Difference between revisions of "Part:BBa K4390049"
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The Edinburgh-UHAS_Ghana team for 2022 designed a construct to detect arsenic in contaminated water. This construct is composed of a fluorescent RNA aptamer Spinach2 (BBa_K3773013) which is flanked by the F30 tRNA scaffolds (BBa_K3380101 and BBa_K3380102) which under a strong T7 RNA promoter (BBa_I712074), downstream of the promotor there is the binding site for the arsR repressor (BBa_J15101) as to allow transcriptional repression of the T7 promotor. This construct is designed to be cell-free and only requires transcription of the RNA aptamer to produce fluorescence. It should be noted that T7 RNA polymerase, chemical energy (ATP), NTPs and DFHBI or DFHO are also required in the cell-free reaction so that fluorescence is observed. | The Edinburgh-UHAS_Ghana team for 2022 designed a construct to detect arsenic in contaminated water. This construct is composed of a fluorescent RNA aptamer Spinach2 (BBa_K3773013) which is flanked by the F30 tRNA scaffolds (BBa_K3380101 and BBa_K3380102) which under a strong T7 RNA promoter (BBa_I712074), downstream of the promotor there is the binding site for the arsR repressor (BBa_J15101) as to allow transcriptional repression of the T7 promotor. This construct is designed to be cell-free and only requires transcription of the RNA aptamer to produce fluorescence. It should be noted that T7 RNA polymerase, chemical energy (ATP), NTPs and DFHBI or DFHO are also required in the cell-free reaction so that fluorescence is observed. | ||
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===Usage and Biology=== | ===Usage and Biology=== | ||
This biosensor should be used with a cell-free lysate which contains the arsR repressor T7 RNA polymerase, chemical energy (ATP), NTPs and DFHBI or DFHO to induce fluorescence in the presence of arsenic ions. The arsR repressor will bind to the arsR binding site on the linear construct when arsenic is not present in the reaction. This causes transcriptional repression of the RNA aptamer as the T7 polymerase is physically occluded from reading the linear construct. When arsenic ions are present in the reaction the arsR repressor will then bind to the arsenic ions and it will allow the transcription of the RNA aptamer, this aptamer can then bind to the DFHBI or DFHO which will induce fluorescence. | This biosensor should be used with a cell-free lysate which contains the arsR repressor T7 RNA polymerase, chemical energy (ATP), NTPs and DFHBI or DFHO to induce fluorescence in the presence of arsenic ions. The arsR repressor will bind to the arsR binding site on the linear construct when arsenic is not present in the reaction. This causes transcriptional repression of the RNA aptamer as the T7 polymerase is physically occluded from reading the linear construct. When arsenic ions are present in the reaction the arsR repressor will then bind to the arsenic ions and it will allow the transcription of the RNA aptamer, this aptamer can then bind to the DFHBI or DFHO which will induce fluorescence. | ||
Revision as of 13:38, 11 September 2022
Linear Arsenic Biosensor
The Edinburgh-UHAS_Ghana team for 2022 designed a construct to detect arsenic in contaminated water. This construct is composed of a fluorescent RNA aptamer Spinach2 (BBa_K3773013) which is flanked by the F30 tRNA scaffolds (BBa_K3380101 and BBa_K3380102) which under a strong T7 RNA promoter (BBa_I712074), downstream of the promotor there is the binding site for the arsR repressor (BBa_J15101) as to allow transcriptional repression of the T7 promotor. This construct is designed to be cell-free and only requires transcription of the RNA aptamer to produce fluorescence. It should be noted that T7 RNA polymerase, chemical energy (ATP), NTPs and DFHBI or DFHO are also required in the cell-free reaction so that fluorescence is observed.
Usage and Biology
This biosensor should be used with a cell-free lysate which contains the arsR repressor T7 RNA polymerase, chemical energy (ATP), NTPs and DFHBI or DFHO to induce fluorescence in the presence of arsenic ions. The arsR repressor will bind to the arsR binding site on the linear construct when arsenic is not present in the reaction. This causes transcriptional repression of the RNA aptamer as the T7 polymerase is physically occluded from reading the linear construct. When arsenic ions are present in the reaction the arsR repressor will then bind to the arsenic ions and it will allow the transcription of the RNA aptamer, this aptamer can then bind to the DFHBI or DFHO which will induce fluorescence.
Sequence and Features
- 10INCOMPATIBLE WITH RFC[10]Illegal SpeI site found at 52
Illegal SpeI site found at 190 - 12INCOMPATIBLE WITH RFC[12]Illegal SpeI site found at 52
Illegal SpeI site found at 190 - 21COMPATIBLE WITH RFC[21]
- 23INCOMPATIBLE WITH RFC[23]Illegal SpeI site found at 52
Illegal SpeI site found at 190 - 25INCOMPATIBLE WITH RFC[25]Illegal SpeI site found at 52
Illegal SpeI site found at 190 - 1000COMPATIBLE WITH RFC[1000]