Difference between revisions of "Part:BBa K3506095"
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<partinfo>BBa_K3506095 short</partinfo> | <partinfo>BBa_K3506095 short</partinfo> | ||
| − | Constitutive double promoter system is composed of | + | Constitutive double promoter system is composed of GAPDH promoter(BBa_K3506020) and CnU6 promoter(BBa_K3506021). |
It is generally accepted that all poly(A) tail of eukaryotic cells is added by RNA polymerase II. GAPDH promoter (pGAP) is considered to be a strong constitutive promoter which is promoted by RNA polymerase II. | It is generally accepted that all poly(A) tail of eukaryotic cells is added by RNA polymerase II. GAPDH promoter (pGAP) is considered to be a strong constitutive promoter which is promoted by RNA polymerase II. | ||
| − | U6 promoter is used to drive the expression of homing guide RNA（hgRNA） in lineage tracing for eukaryotic systems. | + | U6 promoter(pU6) is used to drive the expression of homing guide RNA（hgRNA） in lineage tracing for eukaryotic systems. |
| − | We put | + | We put pGAP in the upstream of pU6. The system can read the information of snRNAs out of transcriptomic information by polyA tail. |
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<b><font size"3">Biology and Usage</font></b> | <b><font size"3">Biology and Usage</font></b> | ||
| − | It is known that RNA polymerase III transcription product does not have polyA and cannot be captured by Oligo dT for information reading. Therefore, when you need to read Pol III transcription product information at the RNA level, you can use our dual promoter.Use | + | It is known that RNA polymerase III transcription product does not have polyA and cannot be captured by Oligo dT for information reading. Therefore, when you need to read Pol III transcription product information at the RNA level, you can use our dual promoter. Use pGAP to drive the transcription of RNA polymerase III promoter of the U6 small RNA gene and the genes downstream of pU6. |
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We tested the pU6 and pGAP system. The test is divided into two parts. | We tested the pU6 and pGAP system. The test is divided into two parts. | ||
| − | First part: to test whether pGAP will affect the production and function of gRNA. We put sgRNA which | + | First part: to test whether pGAP will affect the production and function of gRNA. We put sgRNA which targets ADE2 gene downstream of pU6 in both experimental group and control group. Put pGAP upstream of pU6 only in experimental group. Result shows that pGAP won’t affect the production and function of gRNA, because both of the two groups turn red.(图) |
| − | Second part: to test that whether gRNA can be reverse transcribed by oligodT. For both experimental group and control group, we extract the total mRNA of these red colonies by TRIzol. Then the mRNA | + | Second part: to test that whether gRNA can be reverse transcribed by oligodT. For both experimental group and control group, we extract the total mRNA of these red colonies by TRIzol. Then the mRNA is reverse transcribed by oligodT. To test whether gRNA can be transcribed, we perform PCR on reverse transcription products by two specfic primers. Agarose gel electrophoresis is performed on the PCR product. There come out a correct band(图）. Then we sequence the products and get the right result. |
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5.After that, red single colonies were observed. Red colonies were selected and inoculated into YPD medium, then placed it in 30℃ incubator for days, and placed it in 4℃ refrigerator again. | 5.After that, red single colonies were observed. Red colonies were selected and inoculated into YPD medium, then placed it in 30℃ incubator for days, and placed it in 4℃ refrigerator again. | ||
| − | 6.After that, more red single colonies were observed. There was no significant difference in color between the experimental group and the control group(transformed the linearized PRH003 plasmid without | + | 6.After that, more red single colonies were observed. There was no significant difference in color between the experimental group and the control group(transformed the linearized PRH003 plasmid without pGAP). These proved that pGAP won't influence the original function of pU6 and gRNA. |
Revision as of 10:22, 23 October 2020
Constitutive double promoter module
Constitutive double promoter system is composed of GAPDH promoter(BBa_K3506020) and CnU6 promoter(BBa_K3506021).
It is generally accepted that all poly(A) tail of eukaryotic cells is added by RNA polymerase II. GAPDH promoter (pGAP) is considered to be a strong constitutive promoter which is promoted by RNA polymerase II.
U6 promoter(pU6) is used to drive the expression of homing guide RNA（hgRNA） in lineage tracing for eukaryotic systems.
We put pGAP in the upstream of pU6. The system can read the information of snRNAs out of transcriptomic information by polyA tail.
Biology and Usage
It is known that RNA polymerase III transcription product does not have polyA and cannot be captured by Oligo dT for information reading. Therefore, when you need to read Pol III transcription product information at the RNA level, you can use our dual promoter. Use pGAP to drive the transcription of RNA polymerase III promoter of the U6 small RNA gene and the genes downstream of pU6.
Sequence and Feature
- 10COMPATIBLE WITH RFC[10]
- 12COMPATIBLE WITH RFC[12]
- 21COMPATIBLE WITH RFC[21]
- 23COMPATIBLE WITH RFC[23]
- 25COMPATIBLE WITH RFC[25]
- 1000INCOMPATIBLE WITH RFC[1000]Illegal BsaI site found at 436
Properties
We tested the pU6 and pGAP system. The test is divided into two parts.
First part: to test whether pGAP will affect the production and function of gRNA. We put sgRNA which targets ADE2 gene downstream of pU6 in both experimental group and control group. Put pGAP upstream of pU6 only in experimental group. Result shows that pGAP won’t affect the production and function of gRNA, because both of the two groups turn red.(图)
Second part: to test that whether gRNA can be reverse transcribed by oligodT. For both experimental group and control group, we extract the total mRNA of these red colonies by TRIzol. Then the mRNA is reverse transcribed by oligodT. To test whether gRNA can be transcribed, we perform PCR on reverse transcription products by two specfic primers. Agarose gel electrophoresis is performed on the PCR product. There come out a correct band(图）. Then we sequence the products and get the right result.
Experimental approach
1.Construct recombinant plasmid. Get pGAP from the genome of Cryptococcus neoformans. Inserted it upstream of pU6 on PRH003 plasmid.
2.Transform the product (2.5μL) into DH5α competent cells（50μL）, coat cells on each agar plate (containing Ampicillin). Incubate plates at 37°C overnight. Monoclones were selected for colony PCR. Expanding culture colonies at 37℃ 200rpm,extract plasmids and sequence.
3.Use Kpn1 enzyme to linearise the plasmid and transformed it into Cryptococcus neoformans by electroporation.
4.The C. neoformans was spreed on YNBA selection medium, and the transformants grew after being cultured in an 30℃ incubator for days. Then transferred them to a 4℃ refrigerator.
5.After that, red single colonies were observed. Red colonies were selected and inoculated into YPD medium, then placed it in 30℃ incubator for days, and placed it in 4℃ refrigerator again.
6.After that, more red single colonies were observed. There was no significant difference in color between the experimental group and the control group(transformed the linearized PRH003 plasmid without pGAP). These proved that pGAP won't influence the original function of pU6 and gRNA.
References
【1】Duttke, S. H C . RNA polymerase III accurately initiates transcription from RNA polymerase II promoters in vitro.[J]. Journal of Biological Chemistry, 2014, 289(29):20396.
【2】Gao Z, Herrera-Carrillo E, Berkhout B. RNA Polymerase II Activity of Type 3 Pol III Promoters. Mol Ther Nucleic Acids. 2018 Sep 7;12:135-145.