Difference between revisions of "Team:Paris Saclay/Notebook/July/29"

(Created page with "=Wednesday 29th July= ==Lab Work== ===Plasmid extraction=== ''by Seong-Koo'' Biobricks: * BBa_K1707008 #1 and #2 * BBa_K1707010 #1 and #2 * BBa_R0051 With the Macherey-Nagel Ex...")
 
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* BBa_K1707010 #1: 10 ng/µL
 
* BBa_K1707010 #1: 10 ng/µL
 
* BBa_R0051: 8ng/µL
 
* BBa_R0051: 8ng/µL
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Revision as of 11:33, 5 August 2015

Wednesday 29th July

Lab Work

Plasmid extraction

by Seong-Koo

Biobricks:

  • BBa_K1707008 #1 and #2
  • BBa_K1707010 #1 and #2
  • BBa_R0051

With the Macherey-Nagel Extraction kit


Digestion

by Pauline

  • BBa_K1707008 #1
    • 2µL Buffer FastDigest 10x
    • 1µL SpeI
    • 1µL PstI
    • 10µL Plasmid
    • 6µL H2O
  • BBa_K1707010 #1
    • 2µL Buffer FastDigest 10x
    • 1µL XbaI
    • 1µL PstI
    • 10µL Plasmid
    • 6µL H2O
  • BBa_R0051
    • 1µL Buffer FastDigest 10x
    • 1µL SpeI
    • 1µL PstI
    • 2µL Plasmid
    • 5µL H2O

Incubation 1h30, 37°C

Purification gel

by Pauline

Biobricks:

  • BBa_K1707010 #1


Purification on agarose gel 1%, migration 100V Cut with a scalpel


Purification

by Pauline

Biobricks:

  • BBa_K1707008 #1
  • BBa_K1707010 #1
  • BBa_R0051

Purification with the PCR Clean up kit from Macherey-Nagel

Digestion for verification

by Audrey

Biobricks:

  • BBa_K1707005 #1 and #2

Mix:

  • 2µL plasmid
  • 0,5µL NotI
  • 1µL Buffer FastDigest 10x
  • 6,5µL H2O

Incubation 1h30, 37°C

Quantification

by Pauline

Biobricks:

  • BBa_K1707003 #5
  • BBa_K1707008 #1
  • BBa_K1707010 #1
  • BBa_R0051

Agarose gel, 1%, migration 110V

We can conclude that K1707005 isn't digested

We can conclude the quantification:

  • BBa_K1707003 #5: 10ng/µL
  • BBa_K1707008 #1: not OK
  • BBa_K1707010 #1: 10 ng/µL
  • BBa_R0051: 8ng/µL






Soil experiment

by Audrey, Johan and Coralie

Soil

We put 100µL of each culture on MacConkey plate with specific antbiotic (Control +):

  • 1696: Tetracyclin
  • 1693: Spectinomycine
  • 1320: Chloramphenicol

We put 30 mL of each culture in 60g of non sterile soil in a pot.

  • 1696: 3 pots
  • 1693: 3 pots
  • 1320: 3 pots

We put 30 mL of clean LB in 60g of non sterile soil in a pot (Control -)

  • LB: 3 pots

After this contamination, we take 1g of each pot to make the J0 measurement. We dilute it in 5mL of sterile H2O, and shake it during 5 min. Then, we let it to decant during 15 min. We take 50µL of the supernatant, and dilute it in 950µL of Sterile H2O (complete dilution from the soil is now at 10-2) We put 100µL of this previous dilution on plates that fits. We incubate plates over night at 37°C

Pots are placed in trays: 1 strain by tray. Trays are covered by a shrink-wrap, and we let them in room temperature

Water

We test two different water: seawater, from the Atlantic ocean, and stagnant water from Orsay's pool. For each water, we make dilutions: 10-1, 10-2, 10-3 and 10-4 We 100µL of different dilution on each type of plate:

  • LB without antibiotic
  • LB + Spectinomycin
  • LB + tetracyclin
  • LB + Chloramphenicol
  • MacConkey without antibiotic
  • MacConkey + Spectinomycin
  • MacConkey + Tetracyclin
  • MacConkey + Chloramphenicol

We incubate plates over night at 37°C

New culture

by Pauline

Biobricks:

  • BBa_K1707008
  • BBa_K1707010

We take 2 colony of each, and put it in 5mL of LB + 20µg/mL Chloramphenicol Incubation 37°C, 250 rpm

Purification

by Audrey

Biobricks:

  • BBa_B0030
  • BBa_R0051
  • BBa_J23117 #1 and #2
  • BBa_K1399019
  • BBa_K1399023
  • BBa_K1707006
  • BBa_K1707007

With PCR CLean-up/Gel extraction kit from Macherey-Nigel

Quantification

by Audrey

Agarose gel 1% Migration 100V


Interlab study

by Johan

We try to use the TEKAN to mesure our fluorescence, but it doesn't work.

We create new culture of BBa_J23101/BBa_J23106/BBa_J23117 + BBa_I13504.


Member present:

  • Instructors: Alice
  • Students: Coralie, Audrey, Pauline, Johan and Seong-Koo

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