Difference between revisions of "Part:BBa K864100"

 
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<partinfo>BBa_K864100 short</partinfo>
 
<partinfo>BBa_K864100 short</partinfo>
  
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This part codes for the bright yellow fluorescent protein SYFP2. SYFP2 is a GFP based monomeric protein with a narrow fluorescence emission spectrum with a maximum at 515 nm. Bacteria expressing SYFP2 are reported to be 12 times brighter than those expressing EYFP(Q69K) and almost 2-fold brighter than bacteria expressing Venus (Ref. 10.1021/bi0516273). Codon optimized for expression in E coli by DNA 2.0. Mutations compared to wtGFP amino acid sequence (GenBank Accession number M62653) are F46L F64L S65G S72A M153T V163A S175G T203Y A206K.
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This part codes for the bright yellow fluorescent protein SYFP2. SYFP2 is a GFP based monomeric protein with optimized folding, maturation and a narrow fluorescence emission spectrum with a maximum of 515 nm. Bacteria expressing SYFP2 are reported to be 12 times brighter than those expressing EYFP(Q69K) and almost 2-fold brighter than bacteria expressing Venus (Kremer et al 2006). Mutations compared to wtGFP amino acid sequence (GenBank Accession number M62653) are F46L F64L S65G S72A M153T V163A S175G T203Y A206K. See the article listed in references. The sequence has been codon optimized for expression in E coli by DNA 2.0.
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Kremers et al reported the following data:
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Excitation peak: 515 nm.
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Emission peak: 527 nm.
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Relative brightness to EYFP2(Q96K) in E coli: 12.0.
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Extinction Coefficient (M-1 cm-1): 101000.
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Quantum Yield: 0.68.
  
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<!-- Add more about the biology of this part here
 
 
===Usage and Biology===
 
===Usage and Biology===
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This part is useful as a reporter.
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[[Image:SYFP2_expression.jpg|800px]]
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'''iGEM12_Uppsala_University'''. Fluorescence on UV table. The images above show ''E coli'' constitutively expressing SYFP <partinfo>K864100</partinfo> using promoters with different strengths.
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'''Team Warsaw 2013''' designed sfYFP and compared it to SYFP2. Measurment was conducted on pSB1A3 plasmid with J23100 promoter and B0034 RBS in living cells in RF.
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[[File:Sfyfpsyfp2wykres.jpg|center|541px|border|caption]]
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''Fig 1. – Fluorescence of sfYFP and SYFP2 compared to sfGFP (<partinfo>BBa_I746908</partinfo>).''
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{| class="wikitable"
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|-
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! scope="col"| -
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! colspan="3" | Samples
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! scope="col" | Arithmetic mean
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! scope="col" | Standard deviation
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|-
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|sfGFP
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|100,60
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|100,37
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|99,02
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|100,00
 +
|0,85
 +
|-
 +
|sfYFP
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|218,87
 +
|216,51
 +
|217,87
 +
|217,75
 +
|1,19
 +
|-
 +
|SYFP2
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|424,70
 +
|418,26
 +
|412,40
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|418,45
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|6,15
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|-
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|}
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''Tab 1. – Fluorescence of sfYFP and SYFP2 compared to sfGFP (<partinfo>BBa_I746908</partinfo>).''
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===R9-SYFP2-H6 Improvement by iGEM UCopenhagen 2017===
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An improved version of the SYFP2 reporter with an N-terminal Cell-Penetrating peptide (CPP) signal was constructed by the UCopenhagen 2017 iGEM Team. The addition of the nona-argigine CPP tag was shown to give the SYFP2 biobrick the ability stain both <i>E. coli</i> and <i>P. putida</i> cells, presumably by causing internalisation. In addition the improved biobrick carries a C-terminal hexa-histidine tag. For more information please visit the improved part [[Part:BBa_K2455002|CPP-SYFP2]].
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[[Image: Slack-imgs.png|700px|thumb|center|'''Figure 3: Fluorescence of <i>E. coli</i> cells treated with fluorescent protein.''' Cells were treated with either purified [[Part:BBa_K592100|mTag BFP]] (A-B), [[Part:BBa_K2455005|CPP-mTag BFP]] (C-D), [[Part:BBa_K864100|SYFP2]] (E-F), or [[Part:BBa_K2455002|CPP-SYFP2]] (G-H) for 10 min and before being washed twice. Cells treated with CPP-tagged protein emitted noticeably more fluorescence.]]
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[[Image: Pseudomonas PP.jpg|700px|thumb|center|'''Figure 4: Fluorescence of <i>P. putida</i> cells treated with fluorescent protein.''' Cells were treated with either purified [[Part:BBa_K592100|mTag BFP]] (A-B), [[Part:BBa_K2455005|CPP-mTag BFP]] (C-D), [[Part:BBa_K864100|SYFP2]] (E-F), or [[Part:BBa_K2455002|CPP-SYFP2]] (G-H) for 10 min before being washed twice. Cells treated with CPP-tagged protein emitted noticeably more fluorescence.]]
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Author: [https://igem.org/User_Information.cgi?user_id=36712 Jon Fugl]
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===SYFP2 Evolutionary Stability Improvement by Austin_UTexas 2019===
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The SYFP2 plasmid was redesigned by changing the sequence in order to remove an IS10 hot spot identified by the 2015 Austin_UTexas iGEM team. The 2019 Austin_UTexas iGEM team measured the fluorescence of the redesigned plasmid in TOP10 <i>E. coli</i> cells over a period of 4 days. It was determined that expression of the redesigned SYFP2 lasted for up to four days in culture while the original SYFP2 plasmid lost expression within one day. For more information please visit the part page for the [[Part:BBa_K3174008|redesigned plasmid]].
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[[File:SYFP2redesignFigure1.png|430px|left|thumb|<b>Figure 1: Fluorescence histograms for TOP10 cells with the original SYFP2 plasmid.</b> The x-axis shows the intensity of
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fluorescence on a logarithmic scale, and the y-axis displays the number of cells. Each line represents
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a different day of propagation, and the shaded gray curve is a blank. Peaks to the right of the blank
 +
represent fluorescent cells while peaks on or to the left of the blank represent cells that have ceased
 +
to be fluorescent. All replicates were grown under the same conditions.]]
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[[File:SYFP2redesignFigure2.png|430px|right|thumb|<b>Figure 2: Fluorescence histograms for TOP10 cells with the redesigned SYFP2 plasmid.</b> The x-axis shows the intensity
 +
of fluorescence on a logarithmic scale, and the y-axis displays the number of cells. Each line
 +
represents a different day of propagation, and the shaded gray curve is a blank. Peaks to the right
 +
of the blank represent fluorescent cells while peaks on or to the left of the blank represent cells
 +
that have ceased to be fluorescent. All replicates were grown under the same conditions. No data could
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be collected for Day 3 of Replicate 4.]]
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Author: Alex MacAskill
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===References===
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[http://pubs.acs.org/doi/abs/10.1021/bi0516273] Kremers, G.-J., Goedhart, J., van Munster, E. B., & Gadella, T. W. J. (2006). Cyan and yellow super fluorescent proteins with improved brightness, protein folding, and FRET Förster radius. Biochemistry, 45(21), 6570–6580. doi:10.1021/bi0516273
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Latest revision as of 21:16, 21 October 2019

Super Yellow Fluorescent Protein 2 (SYFP2)

This part codes for the bright yellow fluorescent protein SYFP2. SYFP2 is a GFP based monomeric protein with optimized folding, maturation and a narrow fluorescence emission spectrum with a maximum of 515 nm. Bacteria expressing SYFP2 are reported to be 12 times brighter than those expressing EYFP(Q69K) and almost 2-fold brighter than bacteria expressing Venus (Kremer et al 2006). Mutations compared to wtGFP amino acid sequence (GenBank Accession number M62653) are F46L F64L S65G S72A M153T V163A S175G T203Y A206K. See the article listed in references. The sequence has been codon optimized for expression in E coli by DNA 2.0.

Kremers et al reported the following data:

Excitation peak: 515 nm. Emission peak: 527 nm. Relative brightness to EYFP2(Q96K) in E coli: 12.0. Extinction Coefficient (M-1 cm-1): 101000. Quantum Yield: 0.68.

Usage and Biology

This part is useful as a reporter.

SYFP2 expression.jpg

iGEM12_Uppsala_University. Fluorescence on UV table. The images above show E coli constitutively expressing SYFP BBa_K864100 using promoters with different strengths.


Team Warsaw 2013 designed sfYFP and compared it to SYFP2. Measurment was conducted on pSB1A3 plasmid with J23100 promoter and B0034 RBS in living cells in RF.

caption

Fig 1. – Fluorescence of sfYFP and SYFP2 compared to sfGFP (BBa_I746908).

- Samples Arithmetic mean Standard deviation
sfGFP 100,60 100,37 99,02 100,00 0,85
sfYFP 218,87 216,51 217,87 217,75 1,19
SYFP2 424,70 418,26 412,40 418,45 6,15

Tab 1. – Fluorescence of sfYFP and SYFP2 compared to sfGFP (BBa_I746908).

R9-SYFP2-H6 Improvement by iGEM UCopenhagen 2017

An improved version of the SYFP2 reporter with an N-terminal Cell-Penetrating peptide (CPP) signal was constructed by the UCopenhagen 2017 iGEM Team. The addition of the nona-argigine CPP tag was shown to give the SYFP2 biobrick the ability stain both E. coli and P. putida cells, presumably by causing internalisation. In addition the improved biobrick carries a C-terminal hexa-histidine tag. For more information please visit the improved part CPP-SYFP2.


Figure 3: Fluorescence of E. coli cells treated with fluorescent protein. Cells were treated with either purified mTag BFP (A-B), CPP-mTag BFP (C-D), SYFP2 (E-F), or CPP-SYFP2 (G-H) for 10 min and before being washed twice. Cells treated with CPP-tagged protein emitted noticeably more fluorescence.


Figure 4: Fluorescence of P. putida cells treated with fluorescent protein. Cells were treated with either purified mTag BFP (A-B), CPP-mTag BFP (C-D), SYFP2 (E-F), or CPP-SYFP2 (G-H) for 10 min before being washed twice. Cells treated with CPP-tagged protein emitted noticeably more fluorescence.

Author: Jon Fugl

SYFP2 Evolutionary Stability Improvement by Austin_UTexas 2019

The SYFP2 plasmid was redesigned by changing the sequence in order to remove an IS10 hot spot identified by the 2015 Austin_UTexas iGEM team. The 2019 Austin_UTexas iGEM team measured the fluorescence of the redesigned plasmid in TOP10 E. coli cells over a period of 4 days. It was determined that expression of the redesigned SYFP2 lasted for up to four days in culture while the original SYFP2 plasmid lost expression within one day. For more information please visit the part page for the redesigned plasmid.

Figure 1: Fluorescence histograms for TOP10 cells with the original SYFP2 plasmid. The x-axis shows the intensity of fluorescence on a logarithmic scale, and the y-axis displays the number of cells. Each line represents a different day of propagation, and the shaded gray curve is a blank. Peaks to the right of the blank represent fluorescent cells while peaks on or to the left of the blank represent cells that have ceased to be fluorescent. All replicates were grown under the same conditions.
Figure 2: Fluorescence histograms for TOP10 cells with the redesigned SYFP2 plasmid. The x-axis shows the intensity of fluorescence on a logarithmic scale, and the y-axis displays the number of cells. Each line represents a different day of propagation, and the shaded gray curve is a blank. Peaks to the right of the blank represent fluorescent cells while peaks on or to the left of the blank represent cells that have ceased to be fluorescent. All replicates were grown under the same conditions. No data could be collected for Day 3 of Replicate 4.

Author: Alex MacAskill

References

[http://pubs.acs.org/doi/abs/10.1021/bi0516273] Kremers, G.-J., Goedhart, J., van Munster, E. B., & Gadella, T. W. J. (2006). Cyan and yellow super fluorescent proteins with improved brightness, protein folding, and FRET Förster radius. Biochemistry, 45(21), 6570–6580. doi:10.1021/bi0516273


Sequence and Features


Assembly Compatibility:
  • 10
    COMPATIBLE WITH RFC[10]
  • 12
    COMPATIBLE WITH RFC[12]
  • 21
    COMPATIBLE WITH RFC[21]
  • 23
    COMPATIBLE WITH RFC[23]
  • 25
    COMPATIBLE WITH RFC[25]
  • 1000
    COMPATIBLE WITH RFC[1000]