Selected Synthetic Genes Citations

  1. Multiplexed activation of endogenous genes by CRISPR-on, an RNA-guided transcriptional activator system
    Cheng AW, Wang H, et al
    Cel Res, 23(10):1163–1171 (2013)
    A gBlocks Gene Fragment was used to add 10 repeats of the minimal VP16 transactivation domain, derived from herpes simplex virus, to a nuclease deficient Cas9. This allows the resulting dCas9VP160 chimeric protein to serve as a transcriptional activator that can be easily target by CRISPR machinery in a variety of cell types.
  2. A Neuronal GPCR is Critical for the Induction of the Heat Shock Response in the Nematode C. elegans
    Maman M, Carvalhal Marques F, et al
    J Neurosci, 33(14):6102-6111 (2013)
  3. Decaffeination and measurement of caffeine content by addicted Escherichia coli with a refactored N-demethylation operon from Pseudomonas putida CBB5
    Quandt EM, Hammerling MJ, et al
    ACS Synth Bio, 2(6):301–307 (2013)
    gBlocks® Gene Fragments were assembled using the Gibson Assembly™ Method to generate some of the plasmid constructs involved in refactoring a N-demethylation operon that provides a caffeine degradation pathway from Pseudomonas putida CBB5 to E Coli, an organism more amenable to genetic engineering and industrial applications.The resulting cell lines requred caffeine to survive and their growth yield could serve as a biosensor to precisely measure caffeine concentrations, for example, in sodas and energy drinks. This work was part of a 2012 undergraduate iGEM project sponsored by IDT.
    Gibson Assembly Method
  4. Rapid generation of microRNA sponges for microRNA inhibition
    Kluiver J, Gibcus JH, Hettinga C, Adema A, et al
    PLoS One, 7(1):e29275 (2012)

    IDT MiniGene constructs were ordered with sequences designed for use as micro RNA (miR) sponges agains miR-17, miR-18a, miR-19, and miR-92. The sequences were also designed with 5′-Xho1 and 3′-EcoR1 sites for subcloning into other vectors by restriction digest.

  5. Transcriptional regulation of N-acetylglutamate synthase
    Heibel SK, Lopez GY, Panglao M, et al
    PLoS One, 7(2):e29527 (2012)
    IDT MiniGene synthetic genes were engineered by IDT for use in transcription factor binding assays. Mutant sites were created for SP1, HNF-1, and NF-Y and the MiniGene synthetic genes were provided in pIDTSMART-KAN vectors.
  6. Identification of a phosphorylation-dependent nuclear localization motif in interferon regulatory factor 2 binding protein 2
    Teng AC, Al-Montashiri NA, Cheng BL, et al
    PLoS One, 6(8):e24100 (2011)
    IDT MiniGene constructs were ordered for IRF2BP2 (Interferon regulatory factor 2 binding protein 2) mutants: 355 GAC GAC GAC GAC 358 (aspartic acids), TCT 360 TAT (S360A), and TCT 360 GAT (S360D). The MiniGene cosnstructs were flanked by endogenous PstI and NcoI in IRF2BP2 for subcloning by restriction digest
  7. A feedback loop regulates splicing of the spinal muscular atrophy-modifying gene, SMN2
    Jodelka FM, Ebert AD, Duelli DM, et al
    Hum Mol Genet, 19(24):4906–4917 (2010)
    An IDT MiniGene Synthetic Gene expressing wild-type survival motor neuron from the SMN2 and a second SMN2 MiniGene Synthetic Gene with a silent mutation in the siRNA recognition sequence are used to study the effects of siRNA knockdown, and rescue, of SMN1/2 on gene splicing. IDT DsiRNA Duplexes are also used for the siRNA knockdown experiments.
  8. Identification and expression analysis of herpes B virus-encoded small RNAs
    Amen MA, Griffiths A
    J Virol, 85(14):7296–7311 (2011)
    A portion of the second exon of herpes simplex virus, immediate early protein ICP0, synthesized as a MiniGene synthetic gene. The MiniGene synthetic gene construct was subcloned into a secondary vector system, and used to generate RNA for use as a standard in RT-qPCR
  9. Synthesis of DNA fragments in yeast by one-step assembly of overlapping oligonucleotides
    Gibson D
    Nucleic Acids Res, 37(20):6984–6990 (2009)

    Use of sets of hybridized, high-fidelity Ultramer Oligonucleotides to assemble large constructs in a single step. Now available as a product, gBlocks® Gene Fragments, with the high-fidelity Ultramer oligos verified and prehybridized, ready for assembly.