CHE.496/2008/Schedule/Natural biological parts: Difference between revisions

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* '''Another side of genomics: Synthetic biology as a means for the exploitation of whole-genome sequence information [http://www.sciencedirect.com/science?_ob=ArticleURL&_udi=B6T3C-4J3WG6G-2&_user=10&_rdoc=1&_fmt=&_orig=search&_sort=d&view=c&_acct=C000050221&_version=1&_urlVersion=0&_userid=10&md5=991e2e60d1fea5abc67784f073c716dd link]
* '''Another side of genomics: Synthetic biology as a means for the exploitation of whole-genome sequence information [http://www.sciencedirect.com/science?_ob=ArticleURL&_udi=B6T3C-4J3WG6G-2&_user=10&_rdoc=1&_fmt=&_orig=search&_sort=d&view=c&_acct=C000050221&_version=1&_urlVersion=0&_userid=10&md5=991e2e60d1fea5abc67784f073c716dd link]
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**Purpose: The paper reviews the area of Synthetic Biology – the design/development of biosystems founded on the synthesis of DNA as well as recent developments in the field.  
**Purpose: The paper reviews the area of Synthetic Biology – the design/development of biosystems founded on the synthesis of DNA as well as recent developments in the field.  
***Background material is given in the various fields and technologies (synthetic genes, DNA recombination tech, PCR and so on).  
***Background material is given in the various fields and technologies (synthetic genes, DNA recombination tech, PCR and so on).  
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****Synthesizing part of the sequence, leaving gaps in the fragile hybrid and filling in the gaps with DNA polymerase enzymes
****Synthesizing part of the sequence, leaving gaps in the fragile hybrid and filling in the gaps with DNA polymerase enzymes
***In situ microarray synthesis represents a cost-effective technology that can combine pieces of DNA to form larger pieces of DNA in a cheaper and faster manner than older technologies.                                                                                                                                                                                                                             
***In situ microarray synthesis represents a cost-effective technology that can combine pieces of DNA to form larger pieces of DNA in a cheaper and faster manner than older technologies.                                                                                                                                                                                                                             
**Conclusion: development costs of synthetic genes will drop and new applications will emerge such as novel self-replicating systems. Furthermore, more attention can be focused on downstream processing – optimization and fine-tuning (i.e. reduce the errors in the DNA “code” using mutation detection proteins). Further developments will result in longer sequences being synthesized and array-derived oligonucleotides will continue to be optimized in quality and performance.


* '''Codon bias and heterologous protein expression [http://www.sciencedirect.com/science?_ob=ArticleURL&_udi=B6TCW-4C8NKCY-3&_user=10&_rdoc=1&_fmt=&_orig=search&_sort=d&view=c&_acct=C000050221&_version=1&_urlVersion=0&_userid=10&md5=45ad088ad31ff6fef31fa219d8f4099d link]
* '''Codon bias and heterologous protein expression [http://www.sciencedirect.com/science?_ob=ArticleURL&_udi=B6TCW-4C8NKCY-3&_user=10&_rdoc=1&_fmt=&_orig=search&_sort=d&view=c&_acct=C000050221&_version=1&_urlVersion=0&_userid=10&md5=45ad088ad31ff6fef31fa219d8f4099d link]

Revision as of 16:10, 31 January 2008

CHE.496: Biological Systems Design Seminar

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Natural biological parts

  • Intro to Gene Designer (George)


  • Discussion leader: Patrick


  • Another side of genomics: Synthetic biology as a means for the exploitation of whole-genome sequence information link


    • Purpose: The paper reviews the area of Synthetic Biology – the design/development of biosystems founded on the synthesis of DNA as well as recent developments in the field.
      • Background material is given in the various fields and technologies (synthetic genes, DNA recombination tech, PCR and so on).
      • The process for creating a synthetic gene: target DNA is produced by programmed chemical synthesis of short oligonucleotides where longer DNA molecules are formed together via ligation, PCR, and doing either of the following:
        • Synthesizing the complete sequence and ligating the backbone
        • Synthesizing part of the sequence, leaving gaps in the fragile hybrid and filling in the gaps with DNA polymerase enzymes
      • In situ microarray synthesis represents a cost-effective technology that can combine pieces of DNA to form larger pieces of DNA in a cheaper and faster manner than older technologies.
    • Conclusion: development costs of synthetic genes will drop and new applications will emerge such as novel self-replicating systems. Furthermore, more attention can be focused on downstream processing – optimization and fine-tuning (i.e. reduce the errors in the DNA “code” using mutation detection proteins). Further developments will result in longer sequences being synthesized and array-derived oligonucleotides will continue to be optimized in quality and performance.
  • Codon bias and heterologous protein expression link

Exercise:

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