Difference between revisions of "Team:TokyoTech/Experiment/Transcriptome Analysis"
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Revision as of 08:20, 29 October 2017
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Transcriptome Analysis
Introduction
In our project, we worked on establishing an artificial inter-kingdom communication between human cells and bacteria. However, the inter-kingdom communication was not known well, so we had to choose appropriate signaling molecules to establish it. We chose one of AHLs, 3-oxo-C8 HSL as a signaling molecule from bacteria to human cells because it could be worked to specific genetically engineered human cells [1, read TraI Assay page]. However, AHLs cannot be synthesized by human cells because of their material[2]. Thus, we conducted transcriptome analysis to explore an appropriate substance derived from human as a signaling molecule from human cells to bacteria.
Summary
We checked the difference of transcription level between E. coli in normal medium and E. coli in the medium cultured human cells. Surprisingly, there were no significant differences as for the transcription of all genes though transcription of only a couple of genes were slightly different.
Results
This excel file is the data of the transcriptome analysis. The values of E- FDR of the all genes were 1. https://static.igem.org/mediawiki/2017/a/a7/T--TokyoTech--Transcriptome_Analysis.xlsx
Discussion
In general, the difference is said to be statistically significant if the value of E-FDR is 0.5 and less. The above results indicated that no genes were activated or repressed by substances derived from human cells. Two genes related to maltose metabolism were transcribed about 1.7-fold higher in medium cultured human cells. This is considered that a substance like maltose is secreted from human cells. However, it is not an appropriate signaling molecule because the activation rate is very low. From this result, no substances derived from human are supposed to be used as a signaling molecule. Therefore, we have to explore another substance which works as a signaling molecule (Read AHK4 Assay page and Project page).
Reference
Hajime Fujita: All Rights Reserved
