Material page!

Bacterial

  • DH5 α (YB-biotech, Taiwan) : for plasmid amplification.
  • BL21 (YB-biotech, Taiwan): for protein expression of pET system
  • DStbl3 (YB-biotech, Taiwan) : Derived from HB101. For cloning into and storage of lentiviral and retroviral vectors or cloning or repeated sequences with the potential to recombine.

Plasmid

  • pET-15b (Merch, USA): The pET-15b vector is employed for replicating ssDNA fragments derived from the DNA tetrahedron. This vector is additionally equipped with a ribosome binding site, facilitating ribosome binding at translation initiation. This enables the generation of binding proteins, single-strand binding proteins, RepA protein, mGL, and the c7 peptide.)
  • pET-32a(+) (Merch, USA): The pET-32a vector is used for replicating the sequence that forms the DNA tetrahedron.)

Primer

Pairs name 5’ to 3’ primer sequence
T7-forward CCTATAGTGAGTCGTATTA
T7-reverse CAAAAAACCCCTCAAGACCCGTTTAGAGGCCCCAAGGGGTTATGCTAG
RCA-ssDNA-R-R TCGAGTGCGGCCGCAAGCTT
RCA-ssDNA-L-R AGTGTAGGCCACGGAACCGG
RCA-ssDNA-L-F GATAACAATTCCCCTCTAGA
RCOR-cassette-F AAGTGCCACCTGACGTCTAA
RCOR-cassette-R TTCATACACGGTGCCTGACT
ALDH2-2-F GTCCTGGGAGTGTAACCCATAA
ALDH2-2-R AACAGACCCCAATCCCCCAGCA



DNA gblocks

DNA gblocks sequence
TD1 ACATTCCTAAGTCTGAAacATTACAGCTTGCTACACgaGAAGAGCCGCCATAGTA
TD2 TATCACCAGGCAGTTGAcaGTGTAGCAAGCTGTAATagATGCGAGGGTCCAATAC
TD3 TCAACTGCCTGGTGATAaaACGACACTACGTGGGAAtcTACTATGGCGGCTCTTC
TD4 TTCAGACTTAGGAATGTgcTTCCCACGTAGTGTCGTttGTATTGGACCCTCGCAT
TD2F GCTTGCACGCGTGCtattaatATCACCAGGCAGTTGAcaGTGTAGCAAGCTGTAATagATGCGAGGGTCCAATAC
Adaptor3N-1 GCACGCGTGCAAGC
IR1a GATGTACAGCCATAGTTGAGCATTAAGTTGAAGTGGCTGTACATC
Zif268 protein target GCGTGGGCG
PBSII protein target GTGTGGAAA
PBSII-Zif268 DNA GTGCCGCGCGGCAGCCATATGCCAGGTGAAAAGCCATACGCCTGCCCGGAATGTGGCAAGTCATTCTCGCAACGTGCCAACTTGCGTGCTCATCAACGCACCCACACAGGAGAAAAACCGTACAAATGCCCTGAGTGTGGTAAGTCGTTTTCTCGTTCAGACCATCTGACAACCCACCAACGCACTCACACTGGGGAGAAGCCATATAAATGCCCCGAATGTGGGAAAAGTTTCTCCCGTTCCGATGTTTTGGTGCGCCATCAGCGCACACATACGGGAGGAGGGAGCGGAGGTGGATCCGGTGGGAGTATGCCCGGTGAAAAACCCTATGCTTGCCCCGTAGAAAGTTGCGACCGCCGCTTTTCCCGCTCAGACGAGTTGACACGTCATATTCGCATCCACACGGGCCAAAAACCATTCCAGTGTCGCATTTGTATGCGTAATTTTTCTCGCTCCGATCATTTGACCACTCATATTCGTACACATACGGGGGAGAAGCCATTTGCATGCGACATTTGCGGACGTAAATTCGCGCGTTCAGATGAACGCAAACGTCATACTAAAATCCATACTTAACTCGAGGATCCGGCTGCTAACAAA
RCORI-105 TAAAGGATTTGAGCGTAGCGAAAAATCCTTTTCTTTCTTATCTTGATAATAAGGGTAACTATTGCCGGCGAGGCTAGTTACCCTTAAGTTATTGGTATGACTGGT
RCORI-65 AAAAATCCTTTTCTTTCTTATCTTGATAATAAGGGTAACTATTGCCGGCGAGGCTAGTTACCCTT
RepA DNA Codon optimized (E.Coli) ATGTGTTACAACATGGAAAAATACACAGAAAAGAAGCAGCGTAATCAGGTTTTTCAAAAATTCATTAAACGCCACATCGGGGAAAACCAAATGGACTTGGTTGAAGACTG CAATACTTTCTTATCGTTCGTGGCTGATAAGACGCTGGAGAAACAGAAACTTTACAAGGCCAACAGTTGCAAAAACCGTTTTTGTCCGGTGTGTGCGTGGCGTAAAGCACGCAAGGATGCACTTGGTCTGAGCTTGATGATGCAGTATATTAAGCAGCAAGAAAAGAAAGAATTTATTTTCTTAACTCTTACGACCCCGAATGTAATGAGTGATGAATTG GAAAATGAGATTAAACGTTATAACAACTCGTTCCGCAAATTGATTAAACGCAAAAAGGTCGGGTCGGTTATCAAGGGCTATGTTCGTAAACTTGAGATCA CATATAATAA GAAGCGTGACGACTACAACCCGCACTTCCACGTTTTGATCGCTGTGAACAAATCTTATTTTACGGACAAACGCTACTATATTTCACAGCAAGAGTGGTTGGATTTATGGCGCGACGTGACCGGCATCTCCGAGATTACTCAAGTTCAAGTTCAGAAAATCCGCCAGAACAATAACAAAGAACTGTACGAGATGGCGAAGTATAGTGGTAAAGATTCAGACTATCTGATCAATAAGAGCAAAAGTCTTTGA
SBP DNA Codon optimized (E.Coli) ATGGCATCACGCGGCGTCAACAAAGTGATCTTGGTAGGGAATTTGGGACAAGACCCTGAAGTTCGCTATATGCCCAATGGTGGAGCGGTAGCCAACATCACACTGGCGACCTCCGAGAGCTGGCGTGATAAGGCCACGGGCGAGATGAAGGAACAGACGG AATGGCATCGCGTGGTGTTGTTTGGAAAGCTGGCGGAGGTAGCTTCAGAGTACCTTCGCAAAGGGAGTCAAGTCTATATCGAAGGACAACTGCGTACGCGTAAGTGGACTGACCAGAGTGGGCAAGACCGTTATACGACTGAAGTGGTGGTGAACGTGGG GGGCACTATGCAAATGCTTCGTTCGCCAGTGGTAGTTTCTCGT
RCR-ssDNA-L CCTTTCGTCTTCAAGAATTCTAAAGGATTTGAGCGTAGCGAAAAATCCTTTTCTTTCTTATCTTGATAATAAGGGTAACTATTGCCGGCGAGGCTAGTTACCCTTAAGTTATTGGTATGACTGGTAGATATGGAGCGCTGGCGCGAtCGTGACGTGTGGAAAAGTGCTtCACGCATTTCATGATACGAGCtACGCACGTCTACTCTAGGGCGtGGGTGCGCGTGGGCGGCCGAAtTCGCGCCAG
RCR-ssDNA-R GCGGCCGAAtTCGCGCCAGCGCTCCATATCTtGCTCGTATCATGAAATGCGTGtGCGACTCTCGTGCCGGCTTGCGTCCGCGTCGCtAGCACTTTTCCACACGTCACGtTTCGGCCGCCCACGCGCACCCtGCGGCCCGGCACGAgaGCGGACGCAAGGCCGCtCGCCCTAGAGTAGACGTGCGTGATGTACAGCCATAGTTGAGCATTAAGTTGA/AGTGGCTGTACATCAAAAATCCTTTTCTTTCTTATCTTGATAATAAGGGTAACTATTGCCGGCGAGGCTAGTTACCCTTAAGCTTTAATGCGGTAGTTT
mGL ATGGTGAGCAAGGGCGAGGAGCTGTTCACCGGGGTGGTGCCCATCCTGGTCGAGCTGGACGGCGACGTAAACGGCCACAAGTTCAGCGTCCGCGGCGAGGGCGAGGGCGATGCCACCAACGGCAAGCTGACCCTGAAGTTCATCTGCACCACCGGCAAGCTGCCCGTGCCCTGGCCCACCCTCGTGACCACCTTAGGCTACGGCGTGGCCTGCTTCGCCCGCTACCCCGACCACATGAAGCAGCACGACTTCTTCAAGTCCGCCATGCCCGAAGGCTACGTCCAGGAGCGCACCATCTCTTTCAAGGACGACGGTACCTACAAGACCCGCGCCGAGGTGAAGTTCGAGGGCGACACCCTGGTGAACCGCATCGTGCTGAAGGGCATCGACTTCAAGGAGGACGGCAACATCCTGGGGCACAAGCTGGAGTACAACTTCAACAGCCACAAGGTCTATATCACGGCCGACAAGCAGAAGAACGGCATCAAGGCTAACTTCAAGACCCGCCACAACGTTGAGGACGGCGGCGTGCAGCTCGCCGACCACTACCAGCAGAACACCCCCATCGGCGACGGCCCCGTGCTGCTGCCCGACAACCACTACCTGAGCCATCAGTCCAAACTGAGCAAAGACCCCAACGAGAAGCGCGATCACATGGTCCTGAAGGAGAGGGTGACCGCCGCCGGGATTACACATGACATGGACGAGCTGTACAAGTAA
EGFP ATGGTAAGTAAAGGAGAAGAGCTATTTACAGGCGTAGTCCCGATCCTGGTGGAATTAGATGGTGATGTTAACGGTCATAAGTTCTCCGTGAGCGGTGAAGGCGAAGGTGACGCCACCTACGGTAAATTGACGTTGAAGTTTATCTGCACCACTGGTAAGCTGCCAGTGCCGTGGCCGACCCTGGTCACCACCCTGACGTACGGCGTGCAATGTTTTTCTCGTTATCCGGATCACATGAAACAGCACGATTTCTTCAAGAGCGCAATGCCGGAAGGTTACGTTCAAGAGCGCACCATTTTTTTCAAGGACGACGGAAACTACAAAACCCGTGCGGAAGTTAAATTCGAGGGCGACACCCTTGTGAACCGTATTGAGCTCAAGGGTATTGATTTTAAGGAGGACGGCAACATCCTGGGCCACAAATTGGAGTATAACTACAACAGCCATAATGTTTATATCATGGCAGACAAACAAAAGAATGGCATCAAAGTCAACTTTAAGATTAGACACAATATCGAGGACGGTAGCGTTCAGCTGGCGGACCACTACCAGCAGAACACCCCGATTGGTGACGGCCCTGTGTTGCTGCCGGATAATCATTACCTGTCGACCCAGAGCGCTCTGTCCAAAGATCCGAATGAAAAGCGCGATCACATGGTTTTGCTGGAGTTCGTGACGGCGGCGGGTATTACCCTGGGCATGGATGAACTGTATAAA
c7 peptide ATGCATACCG CGCCGGGCTG GGGCTATCGC CTGTCG

References

Jia, Y., et al. (2021, April 8). DNA-Catalyzed Efficient Production of Single-Stranded DNA Nanostructures. ScienceDirect. https://doi.org/10.1016/j.chempr.2020.12.001

Xie, N. et al. (2017). DNA tetrahedron nanostructures for biological applications: biosensors and drug delivery. The Analyst, 142(18), 3322–3332. https://doi.org/10.1039/c7an01154g

Conrado, R. J., et al.(2012). DNA-guided assembly of biosynthetic pathways promotes improved catalytic efficiency. Nucleic acids research, 40(4), 1879–1889. https://doi.org/10.1093/nar/gkr888

Li, C., et al. (2023). Construction of rolling circle amplification products-based pure nucleic acid nanostructures for biomedical applications. Acta biomaterialia, 160, 1–13. https://doi.org/10.1016/j.actbio.2023.02.005

Hao, M., et al. (2020). Dynamic Genome Editing Using In Vivo Synthesized Donor ssDNA in Escherichia coli. Cells, 9(2), 467. https://doi.org/10.3390/cells9020467

Chandrupatla, H. et al. (2019). The folate receptor β as a macrophage-mediated imaging and therapeutic target in rheumatoid arthritis. Drug delivery and translational research, 9(1), 366–378. https://doi.org/10.1007/s13346-018-0589-2

Xing, L., et al. (2018)Identification of a peptide for folate receptor alpha by phage display and its tumor targeting activity in ovary cancer xenograft. Sci Rep 8, 8426. https://doi.org/10.1038/s41598-018-26683-z