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Transformation and T-DNA Mutagenesis

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Genetics and Genomics of Brachypodium

Part of the book series: Plant Genetics and Genomics: Crops and Models ((PGG,volume 18))

Abstract

An efficient method to stably insert DNA into a genome is absolutely essential for a modern model system. In general, grasses are notoriously difficult to transform. Fortunately, Brachypodium distachyon has proven to be highly amenable to tissue culture and transformation. Indeed, current transformation methods make B. distachyon one of the easiest and most efficiently transformed grasses. This amenability to transformation is one of the key features that led to the widespread adoption of B. distachyon as a model for the grasses. In addition to being used for a host of functional experiments aimed at specific genes, high-efficiency transformation has enabled the creation of a large collection of sequence indexed insertional mutants. This T-DNA collection is a valuable experimental resource that has been utilized by hundreds of researchers around the world.

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References

  • Bablak P, Draper J, Davey MR, Lynch PT. Plant regeneration and micropropagation of Brachypodium distachyon. Plant Cell Tiss Org Cult. 1995;42(1):97–107.

    Article  Google Scholar 

  • Bragg NB, Anderton A, Nieu R, Vogel JP. Brachypodium distachyon. Agrobacterium protocols: volume 1. In: Wang K, editor. Methods in molecular biology, vol. 1223. New York: Springer; 2015. p. 17–33.

    Google Scholar 

  • Barrangou R, Fremaux C, Deveau H, Richards M, Boyaval P, Moineau S, et al. CRISPR provides acquired resistance against viruses in prokaryotes. Science. 2007;315(5819):1709–12.

    Article  CAS  PubMed  Google Scholar 

  • Belhaj K, Chaparro-Garcia A, Kamoun S, Nekrasov V. Plant genome editing made easy: targeted mutagenesis in model and crop plants using the CRISPR/Cas system. Plant Methods. 2013;9(1):39.

    Article  PubMed Central  PubMed  Google Scholar 

  • Bragg JN, Anderton A, Nieu R, Vogel JP. Brachypodium distachyon. Methods Mol Biol. 2015;1223:17–33.

    Article  PubMed  Google Scholar 

  • Bragg JN, Wu J, Gordon SP, Guttman ME, Thilmony R, Lazo GR, et al. Generation and characterization of the Western Regional Research Center Brachypodium T-DNA insertional mutant collection. PLoS One. 2012;7(9):e41916.

    Article  PubMed Central  CAS  PubMed  Google Scholar 

  • Catalán P, Müller J, Hasterok R, Jenkins G, Mur LAJ, Langdon T, et al. Evolution and taxonomic split of the model grass Brachypodium distachyon. Ann Bot. 2012;109(2):385–405.

    Article  PubMed Central  PubMed  Google Scholar 

  • Christiansen P, Didion T, Andersen CH, Folling M, Nielsen KK. A rapid and efficient transformation protocol for the grass Brachypodium distachyon. Plant Cell Rep. 2005;23(10–11):751–8.

    Article  CAS  PubMed  Google Scholar 

  • Draper J, Mur LAJ, Jenkins G, Ghosh-Biswas GC, Bablak P, Hasterok R, et al. Brachypodium distachyon. A new model system for functional genomics in grasses. Plant Physiol. 2001;127(4):1539–55.

    Article  PubMed Central  CAS  PubMed  Google Scholar 

  • Gordon SP, Priest H, Des Marais DL, Schackwitz W, Figueroa M, Martin J, et al. Genome diversity in Brachypodium distachyon: deep sequencing of highly diverse inbred lines. Plant J. 2014;79(3):361–74.

    Article  CAS  PubMed  Google Scholar 

  • IBI. Genome sequencing and analysis of the model grass Brachypodium distachyon. Nature. 2010;463:763–8.

    Article  Google Scholar 

  • Ishino Y, Shinagawa H, Makino K, Amemura M, Nakatura A. Nucleotide sequence of the iap gene, responsible for alkaline phosphatase isoenzyme conversion in Escherichia coli, and identification of the gene product. J Bacteriol. 1987;169(12):5429–33.

    PubMed Central  CAS  PubMed  Google Scholar 

  • Jiang W, Zhou H, Bi H, Fromm M, Yang B, Weeks DP. Demonstration of CRISPR/Cas9/sgRNA-mediated targeted gene modification in Arabidopsis, tobacco, sorghum and rice. Nucleic Acids Res. 2013;41(20):e188.

    Article  PubMed Central  CAS  PubMed  Google Scholar 

  • Jinek M, Chylinski K, Fonfara I, Hauer M, Doudna JA, Charpentier E. A programmable dual-RNA-guided DNA endonuclease in adaptive bacterial immunity. Science. 2012;337(6096):816–21.

    Article  CAS  PubMed  Google Scholar 

  • Li JF, Norville JE, Aach J, McCormack M, Zhang D, Bush J, et al. Multiplex and homologous recombination-mediated genome editing in Arabidopsis and Nicotiana benthamiana using guide RNA and Cas9. Nat Biotechnol. 2013;31(8):688–91.

    Article  PubMed Central  CAS  PubMed  Google Scholar 

  • Lozano-Juste J, Cutler SR. Plant genome engineering in full bloom. Trends Plant Sci. 2014;19(5):284–7.

    Article  CAS  PubMed  Google Scholar 

  • Nekrasov V, Staskawicz B, Weigel D, Jones JDG, Kamoun S. Targeted mutagenesis in the model plant Nicotiana benthamiana using Cas9 RNA-guided endonuclease. Nat Biotechnol. 2013;31(8):691–3.

    Article  CAS  PubMed  Google Scholar 

  • PÇŽcurar DI, Thordal-Christensen H, Nielsen KK, Lenk I. A high-throughput Agrobacterium-mediated transformation system for the grass model species Brachypodium distachyon L. Transgenic Res. 2008;17(5):965–75.

    Article  PubMed  Google Scholar 

  • Shan Q, Wang Y, Li J, Zhang Y, Chen K, Liang Z, et al. Targeted genome modification of crop plants using a CRISPR-Cas system. Nat Biotechnol. 2013;31(8):686–8.

    Article  CAS  PubMed  Google Scholar 

  • Svitashev SK, Somers DA. Characterization of transgene loci in plants using FISH: a picture is worth a thousand words. Plant Cell Tiss Org Cult. 2002;69(3):205–14.

    Article  CAS  Google Scholar 

  • Thole V, Worland B, Wright J, Bevan MW, Vain P. Distribution and characterization of more than 1000T-DNA tags in the genome of Brachypodium distachyon community standard line Bd21. Plant Biotechnol J. 2010;8(6):734–47.

    Article  CAS  PubMed  Google Scholar 

  • Upadhyay SK, Kumar J, Alok A, Tuli R. RNA-guided genome editing for target gene mutations in wheat. G3 (Bethesda). 2013;3(12):2233–8.

    Article  CAS  Google Scholar 

  • Vain P, Worland B, Thole V, McKenzie N, Alves SC, Opanowicz M, et al. Agrobacterium-mediated transformation of the temperate grass Brachypodium distachyon (genotype Bd21) for T-DNA insertional mutagenesis. Plant Biotechnol J. 2008;6:236–45.

    Article  CAS  PubMed  Google Scholar 

  • Vogel J, Hill T. High-efficiency Agrobacterium-mediated transformation of Brachypodium distachyon inbred line Bd21-3. Plant Cell Rep. 2008;27(3):471–8.

    Article  CAS  PubMed  Google Scholar 

  • Vogel JP, Garvin DF, Leong OM, Hayden DM. Agrobacterium-mediated transformation and inbred line development in the model grass Brachypodium distachyon. Plant Cell Tiss Org Cult. 2006;85:199–211.

    Article  Google Scholar 

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Acknowledgement

The T-DNA project was supported by Office of Biological and Environmental Research, Office of Science, US Department of Energy, interagency agreements DE-SC0001526 and DE-AI02-07ER64452. JV is supported by the U.S. Department of Energy Joint Genome Institute, a DOE Office of Science User Facility, that is supported under Contract No. DE-AC02-05CH11231.

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Authors and Affiliations

  1. USDA ARS Western Regional Research Center, Albany, CA, USA

    Mon Mandy Hsia

  2. DOE Joint Genome Institute, Walnut Creek, CA, USA

    John P. Vogel

Authors
  1. Mon Mandy Hsia
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  2. John P. Vogel
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Correspondence to John P. Vogel .

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Editors and Affiliations

  1. DOE Joint Genome Institute, Walnut Creek, California, USA

    John P. Vogel

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Hsia, M.M., Vogel, J.P. (2015). Transformation and T-DNA Mutagenesis. In: Vogel, J. (eds) Genetics and Genomics of Brachypodium. Plant Genetics and Genomics: Crops and Models, vol 18. Springer, Cham. https://doi.org/10.1007/7397_2015_16

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