Home LiteratureArticle Details
PMID: 6327292 Published · ppublish English Journal Article Research Support, Non-U.S. Gov't

The complete nucleotide sequence of the TL-DNA of the Agrobacterium tumefaciens plasmid pTiAch5.

The EMBO journal ·Vol. 3 ·No. 4 ·1984-04-00 ·Pages 835-46

Gielen J, De Beuckeleer M, Seurinck J, Deboeck F, De Greve H, Lemmers M, Van Montagu M, Schell J

Abstract

We have determined the complete primary structure (13 637 bp) of the TL-region of Agrobacterium tumefaciens octopine plasmid pTiAch5 . This sequence comprises two small direct repeats which flank the TL-region at each extremity and are involved in the transfer and/or integration of this DNA segment in plants. TL-DNA specifies eight open-reading frames corresponding to experimentally identified transcripts in crown gall tumor tissue. The eight coding regions are not interrupted by intervening sequences and are separated from each other by AT-rich regions. Potential transcriptional control signals upstream of the 5' and 3' ends of all the transcribed regions resemble typical eukaryotic signals: (i) transcriptional initiation signals ('TATA' or Goldberg- Hogness box) are present upstream to the presumed translational start codons; (ii) ' CCAAT ' sequences are present upstream of the proposed 'TATA' box; (iii) polyadenylation signals are present in the 3'-untranslated regions. Furthermore, no Shine-Dalgarno sequences are present upstream of the presumed translational start codons.

MeSH Terms
Amino Acid Oxidoreductases/genetics Base Sequence DNA Restriction Enzymes DNA, Bacterial Deoxyribonuclease BamHI Deoxyribonuclease HindIII Plasmids Poly A/metabolism Protein Biosynthesis Rhizobium/genetics Transcription, Genetic
Chemicals
DNA, Bacterial T-DNA Poly A Amino Acid Oxidoreductases D-octopine dehydrogenase DNA Restriction Enzymes Deoxyribonuclease BamHI Deoxyribonuclease HindIII
Authors & Affiliations
8 authors, click to expand affiliations / ORCID
Gielen J
De Beuckeleer M
Seurinck J
Deboeck F
De Greve H
Lemmers M
Van Montagu M
Schell J
References (56)
56 references, click to expand
  1. Size, location and polarity of T-DNA-encoded transcripts in nopaline crown gall tumors; common transcripts in octopine and nopaline tumors.
    Cell. 1983 Apr;32(4):1045-56 PMID: 6301679
  2. Method to determine the reading frame of a protein from the purine/pyrimidine genome sequence and its possible evolutionary justification.
    Proc Natl Acad Sci U S A. 1981 Mar;78(3):1596-600 PMID: 6940175
  3. Complete nucleotide sequence of a soybean actin gene.
    Proc Natl Acad Sci U S A. 1982 Feb;79(4):1022-6 PMID: 16593157
  4. Size heterogeneity in the 3' end of dihydrofolate reductase messenger RNAs in mouse cells.
    Cell. 1980 Nov;22(2 Pt 2):361-70 PMID: 7448865
  5. Nucleotide sequence and transcript map of the Agrobacterium tumefaciens Ti plasmid-encoded octopine synthase gene.
    J Mol Appl Genet. 1982;1(6):499-511 PMID: 7153687
  6. The ovalbumin gene-sequence of putative control regions.
    Nucleic Acids Res. 1980 Jan 11;8(1):127-42 PMID: 6243777
  7. Molecular cloning of overlapping segments of the nopaline Ti-plasmid pTiC58 as a means to restriction endonuclease mapping.
    Plasmid. 1980 Mar;3(2):193-211 PMID: 6100893
  8. Detection of 5-methylcytosine in DNA sequences.
    Nucleic Acids Res. 1978 May;5(5):1479-85 PMID: 351561
  9. DNA from the A6S/2 crown gall tumor contains scrambled Ti-plasmid sequences near its junctions with plant DNA.
    Cell. 1982 Jul;29(3):1005-14 PMID: 7151163
  10. The conserved part of the T-region in Ti-plasmids expresses four proteins in bacteria.
    EMBO J. 1983;2(3):403-9 PMID: 11894956
  11. Inhibition of RNA cleavage but not polyadenylation by a point mutation in mRNA 3' consensus sequence AAUAAA.
    Nature. 1983 Oct 13-19;305(5935):600-5 PMID: 6194440
  12. Possible role of flanking nucleotides in recognition of the AUG initiator codon by eukaryotic ribosomes.
    Nucleic Acids Res. 1981 Oct 24;9(20):5233-52 PMID: 7301588
  13. Multiple transcripts of T-DNA detected in nopaline crown gall tumors.
    J Mol Appl Genet. 1982;1(6):539-46 PMID: 7153688
  14. Pattern recognition in genetic sequences.
    Proc Natl Acad Sci U S A. 1979 Jul;76(7):3041 PMID: 16592667
  15. Introduction of genetic material into plant cells.
    Science. 1983 Nov 18;222(4625):815-21 PMID: 17738341
  16. Expression of plant tumor-specific proteins in minicells of Escherichia coli: a fusion protein of lysopine dehydrogenase with chloramphenicol acetyltransferase.
    Nucleic Acids Res. 1981 Oct 24;9(20):5187-202 PMID: 6117827
  17. Integration and organization of Ti plasmid sequences in crown gall tumors.
    Cell. 1980 Mar;19(3):729-39 PMID: 7363328
  18. The sequence 5'-AAUAAA-3'forms parts of the recognition site for polyadenylation of late SV40 mRNAs.
    Cell. 1981 Apr;24(1):251-60 PMID: 6113054
  19. A simple method to recover intact high molecular weight RNA and DNA after electrophoretic separation in low gelling temperature agarose gels.
    Anal Biochem. 1979 Oct 1;98(2):305-9 PMID: 386835
  20. Plasmids specifying plant hyperplasias.
    Annu Rev Microbiol. 1981;35:531-65 PMID: 7027906
  21. Cloning and sequence analysis reveal structural variation among related zein genes in maize.
    Cell. 1982 Jul;29(3):1015-26 PMID: 7151164
  22. The location of the genes for host-controlled modification and restriction in Escherichia coli K-12.
    Genetics. 1965 Nov;52(5):1043-50 PMID: 5327803
  23. The use of thin acrylamide gels for DNA sequencing.
    FEBS Lett. 1978 Mar 1;87(1):107-10 PMID: 631324
  24. The TL-DNA in octopine crown-gall tumours codes for seven well-defined polyadenylated transcripts.
    EMBO J. 1982;1(1):139-46 PMID: 16453403
  25. A possible novel interaction between the 3'-end of 18 S ribosomal RNA and the 5'-leader sequence of many eukaryotic messenger RNAs.
    FEBS Lett. 1982 Oct 18;147(2):133-6 PMID: 7173385
  26. Nopaline synthase: transcript mapping and DNA sequence.
    J Mol Appl Genet. 1982;1(6):561-73 PMID: 7153689
  27. Formal description of a DNA oriented computer language.
    Nucleic Acids Res. 1982 Jan 11;10(1):69-84 PMID: 7063408
  28. Physical mapping of DNA base sequence homologies between an octopine and a nopaline Ti plasmid of Agrobacterium tumefaciens.
    J Mol Biol. 1981 Oct 25;152(2):183-208 PMID: 6276566
  29. A catalogue of splice junction sequences.
    Nucleic Acids Res. 1982 Jan 22;10(2):459-72 PMID: 7063411
  30. Stable incorporation of plasmid DNA into higher plant cells: the molecular basis of crown gall tumorigenesis.
    Cell. 1977 Jun;11(2):263-71 PMID: 890735
  31. The pathway of eukaryotic mRNA formation.
    Annu Rev Biochem. 1983;52:441-66 PMID: 6193753
  32. Eukaryotic promoters?
    Nature. 1979 May 31;279(5712):376 PMID: 16068156
  33. T-DNA organization in homogeneous and heterogeneous octopine-type crown gall tissues of Nicotiana tabacum.
    Cell. 1982 Sep;30(2):589-97 PMID: 6291777
  34. The opine synthase genes carried by Ti plasmids contain all signals necessary for expression in plants.
    EMBO J. 1983;2(9):1597-603 PMID: 11892818
  35. The primary structure of a plant storage protein: zein.
    Nucleic Acids Res. 1981 Oct 10;9(19):5163-74 PMID: 6895552
  36. Characterization of translational initiation sites in E. coli.
    Nucleic Acids Res. 1982 May 11;10(9):2971-96 PMID: 7048258
  37. The 3'-terminal sequence of Escherichia coli 16S ribosomal RNA: complementarity to nonsense triplets and ribosome binding sites.
    Proc Natl Acad Sci U S A. 1974 Apr;71(4):1342-6 PMID: 4598299
  38. Restriction endonuclease mapping of the octopine tumor-inducing plasmid pTiAch5 of Agrobacterium tumefaciens.
    Plasmid. 1981 Sep;6(2):249-53 PMID: 6272339
  39. Genetic analysis of T-DNA transcripts in nopaline crown galls.
    Cell. 1983 Apr;32(4):1057-67 PMID: 6839358
  40. Genetic Identification of functions of TL-DNA transcripts in octopine crown galls.
    EMBO J. 1982;1(1):147-52 PMID: 16453404
  41. The primary structures of two leghemoglobin genes from soybean.
    Nucleic Acids Res. 1982 Jan 22;10(2):689-701 PMID: 6278428
  42. A general method applicable to the search for similarities in the amino acid sequence of two proteins.
    J Mol Biol. 1970 Mar;48(3):443-53 PMID: 5420325
  43. Transcriptional control signals of a eukaryotic protein-coding gene.
    Science. 1982 Jul 23;217(4557):316-24 PMID: 6283634
  44. Transcription of T-DNA in octopine and nopaline crown gall tumours is inhibited by low concentrations of alpha-amanitin.
    Nucleic Acids Res. 1981 Oct 10;9(19):4801-12 PMID: 6171771
  45. Further insight on the transferred-DNA of octopine crown gall.
    Mol Gen Genet. 1981;183(2):283-8 PMID: 6276681
  46. Structure and flanking regions of soybean seed protein genes.
    Cell. 1982 Jun;29(2):651-60 PMID: 6288266
  47. Short direct repeats flank the T-DNA on a nopaline Ti plasmid.
    Proc Natl Acad Sci U S A. 1982 Oct;79(20):6322-6 PMID: 16593241
  48. Two mRNAs can be produced from a single immunoglobulin mu gene by alternative RNA processing pathways.
    Cell. 1980 Jun;20(2):313-9 PMID: 6771020
  49. Identification of sequences involved in the polyadenylation of higher plant nuclear transcripts using Agrobacterium T-DNA genes as models.
    EMBO J. 1983;2(3):419-26 PMID: 11894958
  50. Tumor induction by Agrobacterium tumefaciens: analysis of the boundaries of T-DNA.
    J Mol Appl Genet. 1982;1(4):361-70 PMID: 7108407
  51. Sequencing end-labeled DNA with base-specific chemical cleavages.
    Methods Enzymol. 1980;65(1):499-560 PMID: 6246368
  52. Nucleotide sequence of the Agrobacterium tumefaciens octopine Ti plasmid-encoded tmr gene.
    Nucleic Acids Res. 1983 Sep 24;11(18):6211-23 PMID: 6312414
  53. 3' non-coding region sequences in eukaryotic messenger RNA.
    Nature. 1976 Sep 16;263(5574):211-4 PMID: 822353
  54. Genetic analysis of crown gall: fine structure map of the T-DNA by site-directed mutagenesis.
    Cell. 1981 Nov;27(1 Pt 2):143-53 PMID: 6276020
  55. Internal organization, boundaries and integration of Ti-plasmid DNA in nopaline grown gall tumours.
    J Mol Biol. 1980 Dec 15;144(3):353-76 PMID: 7253020
  56. A restriction endonuclease analysis of the bacterial plasmid controlling the ecoRI restriction and modification of DNA.
    Fed Proc. 1976 Jul;35(9):2037-43 PMID: 776705
Article Info
Journal
The EMBO journal
Abbr.
EMBO J
ISSN
0261-4189
Published
1984-04-00
Pages
835-46
Language
English
Region
England
NLM ID
8208664
PMCID
PMC557436
Subset
IM
Databases
GENBANK
X00493
External Links
PubMed source PMC Full Text View journal details
Analysis Services
Analysis Services

Contact

No. 2 Wenbo Road, Zhangqiu District, Jinan, Shandong

Qilu Normal University · Genelibs Bioinformatics Lab

750 Shunhua Rd, Jinan

2F, Bldg F, University Science Park

Tel: 0531-88819269

WeChat Official Account

Follow our WeChat subscription account for real-time updates and the latest in medical and biological research.


Business Email

E-mail: product@genelibs.com

Copyright © 2026.Genelibs Jinan Honghui Biotechnology Co., Ltd. 鲁ICP备20007159号-2