Results

                       A                                            B

Fig. 1 - Bovine Galectin-1 gene cloned into the pSB1C3 vector with pBAD promoter and a RBS

Galectin-1 from Bos taurus  has been cloned into pSB1C3 vector. Bos taurus or bovine galectin enabled us to generate a platform that enables future work on ligand binding. While CvGals binding characteristics are still being researched the crystal structure and nature of bovine galectin has been well studied. The subsequent BioBricks regarding this gene were all constructed via Gibson assembly and cloning. The plasmids from which the OmpA insert and the vector were amplified via extension PCR are respectively: OmpA with linker (BBa_K103006) and pBAD-RBS on the pSB1C3 backbone (BBa_K750000). For the latter, the GFP in the BioBrick was not included for Gibson assembly. The bovine galectin-1 was ordered as a synthetically synthesized sequence from IDT as a linear gene and amplified directly with appropriate primers for Gibson assembly.

Figure 1A shows the Bovine galectin-1 assembled into pSB1C3-pBAD-RBS alone (no OmpA), which when expressed in E. coli should produce a soluble form of the protein. After successful assembly and cloned into DH5α E. coli. The plasmid was cut with restriction enzymes EcoRI and PstI, standard sites in the pSB1C3 vector’s BioBrick prefix and suffix, respectively. The result is expected to yield the insert, pBAD-RBS-Bovine galectin-1, and the pSB1C3 vector. However, an unwanted EcoRI site was found in the galectin-1 gene afterwards, yielding the pattern seen in the gel. Figure 1B demonstrates the expected pattern, with band sizes of 2033 bp, 496 bp, and 169 bp top to bottom, via the software “A plasmid Editor” (ApE, courtesy of M. Wayne Davis, University of Utah).

AB

 (3rd Lane contains OmpA-Bovine product)

Fig. 2 - OmpA-Bovine (cut with BamHI and HindIII, before SDM)

Figure 2A shows the Bovine galectin-1 assembled into pSB1C3-pBAD-RBS as a fusion protein with OmpA. When expressed in E. coli, the galectin should continue off the C-terminus of the OmpA-linker and thus be transported to the extracellular matrix since it is attached to the OmpA transport protein. After plasmid assembly transfer of plasmid into a DH5α E. coli cells strain, the plasmid was extracted and digested with EcoRI and PstI. The pattern of three bands appears again due to an additional EcoRI restriction site.

Sequencing Results:

OmpA-Bovine SDM Chromatogram:
Sequence file:
NNNNNNNNNNNTNNNNANNNNNAGGCGTATCACGAGGCAGAATTTCAGATAAAAAAAATCCTTAGCTTTCGCTAAGGATG
ATTTCTGGAATTCGCGGCCGCTTCTAGAGACATTGATTATTTGCACGGCGTCACACTTTGCTATGCCATAGCAAGATAGT
CCATAAGATTAGCGGATCCTACCTGACGCTTTTTATCGCAACTCTCTACTGTTTCTCCATACCGTTTTTTTGGGCTAGCT
ACTAGAGAAAGAGGAGAAATACTAGCATATGAAAGCTACTAAACTGGTACTGGGCGCGGTAATCCTGGGTTCTACTCTGC
TGGCAGGTTGCTCCAGCAACGCTAAAATCGATCAGGGAATTAACCCGTATGTTGGCTTTGAAATGGGTTACGACTGGTTA
GGTCGTATGCCGTACAAAGGCAGCGTTGAAAACGGTGCATACAAAGCTCAGGGCGTTCAACTGACCGCTAAACTGGGTTA
CCCAATCACTGACGACCTGGACATCTACACTCGTCTGGGTGGCATGGTATGGCGTGCAGACACTAAATCCAACGTTTATG
GTAAAAACCACGACACCGGCGTTTCTCCGGTCTTCGCTGGCGGTGTTGAGTACGCGATCACTCCTGAAATCGCTACCCGT
CTGGAATACCAGTGGACCAACAACATCGGTGACGCACACACCATCGGCACTCGTCCGGACAACGGCGGANGTTCTGGAGG
ANGGAGCATGGCGTCGGGGCTTGTTGCGTCCAATCTGAATCTGAAACCAGGTGAAAGCTTACGCGTCCGCGGCGAAGTAG
CCGCAGATGCGAAATCTTTTCTCTTGAACCTGGGCAAGGACGANAATAATCTGGCTTTGCATTTCAACCCGCGTTTCNAC
GCTCATGGNGACNTGAACACAATCNTGTGTAANTCCAAGGNTGCTGGTGCTTGGGGTGCANAANNANCGNGNNNTCCGCG
TTCCCGTTTCANNNNNGCTCANNNNGGNAGTCACCNTNCNGCNTTCANCCANNNCGANNTNCNNNNTTAAANNNGNNNNN
NGGNNNCNAAGTTNNANTTNNCNAANCNNNTNNAACNNNNNGNNNNNNNNNNNNNNNNNGNNNN

A

pBAD-Bovine SDM chromatogram:
NNNNNNNNNNNNTNNNCTATNNNNTAGGCGTATCACGAGGCAGAATTTCAGATAAAAAAAATCCTTAGCTTTCGCTAAGG
ATGATTTCTGGAATTCGCGGCCGCTTCTAGAGACATTGATTATTTGCACGGCGTCACACTTTGCTATGCCATAGCAAGAT
AGTCCATAAGATTAGCGGATCCTACCTGACGCTTTTTATCGCAACTCTCTACTGTTTCTCCATACCGTTTTTTTGGGCTA
GCTACTAGAGAAAGAGGAGAAATACTAGATGGCGTCGGGGCTTGTTGCGTCCAATCTGAATCTGAAACCAGGTGAAAGCT
TACGCGTCCGCGGCGAAGTAGCCGCAGATGCGAAATCTTTTCTCTTGAACCTGGGCAAGGACGATAATAATCTGGCTTTG
CATTTCAACCCGCGTTTCAACGCTCATGGCGACGTGAACACAATCGTGTGTAATTCCAAGGATGCTGGTGCTTGGGGTGC
AGAACAGCGTGAGTCCGCGTTCCCGTTTCAACCGGGCTCAGTTGTGGAAGTCACCATCAGCTTCAACCAGACCGATCTCA
CCATTAAACTGCCGGATGGCTACGAGTTTAAGTTTCCAAACCGTTTAAACCTCGAGGCCATCAACTATCTGTCCGCGGGG
GGCGACTTCAAGATTAAAAGCGTGCACCATCATCACCACCATTGATCACACTGGCTCACCTTCGGGTGGGCCTTTCTGCG
TTTATATACTAGTAGCGGCCGCTGCAGTCCGGCAAAAAAGGGCAAGGTGTCACCACCCTGCCCTTTTTCTTTAAAACCGA
AAAGATTACTTCGCGTTATGCNGGCTTCCTCGCTCACTGACTCGCTGCGCTCGGTCGTTCGGCTGCGGCGAGCGGTATCA
GCTCACTCAAAGGCGGTAATACGGTTATCNNCAGAATCNGGGGATNACGCAGGAAANAACATGTGAGCAAANNNCAGCAA
AANGCAGGAANCGTAAAANNNN

B

Fig. 3 - Sequencing results and Chromatogram of SDM’d plasmids (BBa_K1489000 and BBa_K1489004)

To address this issue, site-directed mutagenesis was performed on these plasmids to change the EcoRI sequence within the bovine galectin-1 gene (5’-GAATTC-3’) to 5’-GAGTTT-3’, which will code for the same Glu-Phe sequence. Figure 3A and 3B demonstrate the two successfully mutagenized base pairs in the bovine galectin-1 gene, while preserving the rest of the plasmid.

 Sequencing results: NNNNNNNNNNNNNNNNTATANAAATAGGCGTATCNCGAGGCAGAATTTCAGATAAAAAAAATCCTTAGCTTTCGCTAAGG ATGATTTCTGGAATTCGCGGCCGCTTCTAGAGGGCATATGAAAGCTACTAAACTGGTACTGGGCGCGGTAATCCTGGGTT CTACTCTGCTGGCAGGTTGCTCCAGCAACGCTAAAATCGATCAGGGAATTAACCCGTATGTTGGCTTTGAAATGGGTTAC GACTGGTTAGGTCGTATGCCGTACAAAGGCAGCGTTGAAAACGGTGCATACAAAGCTCAGGGCGTTCAACTGACCGCTAA ACTGGGTTACCCAATCACTGACGACCTGGACATCTACACTCGTCTGGGTGGCATGGTATGGCGTGCAGACACTAAATCCA ACGTTTATGGTAAAAACCACGACACCGGCGTTTCTCCGGTCTTCGCTGGCGGTGTTGAGTACGCGATCACTCCTGAAATC GCTACCCGTCTGGAATACCAGTGGACCAACAACATCGGTGACGCACACACCATCGGCACTCGTCCGGACAACGGCGGAGG TTCTGGAGGAGGGAGCTCTACTAGTAGCGGCCGCTGCAGTCCGGCAAAAAAGGGCAAGGTGTCACCACCCTGCCCTTTTT CTTTAAAACCGAAAAGATTACTTCGCGTTATGCAGGCTTCCTCGCTCACTGACTCGCTGCGCTCGGTCGTTCGGCTGCGG CGAGCGGTATCAGCTCACTCAAAGGCGGTAATACGGTTATCCACAGAATCAGGGGATAACGCANGNNNAACATGTGAGCA AAAGGCCAGCNNAGGCCAGGAACCGTAAAAAGGCCGCGTTGCTGGCGTTTTTCCACAGGCTCCGCCCCCCTGACGAGCAT CACAAAAATCGACGCTCAAGTCAGANGTGGCGAAACCCGACAGGACTATAAAGATACCAGGCGTTTCCCCCTGGNAGCTC CCTCGTGCGCTCTCCTGTTCCNACCCTGCCGCTTACCGGATACCTGTCCGCCTTTCTCCCTTCGGGAAGCGTGGCGCTTT CTCNTAGCTCACGCTGTAGGTATCNNCANNN

Fig 4. - Sequencing Results and Chromatogram of OmpA moved into pSB1C3

Since UMaryland worked extensively with the OmpA-linker (BBa_K103006), we have also looked into improvements on that BioBrick.

OmpA-KasI chromatogram, shrunk down

Sequencing Results:

Sequence:
NNNNNNNNNNNNNNNTATAAAAATAGGCGTATCACGAGGCAGAATTTCAGATAAAAAAAATCCTTAGCTTTCGCTAAGGA
TGATTTCTGGAATTCGCGGCCGCTTCTAGAGGGCATATGAAAGCTACTAAACTGGTACTGGGCGCGGTAATCCTGGGTTC
TACTCTGCTGGCAGGTTGCTCCAGCAACGCTAAAATCGATCAGGGAATTAACCCGTATGTTGGCTTTGAAATGGGTTACG
ACTGGTTAGGTCGTATGCCGTACAAAGGCAGCGTTGAAAACGGTGCATACAAAGCTCAGGGCGTTCAACTGACCGCTAAA
CTGGGTTACCCAATCACTGACGACCTGGACATCTACACTCGTCTGGGTGGCATGGTATGGCGTGCAGACACTAAATCCAA
CGTTTATGGTAAAAACCACGACACCGGCGTTTCTCCGGTCTTCGCTGGCGGTGTTGAGTACGCGATCACTCCTGAAATCG
CTACCCGTCTGGAATACCAGTGGACCAACAACATCGGTGACGCACACACCATCGGCACTCGTCCGGACAACGGCGGAGGT
TCTGGAGGAGGGGCGCCTACTAGTAGCGGCCGCTGCAGTCCGGCAAAAAAGGGCAAGGTGTCACCACCCTGCCCTTTTTC
TTTAAAACCGAAAAGATTACTTCGCGTTATGCAGGCTTCCTCGCTCACTGACTCGCTGCGCTCGGTCGTTCGGCTGCGGC
GAGCGGTATCAGCTCACTCAAAGGCGGTAATACGGTTATCCACAGAATCAGGGGATAACGCAGGAAAGAACATGTGAGCA
AAAGGNCAGCAAAAGGNCAGGAACCGTAAAAAGGCCGCGTTGCTGGCGTTTTTCCACAGGCTCCGCCCCCCTGACGAGCA
TCACAAAAATCGACGCTCAAGTCANNNNGGCGAAACCCGACAGGACTATAAAGATACCAGGCGTTTCCCCCTGGAAGCTC
CCTCGTGCGCTCTNCTGTTCCNACCCTGCCGCTTACCNGATACCTGTCNCNTTCTNCCTTCGGGANCGNGNGCTTTCTCA
TAGCTCACGCTNTAGGTANNNCANTNCGGNNNTNGNCGTTNNNCNCNANNCTNGNNTN

Fig. 5 - Sequencing Results and Chromatogram of SDM’d OmpA in pSB1C3

"The previous version of Lpp-OmpA-Linker (BBa_K103006), designed for the pSB1A2 vector backbone, contained the non-traditional restriction sites NdeI (CATATG) and SacI (GAGCTC) in order to attach proteins at the N-terminus and C-terminus of OmpA, respectively. While the NdeI site is still useful for RE cloning at the N-terminus of OmpA, the implementation of the new plasmid backbone pSB1C3 has made the SacI site difficult to use. This is due to the presence of a second SacI site in the chloramphenicol acetyltransferase gene in pSB1C3. We have thus decided to mutagenize the previous SacI site on Lpp-OmpA-Linker into a KasI site in order to remove this issue. The KasI site (GGCGCC) encodes the amino acids glycine and alanine, converting the sequence of the linker from Gly-Gly-Gly-Ser-Gly-Gly-Gly-Ser to Gly-Gly-Gly-Ser-Gly-Gly-Gly-Ala. We believe this to be a sufficiently minor alteration to the unfolded linker sequence as to not affect protein function."