User:Fermenter User/Notebook/BROM F5

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Background color codes:  Pastel Green: Major change of setup this time  yellow: Sung-Hye's correction or question to user

Letter color codes: Black: Basic comment Red: Emergency Information (Power shutdown, building access, Manager's absence etc) Blue: Fermentation Setup information Green: Discussion Orange: Fermentation hrs Purple: Induction hrs

BROM F5

Day -4 (Nov 20 Fri):
Discussion about Glycerol Feeding Methods and Inoculum 1. Glycerol feeding: Start fermentation with BMGY: 1% final concentration of Glycerol in 5-L media. No more additional feeding will be added. Based on BROM F1 experiment, metabolism switch from Glycerol to MeOH occurred around 22hr fermentation 14 hr MeOH induction We don't have record of OD of that time, but OD measurement at 28:30 hr fermentation was 12-13. We want to keep the same condition, and hope that cells are continue to grow to 20 or more in the presence of MeOH (set to 0.5%). 2. Inoculum volume and density: Same as BROM F1, but inoculate late of Day 0 17:00.              9/4/2009 (12:30)  Autoclaved one 500ml flask for culturing. Prepared all necessary media components for fermentation: 1. 1.0L 10x YNB (filtered, excess amount) 2. 1.0L Phosphate buffer, pH 6.0 (autoclaved, excess amount) 3. 0.5L 10x Glycerol (filtered) 4. 20mL 500x Biotin (filtered, excess amount) (Take half of each above media components, and combine them to make 1 bottles of 1.25L culturing media) 5. 6L 100% Methanol(non-HPLC grade)

Day -2 (Nov 22 Sun):
             9/8/2009 (12:30) Used MD media for first stage cell culturing 2 flasks of 250mL BMGY for second stage culturing before fermentation for each mutant.              9/8/2009 (12:50) Culture 5uL stocks D5 in 6mL MD media at 28.5C over night.

Day -1 (Nov 23 Mon):
          11/23/2009 (12:00)    Prepared bottles: 1) Acid, 1-L (tubing separate)                                                  2) Base, 500-ml (tubing connected) 3) MeOH, 1-L (tubing connected)                                                 4) Adjutives, 1-L (tubing connected) 5) Water, 2-L                               11/23/2009 (13:30)    Assemble bioreactors:                                                                          1. 2 x 3.5-L of BMXY:                                 2. 1 ml of antifoam/ fermenter                                  Autoclave

             9/9/2009 (16:00)     Mutant reached O.D =6 Take 0.1 mL of each culture and regrew them in 250mL BMGY for next day fermentation.              9/9/2009 (17:00) Leave the master culturing media containing the following items in the fermenter room: 1) Potassium Phosphate                                                 2) YNB 3) Biotin                                                 4) Glycerol

Day 0 (Sep 10 Thu):
          11/24/2009 (10:00)     Cooling bioreactors: 400 rpm 11/24/2009 (10:00)    Purge Air 1 L/min at 400 rpm 11/24/2009 (10:40)    Start Fermenter #1 software 11/24/2009 (10:41)    Start Fermenter #2 software 11/24/2009 (11:00)    Connect Acid and Base bottles Acid (500 ml) Base (400 ml)<--- Use (1M) for Base, Check tomorrow 11/24/2009 (11:26)    Calibrate dO2 probes 11/24/2009 (11:26)    Start dO2 control (O2 valve Max) 11/24/2009 (11:30-12:30): Combine 3. 2 x 500 ml of 10x Potassium Phosphate 4. 2 x 500 ml of 10x YNB 5. 2 x 10 ml of 500x Biotin 6. 2 x 250 ml of 10x Glycerol 11/24/2009 (11:30)    Set rpm at 900    11/24/2009 (12:30)     Fermentation 0:00 Inoculate cells (Volume: 250 ml x 2) Cells were transferred to bottles/tube and inoculated using pumps. 11/24/2009 (13:00)    Start pH control

Day 1 (Sep 11 Fri):  MeOH Induction Day 1
          9/11/2009 (09:00)     Fermentation 19:00 F1 Acid (490 ml) Base (390 ml) F2 Acid (415 ml) Base (385 ml) 9/11/2009 (12:00)    Fermentation 22:00 Connect MeOH 7. 2 x 500 ml of MeOH: Tasfer MeOH into MeOH feeding bottles. 9/11/2009 (12:00) MeOH sensor calibration <Kevin>             9/11/2009 (12:30)     Fermentation 22:30 <font color=#FF00FF> MeOH induction 00:30 (F1)=(O.D:15.3, Activity:N.A.) Contamination? (Y, 1-2 colonies/100 cells) (F2)=(O.D:15.5, Activity:N.A.) Contamination? (Y, 1-2 colonies/100 cells) <SungHye & Kevin>   9/11/2009 (13:30)     Fermentation 23:30 <font color=#FF00FF> MeOH induction 01:30 See slight contamination in both of the fermenter Add Amp (final 50 ug/ml concentration, 5ml each fermenter of 50mg/ml) added on both fermentaiton through septum.

Day 2 (Sep 12 Sat): <font color=#FF00FF> MeOH Induction Day 2
<Sung-Hye>          9/12/2009 (11:00)     Fermentation 45:00 <font color=#FF00FF> MeOH induction 23:00 F1 Acid (480 ml) Base (260 ml) MeOH (400 ml) F2 Acid (410 ml) Base (250 ml) MeOH (350 ml) Decant >1-L media from each fermenters Change filters <Kevin>             9/12/2009 (16:13) Refill MeOH to 1.2L (addition of 1L) Contamination disappeared!! (F1)=(O.D:90.5, Activity:N.A.) (F2)=(O.D:90.1, Activity:N.A.)

Day 3 (Set 13 Sun): <font color=#FF00FF> MeOH Induction Day 3
<Sung-Hye>          9/13/2009 (10:00)     Fermentation 68:00 <font color=#FF00FF> MeOH induction 46:00 F1 Acid (380 ml) Base (200 ml) MeOH (650 ml) F2 Acid (410 ml) Base (200 ml) MeOH (700 ml) <Kevin>             9/13/2009 (20:30) Refill MeOH to 1.2L (addition of 600mL) (F1)=(O.D:118.4, Activity:N.A.) (F2)=(O.D:118.9, Activity:N.A.)

Day 4 (Sep 14 Mon): <font color=#FF00FF> MeOH Induction Day 4
<Sung-Hye>          9/14/2009 (10:00)     Fermentation 92:00 <font color=#FF00FF> MeOH induction 70:00 F1 Acid (380 ml) Base (180 ml) MeOH (1000 ml) F2 Acid (410 ml) Base (180 ml) MeOH (1000 ml) <SungHye & Keving>  9/14/2009 (17:00)     Fermentation 99:00 <font color=#FF00FF> MeOH induction 77:00 F1 Acid (380 ml) Base (180 ml) MeOH (900 ml) F2 Acid (420 ml) Base (180 ml) MeOH (900 ml) (F1)=(O.D:123.2, Activity:N.A.) (F2)=(O.D:123.0, Activity:N.A.) 9/14/2009 (16:40)    Harvest