|Cold Spring Harbor Laboratory||Trapper DB    |
| Welcome to the Arabidopsis Genetrap Website at Cold Spring Harbor Lab
This website describes a collection of transposon insertions and their flanking sequences from the Martienssen lab at Cold Spring Harbor Laboratory. Most of the lines carry a unique insertion of a genetrap (GT) or enhancer trap (ET) transposable Ds element somewhere in the Arabidopsis genome. These elements simultaneously disrupt gene function and monitor gene expression (Sundaresan et al., 1995; Martienssen, 1998).
Insertion sites were amplified by TAIL PCR (Liu et al., 1995; Tsukegi et al., 1996) and sequenced in the McCombie lab (CSHWU Sequencing Consortium, 2000). These sequence tags were validated and annotated according to the sequence of the Arabidopsis genome (see sequence annotation). Many of the lines have been stained and about 20% of these have reporter gene expression. Photographs of positive lines are included as links with each entry.
Searches can be performed by keyword or by sequence similarity (BLAST). Seed from individual lines are available on request and many have been deposited at the Nottingham Arabidopsis Stock Center and the Ohio Arabidopsis Biological Resource Center.
WARNING The sequence annotation is intended as a guide to additional database searching only. Multiple sequence reads are listed together on each entry page and may reflect multiple elements in some lines. However, while every effort has been made to remove tracking and other errors, the data is preliminary and is mostly unpublished. Many of the sequences have been deposited in Genbank.
Links to WWW Arabidopsis Genome
Joe Simorowski (firstname.lastname@example.org) for questions about the data.
Underwood, C. J., Choi, K., Lambing, C., Zhao, X., Serra, H., Borges, F., Simorowski, J., Ernst, E., Jacob, Y., Henderson, I.R. and Martienssen, R. A. (2018). Epigenetic activation of meiotic recombination near Arabidopsis thaliana centromeres via loss of H3K9me2 and non-CG DNA methylation. Genome research, 28(4), 519-531. [PubMed]
Arabidopsis Genome Initiative (2000) Analysis of the genome sequence of the flowering plant Arabidopsis thaliana. Nature 408, 796-815. [PubMed]
Cold Spring Harbor Laboratory, Washington University Genome Sequencing Center and ABI Arabidopsis Sequencing Consortium (2000) The complete sequence of a heterochromatic island from a higher eukaryote. Cell 100, 377-386. [PubMed]
Gu Q., Ferrandiz C. , Yanofsky M. and R. Martienssen (1998) FRUITFULL encodes a MADS-box gene and mediates cell differentiation during fruit development in Arabidopsis. Development 125, 1509-1517. [PubMed]
Liu Y.G., Mitsukawa N., Oosumi T. and Whittier R.F. (1995) Efficient isolation and mapping of Arabidopsis thaliana T-DNA insert junctions by thermal asymmetic interlaced PCR. Plant J. 8, 457-463. [PubMed]
Martienssen R. (1998) Functional genomics: probing plant gene function and expression with transposons. Proc. Natl. Acad. Sci. 95, 2021-2026. [PubMed]
Martienssen R. (2000) Weeding out the genes: The Arabidopis Genome Project. Functional and Integrative Genomics, 1: 2-20.i [PubMed]
Martienssen R. and McCombie W.R. (2001) The First Plant Genome. Cell 105(5) 571-574. [PubMed]
Springer, P. and Martienssen, R.A. (2000). Enhancer and Gene Trap Transposon Mutagenesis in Arabidopsis. [genetrap.cshl.edu]
Springer, P., McCombie, W.R., Sundaresan, V. and Martienssen, R.A. (1995). Gene trap tagging of PROLIFERA, an essential MCM2-3-5 like gene in Arabidopsis. Science 268, 877-880. [PubMed]
Sundaresan, V., Springer, P., Volpe, T., Haward, S., Jones, J.D.G., Dean, C., Ma, H. and R.A. Martienssen (1995). Patterns of gene action in plant development revealed by enhancer trap and gene trap transposable elements. Genes Dev. 9, 1797-1810. [PubMed]
Tsugeki R., Kochieva E.Z. and Fedoroff N. (1996) A transposon insertion in the Arabidopsis SSR16 gene causes an embryo-defective lethal mutation. Plant J. 10, 479-489. [PubMed]
Supported by Cold Spring Harbor Laboratory Plant Research Fund
First posted 23 June 2000, Last updated 11 February 2021