Team:Cornell/Notebook/Nah operon

From 2012.igem.org

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The purpose of this subproject is to make the nah operon biobrick compatible for the use of future iGEM teams. The nah operon codes for a pathway that converts naphthalene into salicylate. In our system, this will allow naphthalene to be detected by the salicylate reporter. There are three standard cut sites internal to the operon which we are removing - PstI, and two NotI sites. This biobrick compatible piece could be useful to future teams in projects that involve bioremediation or detection of naphthalene.
The purpose of this subproject is to make the nah operon biobrick compatible for the use of future iGEM teams. The nah operon codes for a pathway that converts naphthalene into salicylate. In our system, this will allow naphthalene to be detected by the salicylate reporter. There are three standard cut sites internal to the operon which we are removing - PstI, and two NotI sites. This biobrick compatible piece could be useful to future teams in projects that involve bioremediation or detection of naphthalene.
==June==
==June==
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===[[Team:Cornell/Notebook/Arsenic_reporter/June10|June 10th-16th]]===
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===[[Team:Cornell/Notebook/Nah_operon/June10|June 10th-16th]]===
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===[[Team:Cornell/Notebook/Arsenic_reporter/June17|June 17th-23rd]]===
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===[[Team:Cornell/Notebook/Nah_operon/June17|June 17th-23rd]]===
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===[[Team:Cornell/Notebook/Arsenic_reporter/June24|June 24th-30th]]===
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===[[Team:Cornell/Notebook/Nah_operon/June24|June 24th-30th]]===
==July==
==July==
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===[[Team:Cornell/Notebook/Arsenic_reporter/July1|July 1st-7th]]===
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===[[Team:Cornell/Notebook/Nah_operon/July1|July 1st-7th]]===
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===[[Team:Cornell/Notebook/Arsenic_reporter/July8|July 8th-14th]]===
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===[[Team:Cornell/Notebook/Nah_operon/July8|July 8th-14th]]===
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===[[Team:Cornell/Notebook/Arsenic_reporter/July15|July 15th-21st]]===
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===[[Team:Cornell/Notebook/Nah_operon/July15|July 15th-21st]]===

Revision as of 21:12, 3 July 2012

Home Team Project Parts Modeling Notebook Protocols Safety Attributions

Contents

The purpose of this subproject is to make the nah operon biobrick compatible for the use of future iGEM teams. The nah operon codes for a pathway that converts naphthalene into salicylate. In our system, this will allow naphthalene to be detected by the salicylate reporter. There are three standard cut sites internal to the operon which we are removing - PstI, and two NotI sites. This biobrick compatible piece could be useful to future teams in projects that involve bioremediation or detection of naphthalene.

June

June 10th-16th

June 17th-23rd

June 24th-30th

July

July 1st-7th

July 8th-14th

July 15th-21st

June 17th-23rd

June 17th, Sunday

June 19th, Tuesday

  • Ran Gibson Assembly of nah operon fragments into pBMT-1 backbone and transformed into DH5a electrocompotent E. coli cells.
  • Set up PCR to amplify the Gibson Assembly products.
    • Work done by: Dylan and Swati

June 20th, Wednesday

  • Set up a digestion of the PCR of Gibson Assembly products and ran the digested products on a gel to see if Gibson worked.
  • Three colonies on plates of DH5a transformed with Gibson Assembly product. Made liquid cultures to miniprep and sequence.
    • Work done by: Dylan and Swati

June 22nd, Friday

  • Miniprepped directly transformed Gibson Assembly product for sequencing using the the Gibson nah1F and nah4R primers (each w/ 20 bp overhangs).
  • Ran undigested miniprep with gel electrophoresis, looking for large bands corresponding to supercoiled DNA. The gel shows distinct bands for all three lanes. We interpreted this to mean that we got product. Submitted for sequencing
Cornell2012 0621 Gibson-entire-plasmid.jpg

June 24th-30th

June 27th, Wednesday

Rafael and Dylan making an agarose gel.

====June 28th, Thursday====