메뉴 건너뛰기




Volumn 87, Issue 5, 2006, Pages 645-652

Analysis of T-DNA insertion site distribution patterns in Arabidopsis thaliana reveals special features of genes without insertions

Author keywords

Arabidopsis thaliana; Gene expression; Insertional mutagenesis; Integration; Restriction sites; T DNA

Indexed keywords

ALLELE; ARABIDOPSIS; ARTICLE; DATA ANALYSIS; DNA FLANKING REGION; DNA INTEGRATION; GENE EXPRESSION; GENE FREQUENCY; GENE INSERTION; GENETIC TRANSCRIPTION; KNOCKOUT GENE; MUTAGENESIS; PLANT GENETICS; POLYADENYLATION; PRIORITY JOURNAL; RESTRICTION SITE; TRANSCRIPTION INITIATION;

EID: 33646096225     PISSN: 08887543     EISSN: 10898646     Source Type: Journal    
DOI: 10.1016/j.ygeno.2005.12.010     Document Type: Article
Times cited : (37)

References (35)
  • 1
    • 0034649566 scopus 로고    scopus 로고
    • Analysis of the genome sequence of the flowering plant Arabidopsis thaliana
    • The Arabidopsis Genome Initiative
    • The Arabidopsis Genome Initiative. Analysis of the genome sequence of the flowering plant Arabidopsis thaliana. Nature 408 (2000) 796-815
    • (2000) Nature , vol.408 , pp. 796-815
  • 2
    • 0033391482 scopus 로고    scopus 로고
    • T-DNA as an insertional mutagen in Arabidopsis
    • Krysan P.J., Young J.C., and Sussman M.R. T-DNA as an insertional mutagen in Arabidopsis. Plant Cell 11 (1999) 2283-2290
    • (1999) Plant Cell , vol.11 , pp. 2283-2290
    • Krysan, P.J.1    Young, J.C.2    Sussman, M.R.3
  • 3
    • 0036081320 scopus 로고    scopus 로고
    • FLAGdb/FST: a database of mapped flanking insertion sites (FSTs) of Arabidopsis thaliana T-DNA transformants
    • Samson F., et al. FLAGdb/FST: a database of mapped flanking insertion sites (FSTs) of Arabidopsis thaliana T-DNA transformants. Nucleic Acids Res. 30 (2002) 94-97
    • (2002) Nucleic Acids Res. , vol.30 , pp. 94-97
    • Samson, F.1
  • 4
    • 0036910328 scopus 로고    scopus 로고
    • A high-throughput Arabidopsis reverse genetics system
    • Sessions A., et al. A high-throughput Arabidopsis reverse genetics system. Plant Cell 14 (2002) 2985-2994
    • (2002) Plant Cell , vol.14 , pp. 2985-2994
    • Sessions, A.1
  • 5
    • 0042768158 scopus 로고    scopus 로고
    • Genome-wide insertional mutagenesis of Arabidopsis thaliana
    • Alonso J.M., et al. Genome-wide insertional mutagenesis of Arabidopsis thaliana. Science 301 (2003) 653-657
    • (2003) Science , vol.301 , pp. 653-657
    • Alonso, J.M.1
  • 6
    • 0042594466 scopus 로고    scopus 로고
    • GABI-Kat SimpleSearch: a flanking sequence tag (FST) database for the identification of T-DNA insertion mutants in Arabidopsis thaliana
    • Li Y., Rosso M.G., Strizhov N., Viehoever P., and Weisshaar B. GABI-Kat SimpleSearch: a flanking sequence tag (FST) database for the identification of T-DNA insertion mutants in Arabidopsis thaliana. Bioinformatics 19 (2003) 1441-1442
    • (2003) Bioinformatics , vol.19 , pp. 1441-1442
    • Li, Y.1    Rosso, M.G.2    Strizhov, N.3    Viehoever, P.4    Weisshaar, B.5
  • 7
    • 0037321897 scopus 로고    scopus 로고
    • A sequence-based map of Arabidopsis genes with mutant phenotypes
    • Meinke D.W., et al. A sequence-based map of Arabidopsis genes with mutant phenotypes. Plant Physiol. 131 (2003) 409-418
    • (2003) Plant Physiol. , vol.131 , pp. 409-418
    • Meinke, D.W.1
  • 8
    • 0030157430 scopus 로고    scopus 로고
    • The integration of T-DNA into plant genomes
    • Tinland B. The integration of T-DNA into plant genomes. Trends Plant Sci. 1 (1996) 178-184
    • (1996) Trends Plant Sci. , vol.1 , pp. 178-184
    • Tinland, B.1
  • 9
    • 3242669954 scopus 로고    scopus 로고
    • Agrobacterium T-DNA integration: molecules and models
    • Tzfira T., Li J., Lacroix B., and Citovsky V. Agrobacterium T-DNA integration: molecules and models. Trends Genet. 20 (2004) 375-383
    • (2004) Trends Genet. , vol.20 , pp. 375-383
    • Tzfira, T.1    Li, J.2    Lacroix, B.3    Citovsky, V.4
  • 10
    • 0036407705 scopus 로고    scopus 로고
    • Characterization of T-DNA insertion sites in Arabidopsis thaliana and the implications for saturation mutagenesis
    • Krysan P.J., et al. Characterization of T-DNA insertion sites in Arabidopsis thaliana and the implications for saturation mutagenesis. OMICS 6 (2002) 163-174
    • (2002) OMICS , vol.6 , pp. 163-174
    • Krysan, P.J.1
  • 11
    • 1642465435 scopus 로고    scopus 로고
    • An Arabidopsis thaliana T-DNA mutagenized population (GABI-Kat) for flanking sequence tag-based reverse genetics
    • Rosso M.G., et al. An Arabidopsis thaliana T-DNA mutagenized population (GABI-Kat) for flanking sequence tag-based reverse genetics. Plant Mol. Biol. 53 (2003) 247-259
    • (2003) Plant Mol. Biol. , vol.53 , pp. 247-259
    • Rosso, M.G.1
  • 12
    • 18744400826 scopus 로고    scopus 로고
    • Site preferences of insertional mutagenesis agents in Arabidopsis
    • Pan X., Li Y., and Stein L. Site preferences of insertional mutagenesis agents in Arabidopsis. Plant Physiol. 137 (2005) 168-175
    • (2005) Plant Physiol. , vol.137 , pp. 168-175
    • Pan, X.1    Li, Y.2    Stein, L.3
  • 13
    • 18644373325 scopus 로고    scopus 로고
    • Distribution of 1000 sequenced T-DNA tags in the Arabidopsis genome
    • Szabados L., et al. Distribution of 1000 sequenced T-DNA tags in the Arabidopsis genome. Plant J. 32 (2002) 233-242
    • (2002) Plant J. , vol.32 , pp. 233-242
    • Szabados, L.1
  • 14
    • 0036958494 scopus 로고    scopus 로고
    • T-DNA integration into the Arabidopsis genome depends on sequences of pre-insertion sites
    • Brunaud V., et al. T-DNA integration into the Arabidopsis genome depends on sequences of pre-insertion sites. EMBO Rep. 3 (2002) 1152-1157
    • (2002) EMBO Rep. , vol.3 , pp. 1152-1157
    • Brunaud, V.1
  • 16
    • 0027353117 scopus 로고
    • Tagging genomic sequences that direct transgene expression by activation of a promoter trap in plants
    • Lindsey K., et al. Tagging genomic sequences that direct transgene expression by activation of a promoter trap in plants. Transgenic Res. 2 (1993) 33-47
    • (1993) Transgenic Res. , vol.2 , pp. 33-47
    • Lindsey, K.1
  • 17
    • 9144236348 scopus 로고    scopus 로고
    • Generation and analysis of end sequence database for T-DNA tagging lines in rice
    • An S., et al. Generation and analysis of end sequence database for T-DNA tagging lines in rice. Plant Physiol. 133 (2003) 2040-2047
    • (2003) Plant Physiol. , vol.133 , pp. 2040-2047
    • An, S.1
  • 18
    • 0038797803 scopus 로고    scopus 로고
    • Annotation of the Arabidopsis genome
    • Wortman J.R., et al. Annotation of the Arabidopsis genome. Plant Physiol. 132 (2003) 461-468
    • (2003) Plant Physiol. , vol.132 , pp. 461-468
    • Wortman, J.R.1
  • 19
    • 12344269924 scopus 로고    scopus 로고
    • GO{proportion}TermFinder-open source software for accessing Gene Ontology information and finding significantly enriched Gene Ontology terms associated with a list of genes
    • Boyle E.I., et al. GO{proportion}TermFinder-open source software for accessing Gene Ontology information and finding significantly enriched Gene Ontology terms associated with a list of genes. Bioinformatics 20 (2004) 3710-3715
    • (2004) Bioinformatics , vol.20 , pp. 3710-3715
    • Boyle, E.I.1
  • 20
    • 0035095013 scopus 로고    scopus 로고
    • Improved PCR-walking for large-scale isolation of plant T-DNA borders
    • Balzergue S., et al. Improved PCR-walking for large-scale isolation of plant T-DNA borders. Biotechniques 30 (2001) 496-504
    • (2001) Biotechniques , vol.30 , pp. 496-504
    • Balzergue, S.1
  • 21
    • 0344737835 scopus 로고    scopus 로고
    • High-throughput generation of sequence indexes from T-DNA mutagenized Arabidopsis thaliana lines
    • Strizhov N., et al. High-throughput generation of sequence indexes from T-DNA mutagenized Arabidopsis thaliana lines. Biotechniques 35 (2003) 1164-1168
    • (2003) Biotechniques , vol.35 , pp. 1164-1168
    • Strizhov, N.1
  • 22
    • 0042691720 scopus 로고    scopus 로고
    • The VirD2 pilot protein of Agrobacterium-transferred DNA interacts with the TATA box-binding protein and a nuclear protein kinase in plants
    • Bako L., Umeda M., Tiburcio A.F., Schell J., and Koncz C. The VirD2 pilot protein of Agrobacterium-transferred DNA interacts with the TATA box-binding protein and a nuclear protein kinase in plants. Proc. Natl. Acad. Sci. USA 100 (2003) 10108-10113
    • (2003) Proc. Natl. Acad. Sci. USA , vol.100 , pp. 10108-10113
    • Bako, L.1    Umeda, M.2    Tiburcio, A.F.3    Schell, J.4    Koncz, C.5
  • 23
    • 0037841763 scopus 로고    scopus 로고
    • Transcription start regions in the human genome are favored targets for MLV integration
    • Wu X., Li Y., Crise B., and Burgess S.M. Transcription start regions in the human genome are favored targets for MLV integration. Science 300 (2003) 1749-1751
    • (2003) Science , vol.300 , pp. 1749-1751
    • Wu, X.1    Li, Y.2    Crise, B.3    Burgess, S.M.4
  • 24
    • 0033894959 scopus 로고    scopus 로고
    • The maternal chromosome set is the target of the T-DNA in the in planta transformation of Arabidopsis thaliana
    • Bechtold N., et al. The maternal chromosome set is the target of the T-DNA in the in planta transformation of Arabidopsis thaliana. Genetics 155 (2000) 1875-1887
    • (2000) Genetics , vol.155 , pp. 1875-1887
    • Bechtold, N.1
  • 25
    • 0033941146 scopus 로고    scopus 로고
    • Female reproduction tissues are the primary target of Agrobacterium-mediated transformation by the Arabidopsis floral-dip method
    • Desfeux C., Clough S.J., and Bent A.F. Female reproduction tissues are the primary target of Agrobacterium-mediated transformation by the Arabidopsis floral-dip method. Plant Physiol. 123 (2000) 895-904
    • (2000) Plant Physiol. , vol.123 , pp. 895-904
    • Desfeux, C.1    Clough, S.J.2    Bent, A.F.3
  • 26
    • 0042861770 scopus 로고    scopus 로고
    • The endosperm and the embryo of Arabidopsis thaliana are independently transformed through infiltration by Agrobacterium tumefaciens
    • Bechtold N., Jolivet S., Voison R., and Pelletier G. The endosperm and the embryo of Arabidopsis thaliana are independently transformed through infiltration by Agrobacterium tumefaciens. Transgenic Res. 12 (2003) 509-517
    • (2003) Transgenic Res. , vol.12 , pp. 509-517
    • Bechtold, N.1    Jolivet, S.2    Voison, R.3    Pelletier, G.4
  • 27
    • 14044250209 scopus 로고    scopus 로고
    • Genetic and molecular identification of genes required for female gametophyte development and function in Arabidopsis
    • Pagnussat G.C., et al. Genetic and molecular identification of genes required for female gametophyte development and function in Arabidopsis. Development 132 (2005) 603-614
    • (2005) Development , vol.132 , pp. 603-614
    • Pagnussat, G.C.1
  • 28
    • 13844272946 scopus 로고    scopus 로고
    • Identification of Arabidopsis thaliana transformants without selection reveals a high occurrence of silenced T-DNA integrations
    • Francis K.E., and Spiker S. Identification of Arabidopsis thaliana transformants without selection reveals a high occurrence of silenced T-DNA integrations. Plant J. 41 (2005) 464-477
    • (2005) Plant J. , vol.41 , pp. 464-477
    • Francis, K.E.1    Spiker, S.2
  • 30
    • 18644371838 scopus 로고    scopus 로고
    • Rapid identification of Arabidopsis insertion mutants by non-radioactive detection of T-DNA tagged genes
    • Rios G., et al. Rapid identification of Arabidopsis insertion mutants by non-radioactive detection of T-DNA tagged genes. Plant J. 32 (2002) 243-253
    • (2002) Plant J. , vol.32 , pp. 243-253
    • Rios, G.1
  • 31
    • 0030801002 scopus 로고    scopus 로고
    • Gapped BLAST and PSI-BLAST: a new generation of protein database search programs
    • Altschul S.F., et al. Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res. 25 (1997) 3389-3402
    • (1997) Nucleic Acids Res. , vol.25 , pp. 3389-3402
    • Altschul, S.F.1
  • 32
    • 17444417122 scopus 로고    scopus 로고
    • Generalized Venn diagrams: a new method of visualizing complex genetic set relations
    • Kestler H.A., Muller A., Gress T.M., and Buchholz M. Generalized Venn diagrams: a new method of visualizing complex genetic set relations. Bioinformatics 21 (2005) 1592-1595
    • (2005) Bioinformatics , vol.21 , pp. 1592-1595
    • Kestler, H.A.1    Muller, A.2    Gress, T.M.3    Buchholz, M.4
  • 33
    • 0037249498 scopus 로고    scopus 로고
    • The Arabidopsis Information Resource (TAIR): a model organism database providing a centralized, curated gateway to Arabidopsis biology, research materials and community
    • Rhee S.Y., et al. The Arabidopsis Information Resource (TAIR): a model organism database providing a centralized, curated gateway to Arabidopsis biology, research materials and community. Nucleic Acids Res. 31 (2003) 224-228
    • (2003) Nucleic Acids Res. , vol.31 , pp. 224-228
    • Rhee, S.Y.1
  • 34
    • 16244362244 scopus 로고    scopus 로고
    • A gene expression map of Arabidopsis thaliana development
    • Schmid M., et al. A gene expression map of Arabidopsis thaliana development. Nat. Genet. 37 (2005) 501-506
    • (2005) Nat. Genet. , vol.37 , pp. 501-506
    • Schmid, M.1
  • 35
    • 0033551151 scopus 로고    scopus 로고
    • Expression pattern and, surprisingly, gene length shape codon usage in Caenorhabditis, Drosophila, and Arabidopsis
    • Duret L., and Mouchiroud D. Expression pattern and, surprisingly, gene length shape codon usage in Caenorhabditis, Drosophila, and Arabidopsis. Proc. Natl. Acad. Sci. USA 96 (1999) 4482-4487
    • (1999) Proc. Natl. Acad. Sci. USA , vol.96 , pp. 4482-4487
    • Duret, L.1    Mouchiroud, D.2


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.