Difference between revisions of "Part:BBa K517001:Experience"

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===Fluorescence Analysis of GFP expression as regulated by GPD and GAL Promoters===
 
===Fluorescence Analysis of GFP expression as regulated by GPD and GAL Promoters===
 
[[Image:Ubcigem2011Promoterimages0.jpg | frame | center | '''Fluorescence Analysis of GFP expression as regulated by GPD and GAL Promoters:''' ''S. cerevisiae'' yeast strains containing either the GPD-GFP or GAL-GFP construct were cultured overnight at 30 degrees Celsius in either YPD (dextrose), SC-raffinose or SC-galactose media. These were diluted 1 in 10 in their respective media and grown for 3 hours at 30 degrees Celsius into log phase. The cells were then spun down and samples were collected at 0 hours. The remaining cells were resuspended in SC-galactose media and left to grow at 30 degrees Celsius for 2 hours. The cells were spun down again and samples were collected that this 2 hour time point. The samples were fixed in paraformaldehyde and visualized under a fluorescence microscope under the GFP and DIC settings. Acquired images were then color-combined with red representing DIC and green representing GFP. Microscopy images show that the GPD promoter results in constitutive high expression while the GAL promoter is induced by the shift to galactose media.]]
 
[[Image:Ubcigem2011Promoterimages0.jpg | frame | center | '''Fluorescence Analysis of GFP expression as regulated by GPD and GAL Promoters:''' ''S. cerevisiae'' yeast strains containing either the GPD-GFP or GAL-GFP construct were cultured overnight at 30 degrees Celsius in either YPD (dextrose), SC-raffinose or SC-galactose media. These were diluted 1 in 10 in their respective media and grown for 3 hours at 30 degrees Celsius into log phase. The cells were then spun down and samples were collected at 0 hours. The remaining cells were resuspended in SC-galactose media and left to grow at 30 degrees Celsius for 2 hours. The cells were spun down again and samples were collected that this 2 hour time point. The samples were fixed in paraformaldehyde and visualized under a fluorescence microscope under the GFP and DIC settings. Acquired images were then color-combined with red representing DIC and green representing GFP. Microscopy images show that the GPD promoter results in constitutive high expression while the GAL promoter is induced by the shift to galactose media.]]
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==Characterization by ''' [http://2017.igem.org/Team:Kyoto  iGEM Kyoto 2017] ''' ==
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We used this promoter in order to express long hairpin RNA in yeast.
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Long hairpin RNA targeting <i>B. xylophilus</i> AK1 mRNA or GFP mRNA was cloned downstream of the promoter and introduced into the 2-micron high copy number plasmid of budding yeast, and subsequently expressed in yeast.
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The Gal1 promoter (''' [https://parts.igem.org/Part:BBa_J63006  BBa_J63006] ''') was used as a control.
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Results of detection by qRT-PCR were as follows
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<!-- 以下の表に相当するfigを
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Medium　 Stock　　　plasmid　　　Average value　　SD
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Gal  MKY13 WT    Gal1p-AK1      3.61        0.98
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Glu  MKY13 WT    Gal1p-AK1      0.11        0.00
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Glu  MKY13 WT    GPD-AK1        0.07        0.02
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(qRT-PCR targeted to the loop portion of hairpin. Data was normalized with 25S rRNA. n=3 )
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-->
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[[File:プロモーター比較表.jpg|500px|thumb|center|'''Figure 1 : Results of detection by qRT-PCR (qRT-PCR targeted to the loop portion of hairpin. Data was normalized with 25S rRNA. n=3 )''']]
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As a result, it was revealed that the constitutive GPD promoter had low RNA expression level. That level was even lower than from the conditional Gal1 promoter (BBa_J63006) in Glucose (Glu) medium, a condition which suppresses expression from Gal1promoter. We conducted another experiment with a longer 500 bp promoter which contains this GPD promoter sequence(we used TDH3 promoter of ''' [https://parts.igem.org/Part:BBa_K530008  BBa_K530008] '''), and it was confirmed that the longer promoter has stronger expression. Therefore we cannot recommend using this part (BBa_K517001) for expressing protein excessively.
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Latest revision as of 09:21, 1 November 2017

This experience page is provided so that any user may enter their experience using this part.
Please enter how you used this part and how it worked out.

Applications of BBa_K517001

User Reviews

UNIQcbae69c7304a5802-partinfo-00000000-QINU UNIQcbae69c7304a5802-partinfo-00000001-QINU

Characterization by British Columbia iGEM 2011

The GPD promoter (BBa_K517001) and GAL promoter (BBa_K517000) as characterized by their regulation of the expression of a GFP reporter.

FACS Analysis of GFP expression as regulated by GPD and GAL Promoters

FACS Analysis of GFP expression as regulated by GPD and GAL Promoters: S. cerevisiae yeast strains containing either the GPD-GFP or GAL-GFP construct were cultured overnight at 30 degrees Celsius in either YPD (dextrose), SC-raffinose or SC-galactose media. These were diluted 1 in 10 in their respective media and grown for 3 hours at 30 degrees Celsius into log phase. The cells were then spun down and samples were collected at 0 hours. The remaining cells were resuspended in SC-galactose media and left to grow at 30 degrees Celsius for 2 hours. The cells were spun down again and samples were collected that this 2 hour time point. The samples were fixed in paraformaldehyde and sonicated before running them through the FACS machine to determine the GFP expression profiles of each strain at each time point. Each profile was plotted with y-axis as counts of cells and x-axis as amount of GFP reading. The GPD-GFP strain's profile did not vary much over the course of the induction regardless of the media it was originally cultured in. However, the GAL-GFP strain experienced a comparably notable shift in the numbers of cells expressing higher levels of GFP when the strain was shifted into SC-galactose media. This profile shift was stronger when the strain was originally cultured in SC-raffinose instead of YPD (dextrose) media, which is expected since dextrose is known to more strongly repress the GAL promoter.

Fluorescence Analysis of GFP expression as regulated by GPD and GAL Promoters

Fluorescence Analysis of GFP expression as regulated by GPD and GAL Promoters: S. cerevisiae yeast strains containing either the GPD-GFP or GAL-GFP construct were cultured overnight at 30 degrees Celsius in either YPD (dextrose), SC-raffinose or SC-galactose media. These were diluted 1 in 10 in their respective media and grown for 3 hours at 30 degrees Celsius into log phase. The cells were then spun down and samples were collected at 0 hours. The remaining cells were resuspended in SC-galactose media and left to grow at 30 degrees Celsius for 2 hours. The cells were spun down again and samples were collected that this 2 hour time point. The samples were fixed in paraformaldehyde and visualized under a fluorescence microscope under the GFP and DIC settings. Acquired images were then color-combined with red representing DIC and green representing GFP. Microscopy images show that the GPD promoter results in constitutive high expression while the GAL promoter is induced by the shift to galactose media.

Characterization by [http://2017.igem.org/Team:Kyoto iGEM Kyoto 2017]

We used this promoter in order to express long hairpin RNA in yeast. Long hairpin RNA targeting B. xylophilus AK1 mRNA or GFP mRNA was cloned downstream of the promoter and introduced into the 2-micron high copy number plasmid of budding yeast, and subsequently expressed in yeast. The Gal1 promoter ( BBa_J63006 ) was used as a control.

Results of detection by qRT-PCR were as follows

Figure 1 : Results of detection by qRT-PCR (qRT-PCR targeted to the loop portion of hairpin. Data was normalized with 25S rRNA. n=3 )


As a result, it was revealed that the constitutive GPD promoter had low RNA expression level. That level was even lower than from the conditional Gal1 promoter (BBa_J63006) in Glucose (Glu) medium, a condition which suppresses expression from Gal1promoter. We conducted another experiment with a longer 500 bp promoter which contains this GPD promoter sequence(we used TDH3 promoter of BBa_K530008 ), and it was confirmed that the longer promoter has stronger expression. Therefore we cannot recommend using this part (BBa_K517001) for expressing protein excessively.