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Team:FHS Frederick MD/Materials and Methods
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| - | Following the direction of work completed by Drepper et al. 2007, the LOV | + | Following the direction of work completed by [http://www.nature.com/nbt/journal/v25/n4/abs/nbt1293.html Drepper et al. 2007], the LOV fluorescent gene was modified for use in this experiment by altering one amino acid in the protein increasing the illumination given by the bacteria compared to the wild type gene. The increased fluorescence of the bacterial colonies makes the bacterial growth within the fuel cell easier to monitor. |
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| + | The NirB gene has already been synthesized by other iGEM teams ([http://parts.igem.org/Part:BBa_K763002 BBa_K763002]) and was reproduced here only by adding a prefix and suffix nucleotide strain in order to use it in the 3A Assembly process. The LOV gene also received this same Prefix and Suffix sequence. Please see our [[Team:FHS_Frederick_MD/Project|Project section]] for details on how the [[Team:FHS_Frederick_MD/LOV_Domain|LOV]] and [[Team:FHS_Frederick_MD/NirB_Promoter|NirB]] genes were designed. | ||
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| + | Each engineerd gene was synthesized as an [http://www.idtdna.com/pages/products/genes/gblocks-gene-fragments IDT gBlock fragment] and incorporated into the pSB1C3 construction plasmid by cutting each with restriction enzymes followed by ligation ([http://arsbiotechnica.org/w/Procedure:016 Procedure:016]). | ||
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| + | After different plasmids containing one of the genes were made they were propagated in separate ''E. coli'' bacterial colonies ([http://arsbiotechnica.org/w/Procedure:021 Procedure:021]). Each strain was cultivated in a liquid broth and centrifuged to concentrate a bacterial pellet. | ||
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| + | The DNA was then extracted from the bacteria and purified using QIAprep purification kit ([http://arsbiotechnica.org/w/Procedure:025 Procedure:025]). Before continuing we had to confirm the incorporation of the plasmid into the bacterial DNA so a sample was run through gel electrophoresis ([http://arsbiotechnica.org/w/Procedure:026 Procedure:026]). | ||
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| + | Finally, the plasmids were prepared for sequencing as described in [http://arsbiotechnica.org/w/Procedure:024 Procedure:024]. The plasmid containing the LOV gene was successful with the proper DNA sequence present. However, the plasmid with the NirB gene failed to form properly so we were unable to complete the 3A assembly process to then combine those plasmids. This will become a future project for our group in order to continue fashioning a more effective microbial fuel cell. | ||
Revision as of 14:43, 20 June 2014
Materials and Methods
Following the direction of work completed by [http://www.nature.com/nbt/journal/v25/n4/abs/nbt1293.html Drepper et al. 2007], the LOV fluorescent gene was modified for use in this experiment by altering one amino acid in the protein increasing the illumination given by the bacteria compared to the wild type gene. The increased fluorescence of the bacterial colonies makes the bacterial growth within the fuel cell easier to monitor.
The NirB gene has already been synthesized by other iGEM teams ([http://parts.igem.org/Part:BBa_K763002 BBa_K763002]) and was reproduced here only by adding a prefix and suffix nucleotide strain in order to use it in the 3A Assembly process. The LOV gene also received this same Prefix and Suffix sequence. Please see our Project section for details on how the LOV and NirB genes were designed.
Each engineerd gene was synthesized as an [http://www.idtdna.com/pages/products/genes/gblocks-gene-fragments IDT gBlock fragment] and incorporated into the pSB1C3 construction plasmid by cutting each with restriction enzymes followed by ligation ([http://arsbiotechnica.org/w/Procedure:016 Procedure:016]).
After different plasmids containing one of the genes were made they were propagated in separate E. coli bacterial colonies ([http://arsbiotechnica.org/w/Procedure:021 Procedure:021]). Each strain was cultivated in a liquid broth and centrifuged to concentrate a bacterial pellet.
The DNA was then extracted from the bacteria and purified using QIAprep purification kit ([http://arsbiotechnica.org/w/Procedure:025 Procedure:025]). Before continuing we had to confirm the incorporation of the plasmid into the bacterial DNA so a sample was run through gel electrophoresis ([http://arsbiotechnica.org/w/Procedure:026 Procedure:026]).
Finally, the plasmids were prepared for sequencing as described in [http://arsbiotechnica.org/w/Procedure:024 Procedure:024]. The plasmid containing the LOV gene was successful with the proper DNA sequence present. However, the plasmid with the NirB gene failed to form properly so we were unable to complete the 3A assembly process to then combine those plasmids. This will become a future project for our group in order to continue fashioning a more effective microbial fuel cell.
