TAL Effector-Nucleotide Targeter (TALE-NT) 2.0: tools for TAL effector design and target prediction

dc.contributor.author Booher, Nicholas
dc.contributor.author Doyle, Erin
dc.contributor.author Booher, Nicholas
dc.contributor.author Standage, Daniel
dc.contributor.author Voytas, Daniel
dc.contributor.author VanDyk, John
dc.contributor.author Brendel, Volker
dc.contributor.author VanDyk, John
dc.contributor.author Bogdanove, Adam
dc.contributor.department Plant Pathology and Microbiology
dc.contributor.department Entomology
dc.contributor.department Genetics, Development and Cell Biology
dc.contributor.department Bioinformatics and Computational Biology
dc.date 2018-02-14T02:02:16.000
dc.date.accessioned 2020-06-30T02:23:10Z
dc.date.available 2020-06-30T02:23:10Z
dc.date.copyright Sun Jan 01 00:00:00 UTC 2012
dc.date.embargo 2014-07-01
dc.date.issued 2012-01-01
dc.description.abstract <p>Transcription activator-like (TAL) effectors are repeat-containing proteins used by plant pathogenic bacteria to manipulate host gene expression. Repeats are polymorphic and individually specify single nucleotides in the DNA target, with some degeneracy. A TAL effector-nucleotide binding code that links repeat type to specified nucleotide enables prediction of genomic binding sites for TAL effectors and customization of TAL effectors for use in DNA targeting, in particular as custom transcription factors for engineered gene regulation and as site-specific nucleases for genome editing. We have developed a suite of web-based tools called TAL Effector-Nucleotide Targeter 2.0 (TALE-NT 2.0;<a href="https://boglab.plp.iastate.edu/">https://boglab.plp.iastate.edu/</a>) that enables design of custom TAL effector repeat arrays for desired targets and prediction of TAL effector binding sites, ranked by likelihood, in a genome, promoterome or other sequence of interest. Search parameters can be set by the user to work with any TAL effector or TAL effector nuclease architecture. Applications range from designing highly specific DNA targeting tools and identifying potential off-target sites to predicting effector targets important in plant disease.</p>
dc.description.comments <p>This article is from <em>Nucleic Acids Research</em> 40 (2012): W117–W122, doi:<a href="http://dx.doi.org/10.1093/nar/gks608" target="_blank">10.1093/nar/gks608</a>.</p>
dc.format.mimetype application/pdf
dc.identifier archive/lib.dr.iastate.edu/ent_pubs/30/
dc.identifier.articleid 1031
dc.identifier.contextkey 5744056
dc.identifier.s3bucket isulib-bepress-aws-west
dc.identifier.submissionpath ent_pubs/30
dc.identifier.uri https://dr.lib.iastate.edu/handle/20.500.12876/23910
dc.language.iso en
dc.source.bitstream archive/lib.dr.iastate.edu/ent_pubs/30/2012_DoyleEL_TALEffectorNucleotideTargeter.pdf|||Fri Jan 14 23:26:52 UTC 2022
dc.source.uri 10.1093/nar/gks608
dc.subject.disciplines Bacteriology
dc.subject.disciplines Bioinformatics
dc.subject.disciplines Computational Biology
dc.subject.disciplines Entomology
dc.subject.disciplines Genetics
dc.subject.disciplines Plant Pathology
dc.subject.keywords Plant Pathology and Microbiology
dc.subject.keywords Genetics Development and Cell Biology
dc.title TAL Effector-Nucleotide Targeter (TALE-NT) 2.0: tools for TAL effector design and target prediction
dc.type article
dc.type.genre article
dspace.entity.type Publication
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