Team:Aachen/Notebook/Wetlab/June

From 2014.igem.org

(Difference between revisions)
(June)
(June)
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= June =
= June =
== 3rd ==
== 3rd ==
-
* transformation of 34 BioBricks
+
* 34 BioBricks were transformed
== 4th ==
== 4th ==
-
* preperation of consumables:  
+
* Preparation of consumables:  
** fresh 50 % glycerol
** fresh 50 % glycerol
** new LB plates with cam and with kanamycin (kan)
** new LB plates with cam and with kanamycin (kan)
Line 21: Line 21:
** 100 mL steril glas beads for plating
** 100 mL steril glas beads for plating
-
* master plates (6 clones per BioBrick) were made
+
* Master plates (6 clones per BioBrick) were made
== 5th ==
== 5th ==
-
* colony PCRs on all transformed BioBricks were conducted
+
* Colony PCRs on all transformed BioBricks were conducted
*: → 2 clones from each master plate were picked
*: → 2 clones from each master plate were picked
-
* overnight cultures in freshly prepared 5 mL LB + cam were inoculated
+
* Overnight cultures in freshly prepared 5 mL LB + cam were inoculated
*: → 1 culture per BioBrick
*: → 1 culture per BioBrick
== 6th ==
== 6th ==
-
* made 2 glycerol stocks of each BioBrick
+
* 2 glycerol stocks of each BioBrick were made
== 14th ==
== 14th ==
'''PCR of E0030 to K1319000'''
'''PCR of E0030 to K1319000'''
-
* Q5 and Phusion polymerase are used
+
* Q5 and Phusion polymerase were used
<center>
<center>
{| class="wikitable"
{| class="wikitable"
-
! parameter !! duration !! temp [°C]
+
! Parameter !! Duration !! Temp [°C]
|-
|-
-
| denature||5:00||98
+
| Denature||5:00||98
|-
|-
-
| '''denature'''||00:30||98
+
| '''Denature'''||00:30||98
|-
|-
-
| '''anneal'''||00:30||55
+
| '''Anneal'''||00:30||55
|-
|-
-
| '''elongate'''||00:50||72
+
| '''Elongate'''||00:50||72
|-
|-
-
| elongate||05:00||72
+
| Elongate||05:00||72
|}
|}
</center>
</center>
Line 53: Line 53:
== 17th ==
== 17th ==
-
* colony PCR on following constructs:
+
* Colony PCR on following constructs:
<center>
<center>
{| class="wikitable"
{| class="wikitable"
|-
|-
-
! ID !! Colonie !! Product Length  
+
! ID !! Colony !! Product Length  
|-
|-
| 1, 2 || K1319000 || 1041
| 1, 2 || K1319000 || 1041
Line 72: Line 72:
|}
|}
</center>
</center>
-
&rarr; anneling: 50°C
+
&rarr; Anneling: 50°C
-
&rarr; elongation: 02:57
+
&rarr; Elongation: 02:57
== 20th ==
== 20th ==
-
* colony PCR of K325108, K325218, C0062
+
* Colony PCR of K325108, K325218, C0062
<center>
<center>
{| class="wikitable"
{| class="wikitable"
-
! parameter !! duration !! temp [°C]
+
! Parameter !! Duration !! Temp [°C]
|-
|-
-
| denature||5:00||95
+
| Denature||5:00||95
|-
|-
-
| '''denature'''||00:30||95
+
| '''Denature'''||00:30||95
|-
|-
-
| '''anneal'''||00:30||49
+
| '''Anneal'''||00:30||49
|-
|-
-
| '''elongate'''||03:15||72
+
| '''Elongate'''||03:15||72
|-
|-
-
| elongate||05:00||72
+
| Elongate||05:00||72
|}
|}
</center>
</center>
Line 99: Line 99:
== 23rd ==
== 23rd ==
-
* repetition of yesterdays colony PCR
+
* Yesterdays colony PCR was repeated
-
* preculture for plasmid prep were inoculated
+
* Precultures for plasmid preps were inoculated
** K1319000 &rarr; sequencing
** K1319000 &rarr; sequencing
** K592100 &rarr; BFP
** K592100 &rarr; BFP
Line 110: Line 110:
== 24th ==
== 24th ==
* 8 plasmid preps were conducted
* 8 plasmid preps were conducted
-
* overnight cultures of K516132 and J23101.E0240 were inoculated
+
* Overnight cultures of K516132 and J23101.E0240 were inoculated
== 25th ==
== 25th ==
-
* preculture for competent NEB10β cells was set up
+
* Preculture for competent NEB10β cells was set up
-
* samples for sequencing were submitted
+
* Samples for sequencing were submitted
-
* master plates of transformed BioBricks were made
+
* Master plates of transformed BioBricks were made
-
* overnight expression cultures of J23101.E0240 and K516132 were centrifuged and frozen
+
* Overnight expression cultures of J23101.E0240 and K516132 were centrifuged and frozen
-
* fresh 50% glycerol was prepared
+
* Fresh 50% glycerol was prepared
== 26th ==
== 26th ==
Line 125: Line 125:
== 27th ==
== 27th ==
-
* plasmid preps
+
* Plasmid preps
<center>
<center>
{| class="wikitable"
{| class="wikitable"
Line 148: Line 148:
|}
|}
</center>
</center>
-
* two cryos stocks of each were prepared
+
* Two cryos stocks of each were prepared
== 28th ==
== 28th ==
-
* sequencing
+
* Sequencing
-
* transformation of 17 BioBricks
+
* Transformation of 17 BioBricks
== 30th ==
== 30th ==
-
* master plates
+
* Master plates

Revision as of 14:25, 13 October 2014

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June

3rd

  • 34 BioBricks were transformed

4th

  • Preparation of consumables:
    • fresh 50 % glycerol
    • new LB plates with cam and with kanamycin (kan)
    • 60 glas tubes
    • 2 L LB-
    • 100 mL steril glas beads for plating
  • Master plates (6 clones per BioBrick) were made

5th

  • Colony PCRs on all transformed BioBricks were conducted
    → 2 clones from each master plate were picked
  • Overnight cultures in freshly prepared 5 mL LB + cam were inoculated
    → 1 culture per BioBrick

6th

  • 2 glycerol stocks of each BioBrick were made

14th

PCR of E0030 to K1319000

  • Q5 and Phusion polymerase were used
Parameter Duration Temp [°C]
Denature5:0098
Denature00:3098
Anneal00:3055
Elongate00:5072
Elongate05:0072

→ 30 cycles

17th

  • Colony PCR on following constructs:
ID Colony Product Length
1, 2 K1319000 1041
3, 4 J23115.E0240 1233
5, 6 C0062 2937
7, 8 K516032 1219
9, 10 J23101.E0240 1233
11 negativ control -

→ Anneling: 50°C

→ Elongation: 02:57

20th

  • Colony PCR of K325108, K325218, C0062
Parameter Duration Temp [°C]
Denature5:0095
Denature00:3095
Anneal00:3049
Elongate03:1572
Elongate05:0072

→ 30 cycles

  • PAGE: 30 min on 1.2 % agarose gel at 110 V

→ weak bands for K325108 a & b at 4.5 kb and 9 kb respectively

23rd

  • Yesterdays colony PCR was repeated
  • Precultures for plasmid preps were inoculated
    • K1319000 → sequencing
    • K592100 → BFP
    • S01022 → CFP
    • J23101.E0240 → sequencing
    • J23115.E0240 → sequencing
  • K516132 and J23101.E0240 were plated on LB + cam plates

24th

  • 8 plasmid preps were conducted
  • Overnight cultures of K516132 and J23101.E0240 were inoculated

25th

  • Preculture for competent NEB10β cells was set up
  • Samples for sequencing were submitted
  • Master plates of transformed BioBricks were made
  • Overnight expression cultures of J23101.E0240 and K516132 were centrifuged and frozen
  • Fresh 50% glycerol was prepared

26th

  • Competent NEB10β cells were made, however, several things went wrong. (For future reference: pre-cool centrifuge, always check if it is indeed spinning, frequently check OD of the culture)
  • Colony PCR on the transformed clones looked awful; there were too many cells in the 10 µL reaction volume. Some tubes were not fully sealed during the PCR. Basically, only primers and smear, except for the positive control, which contained a plasmid template instead of cells.
  • 2x 500 mL of fresh LB and three sterile flasks were prepared and autoclaved.

27th

  • Plasmid preps
Plasmid DNA [ng/µl]
J23115.E0240 #1 99
J23115.E0240 #2 226
K1319000 #6 78
K1319000 #1 221
K592100 240.5
S01022 160
J23101.E0240 #5 347
J23101.E0240 #6 229.5
  • Two cryos stocks of each were prepared

28th

  • Sequencing
  • Transformation of 17 BioBricks

30th

  • Master plates


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