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Nicotiana benthamiana

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Bioinformatics Tools

N. benthamiana Experimental Protocols and Resources

Agroinfiltration – Agroinfiltration of Nicotiana benthamiana leaf

Agroinfiltration- 2

First papers to use agroinfiltration:
Article 1: Tang, X., R. Frederick, D. Halterman, J. Zhou and G. B. Martin (1996). Initiation of plant disease resistance by physical interaction of AvrPto with Pto kinase. Science 274: 2060–2063.

Article 2: Scofield, S. R., C. M. Tobias, J. P. Rathjen, J. H. Chang, D. T. Lavelle, R. W. Michelmore and B. J. Staskawicz (1996). Molecular basis of gene-for-gene specificity in bacterial speck disease of tomato. Science 274: 2063–2065.

Virus-induced gene silencing – 1
(requires JoVE subscription)

PTI assay
(requires JoVE subscription)

Cell-to-cell movement assay
A cell-to-cell macromolecular transport assay in planta utilizing biolistic bombardment.

Phytophthora capsici infects N. benthamiana

N. benthamiana Future Plans

Two Nicotiana benthamiana parents (outside; Nb-1 and Nb-DZ) were crossed to develop an F1 (middle) that was selfed to produce an F2 population for use in genotype-by-sequencing (GBS). Photo: Dave Zaitlin, U. of Kentucky.

Our current plan is to improve the assembly of the Nicotiana benthamiana genome sequence and link the sequence to the nineteen chromosomes. We are also working to improve the gene annotation.

Projects underway:

  1. Sequence an additional lane of a 5-kb mate-pair library at the Cornell-Weill facility.
  2. Use an F2 population (~96 individuals) developed by Dave Zaitlin (University of Kentucky) for a genotype-by-sequencing (GBS) approach using the Cornell Institute for Genomic Diversity facility.
  3. Sequence a 15-kb mate-pair library (University of Illinois-Urbana/Champagne Sequencing Facility).
  4. Create a new assembly of the genome sequence based on the data in the preceding text.
  5. Improve annotation using with RNA-seq data from various researchers.

Gregory Martin, BTI: Pattern- and Effector-triggered immunity transcriptome

Dave Zaitlin, University of Kentucky: leaves, roots, flowers, developing seed capsules

Peter Moffett, University of Sherbrooke: ribosome-IP-RNA-Seq (defense response)

Data from others is welcome—please contact us!

This project is supported by BTI Innovation Funds and by National Science Foundation grant IOS-1025642.

Project Participants

Nicotiana benthamiana News