Haynes Lab:Notebook/Investigating Photo-Switchable Synthetic Nucleosomes/2012/12/05: Difference between revisions

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==December 5, 2012==
==December 5, 2012==
'''Results from last week's ligation'''
'''Results from last 11/23/12 ligation'''
* None of the colonies on any plates grew
* None of the colonies on any plates grew
* Will retry cloning for each (H2B, LOV) by using the Gibson assembly method
* Will retry cloning for each (H2B, LOV) by using the Gibson assembly method
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* Be sure to elute using 15 μL dH<sub>2</sub>O
* Be sure to elute using 15 μL dH<sub>2</sub>O


{| class="wikitable" border=1 cellpadding="5" cellspacing="0"
|-
|Construct || Product || 260 || 280 || 260/280 || ng/μL
|-
|H2B-LOV || H2B 1 || 0.061 || 0.033 || 1.863 || 60.545
|-
|H2B-LOV || H2B 2 || 0.056 || 0.03 || 1.857 || 56.22
|-
|H2B-LOV || LOV 1 || 0.063 || 0.033 || 1.903 || 62.673
|-
|H2B-LOV || LOV 2 || 0.06 || 0.04 || 1.85 || 59.844
|-
|LOV-H2B || H2B 1 || 0.072 || 0.033 || 1.807 || 72.381
|-
|LOV-H2B || H2B 2 || 0.06 || 0.036 || 1.799 || 59.925
|-
|LOV-H2B || LOV 1 || 0.006 || 0.036 || 1.849 || 65.881
|-
|LOV-H2B || LOV 2 || 0.065 || 0.035 || 1.839 || 65.285
|}


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Revision as of 06:46, 8 December 2012

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December 5, 2012

Results from last 11/23/12 ligation

  • None of the colonies on any plates grew
  • Will retry cloning for each (H2B, LOV) by using the Gibson assembly method
  • Repeat PCR of H2B and LOV inserts with new primers
  • Note: Primers add a XbaI site upstream and the SpeI site downstream
  • Final Gibson assembly products
  1. pSB1A3 left end / H2B / LOV +His tag/ pSB1A3 right end
  2. pSB1A3 left end / LOV / H2B +His tag/ pSB1A3 right end
  • For H2B-LOV construct
  1. H2B-GFP plasmid + 1A3/H2B fwd + H2B/LOV rev
  2. LOV plasmid + H2B/LOV fwd + LOV+his/1A3 rev
  • For LOV-H2B construct
  1. H2B-GFP plasmid + 1A3/LOV fwd + LOV/H2B rev
  2. LOV plasmid + LOV/H2B fwd + H2B+his/1A3 rev

Performed table reactions twice: once for those used in H2B-LOV construct, once for those used in LOV-H2B construct

Reagents H2B LOV
Plasmid DNA 0.5 μL 0.5
primer 1 (10 μM) 1.0 1.0
primer 2 (10 μM) 1.0 1.0
2x GoTaq mix 12.5 12.5
dH2O 10.0 10.0
Total 25.0 25.0

PCR program:

  • 95°C, 3 min.
  • [95°C, 30 sec; 57°C, 30 sec.; 72°C, 30 sec.] x35 cycles
  • 72°C, 3 min.
  • 4°C ∞
  • Clean up PCR products using the Zymo Clean and Concentrator kit
  • Be sure to elute using 15 μL dH2O
Construct Product 260 280 260/280 ng/μL
H2B-LOV H2B 1 0.061 0.033 1.863 60.545
H2B-LOV H2B 2 0.056 0.03 1.857 56.22
H2B-LOV LOV 1 0.063 0.033 1.903 62.673
H2B-LOV LOV 2 0.06 0.04 1.85 59.844
LOV-H2B H2B 1 0.072 0.033 1.807 72.381
LOV-H2B H2B 2 0.06 0.036 1.799 59.925
LOV-H2B LOV 1 0.006 0.036 1.849 65.881
LOV-H2B LOV 2 0.065 0.035 1.839 65.285


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