 plasmid’s RFP insert from gel [Havisha]
- Set up ligation reaction between pRS424 plasmid and RFP insert [Cam]
- Transformed DH5α cells with ligation products [Cam]
Monday, September 10
Present: Cam, Diva, Elizabeth, Havisha, Kyle
- Met to discuss goals for the week and progress [Cam, Diva, Elizabeth, Havisha, Kyle]
- Checked plates [Elizabeth]
Tuesday, September 11
Present: Cam, Elizabeth, Havisha, Kyle
- Met to edit abstract [Cam, Elizabeth, Havisha, Kyle]
- Made and ran gel for ribitol transporter [Elizabeth]
- Set up digestion for AvrSr35 [Elizabeth]
- PCR purified digestion of AvrSr35 [Elizabeth, Havisha]
- Set up ligation reaction between AvrSr35 and Gal1 [Elizabeth, Havisha]
Wednesday, September 12
Present: Elizabeth, Havisha, Kyle
- Set up digestion for Sr35 part 1 [Elizabeth]
- PCR purified digestion of Sr35 part 1 [Elizabeth, Havisha]
- Set up ligation reaction between Sr35 part 1 and Gal1 [Havisha]
- Transformed DH5α cells with ligation products [Havisha, Kyle]
Thursday, September 13
Present: Elizabeth
- Checked plates [Elizabeth]
Present: Elizabeth, Havisha, Kyle
- Performed PCR on pRS424 plasmid [Elizabeth]
- Set up digestion for AvrSr35, pRS424 plasmid, ribitol transporter, and Sr35 part 1 [Elizabeth]
- PCR purified AvrSr35, pRS424 plasmid, ribitol transporter, and Sr35 [Havisha]
- Plated cells transformed with pSB1C3 [Kyle]
- Set up digestion for promoter + RBS, ribitol transporter, and RFP + terminator [Elizabeth]
- Organized parts and enzymes inventory [Elizabeth, Kyle]
Saturday, September 15
Present:Elizabeth, Havisha, Kyle
- Checked plates [Havisha]
- PCR purified promoter + RBS, ribitol transporter, and RFP + terminator [Havisha]
- Began overnight cultures of pSB1C3 [Kyle]
- PCR purified AvrSr35, Sr35 part 1, and pRS424 plasmid [Havisha]
- Set up digestion reactions for Sr35 part 1, pRS424 plasmid, pSB1C3, and promoter + RBS [Havisha]
- Set up ligation reaction between Sr35 part 1 and Gal1 and pRS424 plasmid and RFP insert from pSB1C3 [Havisha]
- Transformed DH5α cells with ligation products and RFP + terminator [Elizabeth, Havisha]
- Performed PCR on ribitol operon and ribitol transporter [Elizabeth]
Plated cells transformed with pSB1C3 from 9/14
Monday, September 16
Present:
Monday, September 17
Present:
Tuesday, September 18
Present:
Wednesday, September 19
Present:
Thursday, September 20
No work done today!
Friday, September 21
No work done today!
Saturday, September 22
No work done today!
Sunday, September 23
No work done today!
Monday, September 24
No work done today!
Tuesday, September 25
No work done today!
Wednesday, September 26
No work done today!
Thursday, September 27
No work done today!
Friday, September 28
Present: Collin
Lab Work
- Refreshed Cyanobacteria culture [Collin]
Outside Work / Discussion
Saturday, September 29
No work done today!
Sunday, September 30
Present:Collin, Micah, Mark
Lab Work
- Performed PCR on Dsup, uvsE, phrAC, and phrAT for the GoldenBraid assembly [Collin]
- Performed the UV irradiaton test for uvsE, phrAC, and the control [Micah, Mark, Collin]
Outside Work / Discussion
Monday, October 1
No work done today!
Tuesday, October 2
Present: Collin
Lab Work
- Measured the ODs of the Cyanobacteria culture [Collin]
- 3.413 (#1), 0.1370 (#2)
Outside Work / Discussion
Wednesday, October 3
Present:Maddie
Lab Work
- Measured the OD of the cyanobacteria culture [Maddie]
- 0.1452 (#2)
Outside Work / Discussion
Thursday, October 4
Present:Maddie
Lab Work
- Measured the OD of the cyanobacteria culture [Maddie]
- 0.3725 (#2)
Outside Work / Discussion
Friday, October 5
Present:Maddie
Lab Work
- Measured the OD of the cyanobacteria culture [Maddie]
- 0.6746 (#2)
Outside Work / Discussion
Saturday, October 6
Present:Mark
Lab Work
- Prepared LB Media [Mark]
Outside Work / Discussion
Sunday, October 7
Present:Mark, Maddie
Lab Work
- Prepared LB Agar [Mark]
- Prepared overnight cultures of BCP, uvsE, and phrAC [Maddie]
Outside Work / Discussion
Monday, October 8
Present:Mark, Micah
Lab Work
- Prepared for a UV irradiation test for uvsE, phrAC, and BCP control [Mark, Micah]
Outside Work / Discussion
Tuesday, October 9
Present: Collin
Lab Work
- Measured the OD of the cyanobacteria culture [Maddie]
- 3.1760 (#2)
Outside Work / Discussion
Wednesday, October 10
Present: Collin
Lab Work
- Digested neomycin phosphotransferase (nptII) and pSB1C3 [Colin]
- Ran a gel electrophoresis for the digested nptII and pSB1C3 [Collin]
- Transformed uvsE+BCP into E. coli [Collin]
Outside Work / Discussion
Thursday, October 11
Present: Collin
Lab Work
- Made Kanamycin plates [Collin]
- Prepared bacterial stabs of Dsup, phrAC, and phrAT for the UChicago team [Collin]
Outside Work / Discussion
Friday, October 12
No work done today!
Saturday, October 13
No work done today!
Sunday, October 14
No work done today!
Monday, October 15
No work done today!
Tuesday, October 16
Present: Mark
Lab Work
- Gel purified pSB1C3 and nptII [Mark]
- Ligated pSB1C3 and nptII [Mark]
- Transformed pSB1C3+nptII [Mark]
Outside Work / Discussion
Wednesday, October 17
No work done today!
Thursday, October 18
No work done today!
Friday, October 19
Present: Collin
Lab Work
- Streaked phrAT, phrAC, BCP, uvsE, and BCP [Collin]
Outside Work / Discussion
Saturday, October 20
Present: Collin
Lab Work
- Transformed lac+RBS+Dsup+BCP into E.coli cells [Collin]
- Prepared cultures of lac+RBS+Dsup, lac+RBS+BCP, and lac+RBS+uvsE [Collin]
Outside Work / Discussion
Sunday, October 21
Present: Micah
Lab Work
- Transformed medium promoter+medium RBS (BBa_K608006) into E. coli [Micah]
- Prepared cultures from previous transformation [Micah]
Outside Work / Discussion
Monday, October 22
Present:Collin
Lab Work
- Made glycerol stocks of lac+RBS+Dsup+RBS+BCP+pSB1C3 [Collin]
Outside Work / Discussion
Tuesday, October 23
Present: Collin
Lab Work
- Miniprepped lac+RBS+BCP+pSB1C3 [Collin]
Outside Work / Discussion
Wednesday, October 24
Giant Jamboree!
Thursday, October 25
Giant Jamboree!
Friday, October 26
Giant Jamboree!
Saturday, October 27
Giant Jamboree!
Sunday, October 28
Giant Jamboree!
Monday, October 29
No work done today!
Tuesday, October 30
No work done today!
Wednesday, October 31
No work done today!