research-hummingbird CIDAR MoClo Part and Plasmid Libraries
Hierarchical assembly structure with rotating antibiotic selection.

Hierarchical assembly structure with rotating antibiotic selection.

Hummingbird is a repository of MoClo DNA part and plasmid libraries developed by the CIDAR lab.

The CIDAR MoClo Library is the first bacterial DNA part library compatible with a multipart assembly standard. CIDAR MoClo allows for the rapid assembly of interchangeable DNA parts. While many DNA assembly standards have been published in recent years, only the Modular Cloning standard, or MoClo, has the advantage of publicly available part libraries for use in plant, yeast, mammalian systems, and now E. coli.

CIDAR MoClo Publication: Iverson, S., T. L. Haddock, J. Beal and D. Densmore (2015). “CIDAR MoClo: Improved MoClo Assembly Standard and New E. Coli Part Library Enables Rapid Combinatorial Design for Synthetic and Traditional Biology.” ACS Synthetic Biology. (link)

Hummingbird Libraries

Note: The CIDAR MoClo Library is in quality control stages at Addgene and will be available shortly. Please contact us with any questions.

Key features

Funding

Working with CIDAR MoClo

The CIDAR MoClo Library is publicly available and contains promoters, ribosomal binding sites, coding sequences, terminators, vectors, and a set of fluorescent control plasmids. Optimized protocols reduce reaction time and cost by >80% from previously published protocols. All plasmids included in the kit are documented on the CIDAR-ICE registry. Additionally, these plasmids and others used in part characterization and other projects can be found on a public Benchling directory.

The CIDAR MoClo Library and assembly standard enable rapid design-build-test cycles in E. coli making this system advantageous for use in many areas of synthetic biology as well as traditional biological research and education.

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Recent news stories for Hummingbird
Selected Hummingbird publications:

  • S. Iverson, T. L. Haddock, J. Beal, and D. Densmore, “CIDAR MoClo: Improved MoClo Assembly Standard and New E. coli Part Library Enables Rapid Combinatorial Design for Synthetic and Traditional Biology,” ACS Synthetic Biology, iss. ja, p. null, 2015. doi:10.1021/acssynbio.5b00124
    [BibTeX] [Download PDF]
    @Article{doi:10.1021/acssynbio.5b00124,
    Title = {CIDAR MoClo: Improved MoClo Assembly Standard and New E. coli Part Library Enables Rapid Combinatorial Design for Synthetic and Traditional Biology},
    Author = {Sonya Iverson and Traci L. Haddock and Jacob Beal and Douglas Densmore},
    Journal = {ACS Synthetic Biology},
    Year = {2015},
    Note = {PMID: 26479688},
    Number = {ja},
    Pages = {null},
    Volume = {0},
    DOI = {10.1021/acssynbio.5b00124},
    Eprint = { http://dx.doi.org/10.1021/acssynbio.5b00124 },
    Owner = {Obdurate_2},
    Timestamp = {2015.11.02},
    URL = {
    http://dx.doi.org/10.1021/acssynbio.5b00124
    }
    }

  • S. Iverson, J. Beal, T. Haddock, and D. Densmore, E. coli MoClo assembly & part library: Applications in traditional biological research, poster presented at the Systems and Synthetic Biology Summer School in Italy , July, 2015.
    [BibTeX] [Download PDF]
    @Misc{iverson_SSBSS15,
    Title = {E. coli MoClo assembly \& part library: Applications in traditional biological research},
    Author = {Iverson, Sonya and Beal, Jake and Haddock, Traci and Densmore, Douglas},
    HowPublished = {poster presented at the Systems and Synthetic Biology Summer School in Italy},
    Month = {July},
    Year = {2015},
    Owner = {Sonya Iverson},
    Timestamp = {2015.11.29},
    URL = {http://cidarlab.org/wp-content/uploads/2015/04/SSBSS15.pdf}
    }

  • T. Haddock, D. Densmore, E. Appleton, S. Carr, S. Iverson, and M. De Freitas, BBF RFC 94: Type IIS Assembly for Bacterial Transcriptional Units: A Standardized Assembly Method for Building Bacterial Transcriptional Units Using the Type IIS Restriction Enzymes BsaI and BbsI, BioBricks Foundation Request for Comments , August, 2015.
    [BibTeX] [Download PDF]
    @Misc{iverson_SSBSS15_RFC,
    Title = {BBF RFC 94: Type IIS Assembly for Bacterial Transcriptional Units: A Standardized Assembly Method for Building Bacterial Transcriptional Units Using the Type IIS Restriction Enzymes BsaI and BbsI},
    Author = {Haddock, Traci and Densmore, Douglas and Appleton, Evan and Carr, Swati and Iverson, Sonya and De Freitas, Monique},
    HowPublished = {BioBricks Foundation Request for Comments},
    Month = {August},
    Year = {2015},
    Owner = {Sonya Iverson},
    Timestamp = {2015.11.29},
    URL = {http://dspace.mit.edu/bitstream/handle/1721.1/98267/BBFRFC94.pdf?sequence=1}
    }

CIDAR Project Leads

Sonya Iverson
siverson@bu.edu

CIDAR Collaborators

Dr. Jacob Beal
Dr. Traci Haddock