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09/08/13
From 2013.igem.org
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*Isolated the plasmid using omega bio-tek Plasmid mini kit I | *Isolated the plasmid using omega bio-tek Plasmid mini kit I | ||
| - | *Concentrations are shown in the table below | + | *Concentrations from nano drop are shown in the table below |
{|border=1 | {|border=1 | ||
|Sample||Volume(ul)||Conc.(ng/ul)||260/280||260/230 | |Sample||Volume(ul)||Conc.(ng/ul)||260/280||260/230 | ||
|- | |- | ||
| - | | | + | |5.1||92||65.8||1.87||1.75 |
| + | |- | ||
| + | |10.1||88||36.9||1.80||1.77 | ||
| + | |- | ||
| + | |10.2||89||48.3||1.79||1.98 | ||
| + | |- | ||
| + | |10.3||94||17.4||1.84||1.59 | ||
| + | |} | ||
| + | |||
| + | ==Digesting the plasmids for restriction mapping== | ||
| + | *Digesting 200ng of DNA with SacI | ||
| + | **1ul of SacI | ||
| + | **2ul of NEB buffer 1.1 | ||
| + | **DNA volumes added for samples 5.1 to 10.3: | ||
| + | ***3ul; 5ul; 4ul; 11.5ul | ||
| + | **Water added for samples 5.1 to 10.3: | ||
| + | ***14ul; 12ul; 13ul; 5.5ul | ||
| + | *Digestion in 37C water bath for 30mins | ||
| + | *Heat kill at 80C for 20mins | ||
| + | |||
| + | ==Running an agarose gel== | ||
| + | *Add 5ul of 6x orange G to each sample | ||
| + | *1kb marker is used | ||
| + | *Wells are loaded in the following order: | ||
| + | **5ul of marker, 25ul of samples 5.1; 10.1; 10.2; 10.3, 5ul of marker | ||
| + | |||
| + | [[File:lim_chlorodig_sacI_090813.jpg]] | ||
| + | |||
| + | *The lanes are as expected. | ||
| + | *Samples 5.1, 10.1 and 10.3 were expected to show 3 fragments, sized 2070, 1890 and 1529bp. This is what is shown on the gel. | ||
| + | *Sample 10.3 only has one SacI restriction site and when cut, a band of 2070bp is expected. That is also shown on the gel. | ||
| + | |||
| + | ==Glycerol stocks== | ||
| + | *Took 750ul from overnight culture and centrifuged at full speed for ~2 minutes | ||
| + | *Supernatant was removed | ||
| + | *Pellet resuspended in 375ul of HMFM | ||
| + | *Samples were then frozen at -80 | ||
| + | |||
| + | ==Sonicating Herring sperm DNA== | ||
| + | *The herring Sperm was to viscous, so to reduce viscosity the sonicator was used | ||
| + | **1ml of core DNA used in 2 tubes, 1 control and 1 to go in the sonicator | ||
| + | **The control tube was left on the bench at room temperature | ||
| + | **The 2nd tube was put in the sonicator for the folowing times: 2mins, 2mins, 5mins, 5mins, 20mins, 20mins, 30mins | ||
| + | **Each time both tubes were filmed to compare viscosity | ||
Latest revision as of 15:12, 12 September 2013
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Contents |
Isolating plasmid
- From overnight culture, took 3ml of culture and centrifuged into pellet of samples 5.1, 10.1, 10.2, 10.3
- Isolated the plasmid using omega bio-tek Plasmid mini kit I
- Concentrations from nano drop are shown in the table below
| Sample | Volume(ul) | Conc.(ng/ul) | 260/280 | 260/230 |
| 5.1 | 92 | 65.8 | 1.87 | 1.75 |
| 10.1 | 88 | 36.9 | 1.80 | 1.77 |
| 10.2 | 89 | 48.3 | 1.79 | 1.98 |
| 10.3 | 94 | 17.4 | 1.84 | 1.59 |
Digesting the plasmids for restriction mapping
- Digesting 200ng of DNA with SacI
- 1ul of SacI
- 2ul of NEB buffer 1.1
- DNA volumes added for samples 5.1 to 10.3:
- 3ul; 5ul; 4ul; 11.5ul
- Water added for samples 5.1 to 10.3:
- 14ul; 12ul; 13ul; 5.5ul
- Digestion in 37C water bath for 30mins
- Heat kill at 80C for 20mins
Running an agarose gel
- Add 5ul of 6x orange G to each sample
- 1kb marker is used
- Wells are loaded in the following order:
- 5ul of marker, 25ul of samples 5.1; 10.1; 10.2; 10.3, 5ul of marker
- The lanes are as expected.
- Samples 5.1, 10.1 and 10.3 were expected to show 3 fragments, sized 2070, 1890 and 1529bp. This is what is shown on the gel.
- Sample 10.3 only has one SacI restriction site and when cut, a band of 2070bp is expected. That is also shown on the gel.
Glycerol stocks
- Took 750ul from overnight culture and centrifuged at full speed for ~2 minutes
- Supernatant was removed
- Pellet resuspended in 375ul of HMFM
- Samples were then frozen at -80
Sonicating Herring sperm DNA
- The herring Sperm was to viscous, so to reduce viscosity the sonicator was used
- 1ml of core DNA used in 2 tubes, 1 control and 1 to go in the sonicator
- The control tube was left on the bench at room temperature
- The 2nd tube was put in the sonicator for the folowing times: 2mins, 2mins, 5mins, 5mins, 20mins, 20mins, 30mins
- Each time both tubes were filmed to compare viscosity
