Composite

Part:BBa_K3385061

Designed by: Daniel Bavnhřj   Group: iGEM20_DTU-Denmark   (2020-10-16)


T1G3R_SxlnD_glaA


About the part: Insert of glaA expression cassette for A. niger. It is made to be integrated in albA, which will lead to white/yellow conidia upon correct integration in the genome. The insert is inserted in pSB1C3 via USER cloning to create the integration plasmid for A. niger. The signal peptide was changed to SigP_xlnD using USER cloning and primer extension. The integration platform is made from part BBa_K3046030 pGIA2P1 designed by the DTU iGEM 2019 team.

Functionality: This signal peptide was investigated in Deeploc [1] to predict the localization of the protein which it is inserted upstream of.

Localization predicted by Deeploc.


Results:The efficiency of the signal peptide was tested through a starch/iodine plate assay, where no colouring zone shows breakdown of starch. However, this testing is not conclusive as other amylases may be overexpressed. Therefore, this part needs further testing.

Looking at the comparison pictures below, it is seen that the spores from the ΔglaA strain with the glaA expression cassette integrated (right) are albino compared to the dark spores of the ΔglaA strain (left). This shows successful integration of the expression cassette, as albA is looped out.
Starch/iodine assay showing the breakdown of starch by the ΔglaA and the ΔglaA with glucoamylase inserted with the xlnD signal peptide.


Sequence and Features


Assembly Compatibility:
  • 10
    INCOMPATIBLE WITH RFC[10]
    Illegal EcoRI site found at 1858
    Illegal EcoRI site found at 5777
    Illegal EcoRI site found at 7205
    Illegal XbaI site found at 1623
    Illegal XbaI site found at 5808
    Illegal SpeI site found at 1097
    Illegal PstI site found at 893
    Illegal PstI site found at 4039
    Illegal PstI site found at 6615
    Illegal PstI site found at 8349
    Illegal PstI site found at 8950
  • 12
    INCOMPATIBLE WITH RFC[12]
    Illegal EcoRI site found at 1858
    Illegal EcoRI site found at 5777
    Illegal EcoRI site found at 7205
    Illegal NheI site found at 4916
    Illegal SpeI site found at 1097
    Illegal PstI site found at 893
    Illegal PstI site found at 4039
    Illegal PstI site found at 6615
    Illegal PstI site found at 8349
    Illegal PstI site found at 8950
  • 21
    INCOMPATIBLE WITH RFC[21]
    Illegal EcoRI site found at 1858
    Illegal EcoRI site found at 5777
    Illegal EcoRI site found at 7205
    Illegal BglII site found at 3894
    Illegal BglII site found at 5416
    Illegal BglII site found at 8447
    Illegal BamHI site found at 1729
    Illegal BamHI site found at 2157
    Illegal BamHI site found at 4874
    Illegal BamHI site found at 5676
    Illegal BamHI site found at 5802
    Illegal BamHI site found at 6353
    Illegal XhoI site found at 548
    Illegal XhoI site found at 735
    Illegal XhoI site found at 963
    Illegal XhoI site found at 6213
  • 23
    INCOMPATIBLE WITH RFC[23]
    Illegal EcoRI site found at 1858
    Illegal EcoRI site found at 5777
    Illegal EcoRI site found at 7205
    Illegal XbaI site found at 1623
    Illegal XbaI site found at 5808
    Illegal SpeI site found at 1097
    Illegal PstI site found at 893
    Illegal PstI site found at 4039
    Illegal PstI site found at 6615
    Illegal PstI site found at 8349
    Illegal PstI site found at 8950
  • 25
    INCOMPATIBLE WITH RFC[25]
    Illegal EcoRI site found at 1858
    Illegal EcoRI site found at 5777
    Illegal EcoRI site found at 7205
    Illegal XbaI site found at 1623
    Illegal XbaI site found at 5808
    Illegal SpeI site found at 1097
    Illegal PstI site found at 893
    Illegal PstI site found at 4039
    Illegal PstI site found at 6615
    Illegal PstI site found at 8349
    Illegal PstI site found at 8950
    Illegal NgoMIV site found at 2566
    Illegal NgoMIV site found at 5134
    Illegal NgoMIV site found at 8337
  • 1000
    INCOMPATIBLE WITH RFC[1000]
    Illegal BsaI site found at 3422
    Illegal BsaI site found at 3560
    Illegal BsaI site found at 4249
    Illegal BsaI.rc site found at 4742
    Illegal SapI site found at 3140
    Illegal SapI site found at 8838
    Illegal SapI site found at 9147


References:
[1] Jose Juan Almagro Armenteros, Casper Kaae Sønderby, Søren Kaae Sønderby, Henrik Nielsen, Ole Winther; DeepLoc: prediction of protein subcellular localization using deep learning, Bioinformatics, btx431

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