Difference between revisions of "Part:BBa K2935073"

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To look for in-gene duplication, they used EMBOSS ETANDEMsoftware26 to screen all sacs ORFs sequences.Two separate screens screened short (3-39 nt) and long (440 nt) repeats, respectively.
 
To look for in-gene duplication, they used EMBOSS ETANDEMsoftware26 to screen all sacs ORFs sequences.Two separate screens screened short (3-39 nt) and long (440 nt) repeats, respectively.
 
They ended up with BBa_K2935073 (677bp) as the basis and common piece of all FLO1.
 
They ended up with BBa_K2935073 (677bp) as the basis and common piece of all FLO1.
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 +
===References===
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1. Intragenic tandem repeats generate functional variability. Verstrepen,K.J., Jansen,A., Lewitter,F. and Fink,G.R. Nat. Genet. 37 (9), 986-990 (2005)
  
 
=== <h2>Part Contributions</h2> ===
 
=== <h2>Part Contributions</h2> ===
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Team NUS_Singapore 2021 has successfully expressed and characterized this part using the galactose promoter Gal1 to quantitate part performance.  
 
Team NUS_Singapore 2021 has successfully expressed and characterized this part using the galactose promoter Gal1 to quantitate part performance.  
  
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[[File:T--NUS_Singapore--pGFT-H.png|800px|center|thumb|Figure 1: Plot of flocculation index against time for both strain induced with YPGR and strain culture in YPD. Flocculation fold at 4 hours is 3.33 times.|]]
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[[File:T--NUS_Singapore--pGFT-H.png|700px|center|thumb|Figure 1: Plot of flocculation index against time for both strain induced with YPGR and strain culture in YPD. Flocculation fold at 4 hours is 3.33 times.|]]
  
 
After 4 hours of induction, flocculants formed were easily observed without the need for a microscope. Non-induced negative control did not flocculate aggressively and culture remained in suspension (Figure 2).
 
After 4 hours of induction, flocculants formed were easily observed without the need for a microscope. Non-induced negative control did not flocculate aggressively and culture remained in suspension (Figure 2).
  
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[[File:T--NUS_Singapore--T--NUS_Singapore--Galfloc_image|800px|center|thumb|Figure 2: Galactose induced flocculation as observed in a flask (left) and with contents transferred to a falcon tube (right). YPGR indicates the strain with flocculation induced by growing the culture with galactose as the sole carbon source, while YPD culture indicates a strain that is grown with glucose as the sole carbon source, thus remaining uninduced.  
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[[File:T--NUS Singapore--Galfloc image.png|700px|center|thumb|Figure 2: Galactose induced flocculation as observed in a flask (left) and with contents transferred to a falcon tube (right). YPGR indicates the strain with flocculation induced by growing the culture with galactose as the sole carbon source, while YPD culture indicates a strain that is grown with glucose as the sole carbon source, thus remaining uninduced.  
 
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NUS Singapore 2021 has utilized this part for our project and we have incorporated this part into our new composite part <partinfo>BBa_K3927020</partinfo>
 
NUS Singapore 2021 has utilized this part for our project and we have incorporated this part into our new composite part <partinfo>BBa_K3927020</partinfo>
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Please visit the results page on the NUS Singapore 2021 wiki for more detailed information on the characterization data: https://2021.igem.org/Team:NUS_Singapore/Results
  
 
<!-- Uncomment this to enable Functional Parameter display  
 
<!-- Uncomment this to enable Functional Parameter display  
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<partinfo>BBa_K2935073 parameters</partinfo>
 
<partinfo>BBa_K2935073 parameters</partinfo>
 
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REFERENCE:Intragenic tandem repeats generate functional variability.Verstrepen,K.J., Jansen,A., Lewitter,F. and Fink,G.R. Nat. Genet. 37 (9), 986-990 (2005)
 

Latest revision as of 10:30, 20 October 2021


Flo1

BBa_K2935073 (677bp) in saccharomyces cerevisiae chromosome S288C I position 205985-206661.

Sequence and Features


Assembly Compatibility:
  • 10
    INCOMPATIBLE WITH RFC[10]
    Illegal SpeI site found at 121
  • 12
    INCOMPATIBLE WITH RFC[12]
    Illegal SpeI site found at 121
  • 21
    COMPATIBLE WITH RFC[21]
  • 23
    INCOMPATIBLE WITH RFC[23]
    Illegal SpeI site found at 121
  • 25
    INCOMPATIBLE WITH RFC[25]
    Illegal SpeI site found at 121
    Illegal AgeI site found at 25
    Illegal AgeI site found at 67
    Illegal AgeI site found at 202
    Illegal AgeI site found at 472
  • 1000
    COMPATIBLE WITH RFC[1000]

In the genome of saccharomyces cerevisiae, most of the genes contain repeated sequences. Verstrepen,K.J. et al. [1] compared its effect on eight newly generated FLO1 alleles.It was found that as the Flo1 protein became longer (carrying more repeated sequences), the adhesion increased.Flocculation (i.e., adhesion to other yeast cells) showed a quantitative relationship between the same number of repetitions and the number of repetitions: the more repetitions, the greater the proportion of flocculated cells.The correlation between the number of repetitions observed and functional acquisition Flo1 depends on the specific amino acid encoded by the repeat sequence. To look for in-gene duplication, they used EMBOSS ETANDEMsoftware26 to screen all sacs ORFs sequences.Two separate screens screened short (3-39 nt) and long (440 nt) repeats, respectively. They ended up with BBa_K2935073 (677bp) as the basis and common piece of all FLO1.

References

1. Intragenic tandem repeats generate functional variability. Verstrepen,K.J., Jansen,A., Lewitter,F. and Fink,G.R. Nat. Genet. 37 (9), 986-990 (2005)

Part Contributions

NUS Singapore 2021

Authors:

Tania Santosh Nair, Chew Chin Wei, Linus Tan

Contribution Summary:

Team NUS_Singapore 2021 has successfully expressed and characterized this part using the galactose promoter Gal1 to quantitate part performance.

T--NUS Singapore--pGFT-H.png

After 4 hours of induction, flocculants formed were easily observed without the need for a microscope. Non-induced negative control did not flocculate aggressively and culture remained in suspension (Figure 2).

T--NUS Singapore--Galfloc image.png

Additional Information

NUS Singapore 2021 has utilized this part for our project and we have incorporated this part into our new composite part BBa_K3927020

Please visit the results page on the NUS Singapore 2021 wiki for more detailed information on the characterization data: https://2021.igem.org/Team:NUS_Singapore/Results