+

WO1999022003A1 - Systeme binaire d'expression virale dans des plantes - Google Patents

Systeme binaire d'expression virale dans des plantes Download PDF

Info

Publication number
WO1999022003A1
WO1999022003A1 PCT/US1998/022688 US9822688W WO9922003A1 WO 1999022003 A1 WO1999022003 A1 WO 1999022003A1 US 9822688 W US9822688 W US 9822688W WO 9922003 A1 WO9922003 A1 WO 9922003A1
Authority
WO
WIPO (PCT)
Prior art keywords
replication
gene
plant
viral
protein
Prior art date
Application number
PCT/US1998/022688
Other languages
English (en)
Inventor
Narendra S. Yadav
Original Assignee
E.I. Du Pont De Nemours And Company
Priority date (The priority date is an assumption and is not a legal conclusion. Google has not performed a legal analysis and makes no representation as to the accuracy of the date listed.)
Filing date
Publication date
Application filed by E.I. Du Pont De Nemours And Company filed Critical E.I. Du Pont De Nemours And Company
Priority to AU11225/99A priority Critical patent/AU731330B2/en
Priority to HU0004222A priority patent/HUP0004222A3/hu
Priority to EP98953997A priority patent/EP1025234A1/fr
Priority to CA002304984A priority patent/CA2304984A1/fr
Priority to BR9815260-2A priority patent/BR9815260A/pt
Publication of WO1999022003A1 publication Critical patent/WO1999022003A1/fr

Links

Classifications

    • C—CHEMISTRY; METALLURGY
    • C07—ORGANIC CHEMISTRY
    • C07K—PEPTIDES
    • C07K14/00—Peptides having more than 20 amino acids; Gastrins; Somatostatins; Melanotropins; Derivatives thereof
    • C07K14/005—Peptides having more than 20 amino acids; Gastrins; Somatostatins; Melanotropins; Derivatives thereof from viruses
    • C—CHEMISTRY; METALLURGY
    • C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12N—MICROORGANISMS OR ENZYMES; COMPOSITIONS THEREOF; PROPAGATING, PRESERVING, OR MAINTAINING MICROORGANISMS; MUTATION OR GENETIC ENGINEERING; CULTURE MEDIA
    • C12N15/00—Mutation or genetic engineering; DNA or RNA concerning genetic engineering, vectors, e.g. plasmids, or their isolation, preparation or purification; Use of hosts therefor
    • C12N15/09—Recombinant DNA-technology
    • C12N15/63—Introduction of foreign genetic material using vectors; Vectors; Use of hosts therefor; Regulation of expression
    • C12N15/79—Vectors or expression systems specially adapted for eukaryotic hosts
    • C12N15/82—Vectors or expression systems specially adapted for eukaryotic hosts for plant cells, e.g. plant artificial chromosomes (PACs)
    • C12N15/8201—Methods for introducing genetic material into plant cells, e.g. DNA, RNA, stable or transient incorporation, tissue culture methods adapted for transformation
    • C12N15/8202—Methods for introducing genetic material into plant cells, e.g. DNA, RNA, stable or transient incorporation, tissue culture methods adapted for transformation by biological means, e.g. cell mediated or natural vector
    • C12N15/8203—Virus mediated transformation
    • C—CHEMISTRY; METALLURGY
    • C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12N—MICROORGANISMS OR ENZYMES; COMPOSITIONS THEREOF; PROPAGATING, PRESERVING, OR MAINTAINING MICROORGANISMS; MUTATION OR GENETIC ENGINEERING; CULTURE MEDIA
    • C12N15/00—Mutation or genetic engineering; DNA or RNA concerning genetic engineering, vectors, e.g. plasmids, or their isolation, preparation or purification; Use of hosts therefor
    • C12N15/09—Recombinant DNA-technology
    • C12N15/63—Introduction of foreign genetic material using vectors; Vectors; Use of hosts therefor; Regulation of expression
    • C12N15/79—Vectors or expression systems specially adapted for eukaryotic hosts
    • C12N15/82—Vectors or expression systems specially adapted for eukaryotic hosts for plant cells, e.g. plant artificial chromosomes (PACs)
    • C12N15/8216—Methods for controlling, regulating or enhancing expression of transgenes in plant cells
    • C—CHEMISTRY; METALLURGY
    • C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12N—MICROORGANISMS OR ENZYMES; COMPOSITIONS THEREOF; PROPAGATING, PRESERVING, OR MAINTAINING MICROORGANISMS; MUTATION OR GENETIC ENGINEERING; CULTURE MEDIA
    • C12N15/00—Mutation or genetic engineering; DNA or RNA concerning genetic engineering, vectors, e.g. plasmids, or their isolation, preparation or purification; Use of hosts therefor
    • C12N15/09—Recombinant DNA-technology
    • C12N15/63—Introduction of foreign genetic material using vectors; Vectors; Use of hosts therefor; Regulation of expression
    • C12N15/79—Vectors or expression systems specially adapted for eukaryotic hosts
    • C12N15/82—Vectors or expression systems specially adapted for eukaryotic hosts for plant cells, e.g. plant artificial chromosomes (PACs)
    • C12N15/8216—Methods for controlling, regulating or enhancing expression of transgenes in plant cells
    • C12N15/8217—Gene switch
    • C—CHEMISTRY; METALLURGY
    • C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12N—MICROORGANISMS OR ENZYMES; COMPOSITIONS THEREOF; PROPAGATING, PRESERVING, OR MAINTAINING MICROORGANISMS; MUTATION OR GENETIC ENGINEERING; CULTURE MEDIA
    • C12N15/00—Mutation or genetic engineering; DNA or RNA concerning genetic engineering, vectors, e.g. plasmids, or their isolation, preparation or purification; Use of hosts therefor
    • C12N15/09—Recombinant DNA-technology
    • C12N15/63—Introduction of foreign genetic material using vectors; Vectors; Use of hosts therefor; Regulation of expression
    • C12N15/79—Vectors or expression systems specially adapted for eukaryotic hosts
    • C12N15/82—Vectors or expression systems specially adapted for eukaryotic hosts for plant cells, e.g. plant artificial chromosomes (PACs)
    • C12N15/8216—Methods for controlling, regulating or enhancing expression of transgenes in plant cells
    • C12N15/8237—Externally regulated expression systems
    • C12N15/8238—Externally regulated expression systems chemically inducible, e.g. tetracycline
    • C—CHEMISTRY; METALLURGY
    • C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12N—MICROORGANISMS OR ENZYMES; COMPOSITIONS THEREOF; PROPAGATING, PRESERVING, OR MAINTAINING MICROORGANISMS; MUTATION OR GENETIC ENGINEERING; CULTURE MEDIA
    • C12N2750/00—MICROORGANISMS OR ENZYMES; COMPOSITIONS THEREOF; PROPAGATING, PRESERVING, OR MAINTAINING MICROORGANISMS; MUTATION OR GENETIC ENGINEERING; CULTURE MEDIA ssDNA viruses
    • C12N2750/00011—Details
    • C12N2750/12011—Geminiviridae
    • C12N2750/12022—New viral proteins or individual genes, new structural or functional aspects of known viral proteins or genes

Definitions

  • the present invention relates to the field of molecular biology and the genetic transformation of plants with foreign gene fragments. More particularly, this invention relates to a heritable plant viral expression system useful for expressing transgenes in plants.
  • Plant transgenic work is beset with low and inconsistent levels of transgene expression.
  • Episomal vectors are expected to overcome these problems.
  • episomal (plasmid) vectors are possible because these vectors can be maintained by selection.
  • plant viruses have been used as episomal expression vectors, their use has been restricted to transient expression because of lack of selection and/or their cellular toxicity (U.S. Pat. No. 4,855,237, WO 9534668). Plant viruses
  • Viruses are infectious agents with relatively simple organization and unique modes of replication.
  • a given plant virus may contain either RNA or DNA, which may be either single- or double-stranded.
  • Rice dwarf virus (RDV) and wound tumor virus (WTV) are examples of double-stranded RNA plant viruses.
  • Single-stranded RNA plant viruses include tobacco mosaic virus (TMV), turnip yellow mosaic virus (TYMV), rice necrosis virus (RNV) and brome mosaic virus (BMV).
  • TMV tobacco mosaic virus
  • TYMV turnip yellow mosaic virus
  • RMV rice necrosis virus
  • BMV brome mosaic virus
  • the RNA in single-stranded RNA viruses may be either a plus (+) or a minus (-) strand.
  • the genome of most monopartite plant RNA viruses is a single-stranded molecule of (+)-sense. There are at least 11 major groups of viruses with this type of genome. An example of this type of virus is TMV. At least six major groups of plant RNA viruses have a bipartite genome. In these, the genome usually consists of two distinct (+)-sense single-stranded RNA molecules encapsidated in separate particles. Both RNAs are required for infectivity. Cowpea mosaic virus (CPMW) is one example of a bipartite plant virus. A third major group, containing at least six major types of plant viruses, is tripartite, with three (+)-sense single-stranded RNA molecules.
  • CPMW Cowpea mosaic virus
  • Each strand is separately encapsidated, and all three are required for infectivity.
  • An example of a tripartite plant virus is alfalfa mosaic virus (AMV).
  • AMV alfalfa mosaic virus
  • Many plant viruses also have smaller subgenomic mRNAs that are synthesized to amplify a specific gene product.
  • Plant viruses with double-stranded DNA genome include Cauliflower Mosaic virus (CaMV).
  • CaMV Cauliflower Mosaic virus
  • Plant viruses with single-stranded DNA genomes are represented by geminiviruses and include African Cassava Mosaic Virus (ACMV), Tomato Golden Mosaic Virus (TGMV), and Maize Streak Virus (MSV).
  • Geminiviruses are subdivided on the basis of whether they infect monocots or dicots and whether their insect vector is a leafhopper or a whitefiy.
  • Subgroup I geminiviruses are leafhopper-transmitted that infect monocotyledonous plants (e.g., Wheat Dwarf Virus), Subgroup II geminiviruses are leafhopper-transmitted that infect dicotyledonous plants (e.g., Beet Curly Top Virus), and Subgroup III geminiviruses are whitefly-transmitted that infect dicotyledonous plants (e.g., Tomato Golden Mosaic Virus, TGMV, and African Cassava Mosaic Virus, ACMV). Subgroup I and II geminiviruses have a single (monopartite) genome. Subgroup III geminiviruses have a bipartite genome. For example, TGMV and ACMV consist of two circular single-stranded DNA genomes, A and B, of ca. 2.8 kB each in size. DNA of genome A and DNA of genome B of a given
  • Subgroup III virus have little sequence similarity, except for an almost identical common region of about 200 bp. While both DNA of genome A and DNA of genome B are required for infection, only DNA of genome A is necessary and sufficient for replication and DNA of genome B encodes functions required for movement of the virus through the infected plant.
  • DNA A contains four open reading frames (ORFs) that are expressed in a bidirectional manner and arranged similarly.
  • ORFs are named according to their orientation relative to the common region, i.e., complementary (C) versus viral (V) in ACMV and leftward (L) or rightward (R) in TGMV.
  • C complementary
  • V viral
  • R rightward
  • ORFs ALl , AL2, AL3, and ARl of TGMV are homologous to AC1, AC2, AC3, and AVI, respectively, of ACMV.
  • Three major transcripts have been identified in ACMV DNA A and these map to the AVI and AC1 ORFs, separately and the AC2/AC3 ORFs together. There is experimental evidence for the function of these ORFs.
  • ACMV encodes a replication protein that is essential and sufficient for replication
  • AC2 is required for transactivation of the coat protein gene
  • AC3 encodes a protein that is not essential for replication but enhances viral DNA accumulation
  • AVI is the coat protein gene.
  • geminivirus replication relies on host replication and transcription machinery. Although geminiviruses are single-stranded plant DNA viruses, they replicate via double-stranded DNA intermediate by 'rolling circle replication'. Viruses as Expression Vectors _
  • virus to introduce and express non- viral foreign genes in plants has been demonstrated (U.S. Pat. No. 4,855,237, WO 9534668).
  • the constructions can be made to the virus itself.
  • the virus can first be cloned into a bacterial plasmid for ease of constructing the desired viral vector with the foreign DNA.
  • the virus is an RNA virus, the virus is generally cloned as a cDNA and inserted into a plasmid. The plasmid is then used to make all of the constructions.
  • RNA vims is then produced by transcribing the viral sequence of the plasmid and translation of the viral genes to produce the coat protein(s) which encapsidate the viral RNA.
  • the cDNA can be cloned behind a heterologous plant promoter, introduced into a plant cell, and used to transcribe the viral RNA that can replicate autonomously [Sablowski et al. (1995) Proc. Natl. Acad. Sci. USA vol 92, pp 6901-6905].
  • Geminiviruses have many advantages as potential plant expression vectors. These include 1) replication to high copy numbers nonsymptomatically, 2) small, well-characterized genomes, 3) assembly into nucleosomes, and 4) nuclear transcription.
  • the DNA A component of these viruses is capable of autonomous replication in plant cells in the absence of DNA B.
  • Vectors in which the coat protein ORF has been replaced by a heterologous coding sequence have been developed and the heterologous coding sequence expressed from the coat protein promoter [Hayes et al. (1989) Nucleic Acids Res. vol. 17, pp. 2391-403; Hayes et al. (1988) Nature (London) vol. 334, pp. 179-82].
  • Tomato Golden Mosaic Vims DNA A was modified by replacing its coat protein coding sequence with that of NPT II or GUS reporter genes or with that of 35S:NPT II gene and a greater than full length copy of the modified vimses were transformed into tobacco [Hayes et al. (1989) Nucleic Acids Res. vol. 17, pp. 2391-403; Hayes et al. (1988) Nature (London) vol. 334, pp. 179-82]. Leaves of transgenic plants showed that the high levels of the reporter enzymes was gene copy number-dependent.
  • ACMV African Cassava Mosaic Nims
  • a chimeric gene in which the constitutive plant promoter, 35S, was fused to the TGMV sequence containing ORFs ALl, AL2, and AL3 were transformed into Nicotiana benthamiana.
  • Different transgenic lines showed significant non-uniformity in the levels of 35 S: ALl -3 gene expression as well as their ability to complement viral replication [Hanley-Bowdoin et al. (1989) Plant Cell vol. 1, pp. 1057-67].
  • chimeric genes in which the constitutive plant promoter, 35S, was fused to the coding sequence of TGMN replication protein ALl were transformed into tobacco.
  • the expression of TGMV replication protein in the primary transformants supported the replication of a mutant genome A lacking the replication protein.
  • the TGMV replication protein was shown to have been expressed in progeny but the genetic stability of the chimeric replication protein gene through subsequent generations was not reported. Furthermore, it was not reported whether the transgenic plants will support replication in seed tissue.
  • Rogers et al. demonstrated the expression of foreign proteins in plant tissue using a modified "A" genome of the TGMV gemini vims. The foreign gene was inserted in place of the gene encoding the viral coat protein and the resulting plasmid transformed into plant tissue. Rogers et al. did not report tissue specific expression of the foreign protein and are silent as to the genetic stability of the transforming plasmid.
  • Silencing endogenous genes and transgene is an important technology [see Senior et al. (1998) Biotechnol. Genet. Eng. Rev. vol. 15, pp. 79-119; Thomas et al. (1998) Plant Growth Regul. vol. 25, p. 205]. Silencing of endogenous genes or transgenes by viral infection or by stably incorporated vims in transgenic plants has been reported for RNA vims [Baulcombe et al. PCT Int. Appl. (1998), Ruiz et al. (1998) Plant Cell vol. 10, pp. 937-946], Geminivimses [Kjemtmp et al. (1998) Plant J. vol. 14, pp.
  • the present invention provides a binary transgenic viral expression system for replicating and increasing expression of a target gene comprising a) a heritable proreplicon lacking a functional replication gene for autonomous episomal replication and comprising: i) cis -acting viral elements required for viral replication; ii) a target gene comprising at least one suitable regulatory sequence; and iii) flanking sequences that enable the excision of the elements of (i) and (ii); and, b) a heritable chimeric trans -acting replication gene comprising a regulated plant promoter operably-linked to a viral replication protein coding sequence.
  • the present invention provides the binary transgenic viral expression system described above but without a target gene, wherein expression of the trans -acting replication gene in cells containing the proreplicon results in replicon replication without a target gene.
  • the expression system of the present invention is useful for the controlled replication of viral vectors in transgenic plants. Both components of the system are chromosomally-integrated. One component is a chimeric tram-acting replication gene in which the coding sequence of the geminivims replication protein(s) is placed under the control of a tissue- or development-specific and/or inducible promoter. The second component is a proreplicon, which is unable to replicate by itself but does so in the presence of viral replication protein(s). The two components may be introduced together into a transgenic plant or brought together by crossing transgenic plants carrying the separate components. Also provided are methods of making the expression cassettes and methods of using them to produce transformed plant cells having an altered genotype and/or phenotype.
  • Figure 1 illustrates a scheme for transactivating replication of the proreplicon in trans. Regulated expression of a chromosomally integrated chimeric replication gene will result in the release and replication of the replicon from a chromosomally integrated master copy of the proreplicon. ' "
  • the different components of the invention are heritable independently and may be introduced together into a transgenic plant or brought together by crossing transgenic plants carrying the separate components, such as by the method to __ produce TopCross® high oil corn seed [U.S. Patent No. 5,704,160]. Also provided are methods of making the expression cassettes and methods of using them to produce transformed plant cells having an altered genotype and/or phenotype.
  • FIGURES AND SEQUENCE DESCRIPTIONS Figure 1 illustrates excising and activating a proreplicon via the expression of a chimeric tram-acting replication gene.
  • sequence listings attached hereto comply with the mles governing nucleotide and/or amino acid sequence disclosures in patent applications as set forth in 37 C.F.R. ⁇ 1.821-1.825.
  • SEQ ID NOs:l-14 refer to primers used in the Examples.
  • the present invention provides a regulated binary expression system that uses various genetic elements of a plant virus.
  • the expression system is useful for the regulated replicon replication and expression of target genes in plants either for producing foreign proteins or for silencing endogenous plant genes and particularly for achieving stable expression in terminally-differentiated cells.
  • Applicant has solved the stated problem by providing a two-component, chromosomally-integrated viral expression system comprising a proreplicon and a trans-acting replication gene.
  • the proreplicon contains the czs-acting viral sequences required for replication and a target gene under the control of suitable regulatory sequences.
  • the proreplicon is incapable of self replication in plant cells because it lacks an essential trara-activating replication gene.
  • the second component of the system a chimeric trans -acting replication gene, consists of a regulated promoter operably-linked to the coding region for a viral replication protein. Expression of the viral replication protein results in the release and replication of the replicon from the proreplicon. Plant cells containing proreplicon replicate the replicon only in the presence of the replication protein. Thus, regulated expression of the chimeric replication gene in such cells results in regulated replicon replication and target gene amplification.
  • soybean and corn seed tissue will support geminivims replication; and (ii) that the expression system will effect the expression of target genes in transgenic plants.
  • the present invention advances the art by providing plant viral vectors (a) which are maintained stably in the chromosome of transgenic plants; (b) whose replication is controlled by the regulated expression of the replication proteins; and (c) contain nucleic acid sequences that are either homologous to plant _ endogenous genes or transgenes or that encode foreign proteins that may be produced in the transgenic plant.
  • gene refers to a nucleic acid fragment that expresses mRNA, functional RNA, or specific protein, including regulatory sequences.
  • native gene refers to a gene as found in nature.
  • chimeric gene refers to any gene that contains 1) regulatory and coding sequences that are not found together in nature, or 2) sequences encoding parts of proteins not naturally adjoined, or 3) parts of promoters that are not naturally adjoined. Accordingly, a chimeric gene may comprise regulatory sequences and coding sequences that are derived from different sources, or comprise regulatory sequences and coding sequences derived from the same source, but arranged in a manner different from that found in nature.
  • transgene refers to a gene that has been introduced into the genome by transformation and is stably maintained.
  • Transgenes may include, for example, genes that are either heterologous or homologous to the genes of a particular plant to be transformed. Additionally, transgenes may comprise native genes inserted into a non-native organism, or chimeric genes.
  • endogenous gene refers to a native gene in its natural location in the genome of an organism.
  • wild-type refers to the normal gene, vims, or organism found in nature without any known mutation.
  • the term “genome” refers to the complete genetic material of an organism.
  • coding sequence refers to a DNA or RNA sequence that codes for a specific amino acid sequence and excludes the non-coding sequences.
  • open reading frame and “ORF” refer to the amino acid sequence encoded between translation initiation and termination codons of a coding sequence.
  • initiation codon and “termination codon” refer to a unit of three adjacent nucleotides ('codon') in a coding sequence that specifies initiation and chain termination, respectively, of protein synthesis (mRNA translation).
  • a “functional RNA” refers to an antisense RNA, ribozyme, or other RNA that is not translated. It may be derived from any part of a gene, including its open reading frame, 5' non-coding sequence, or 3' non-coding sequence.
  • the terms "regulatory sequences” or “suitable regulatory sequences” refer to nucleotide sequences located upstream (5' non-coding sequences), within, or downstream (3' non-coding sequences) of a coding sequence, and which influence the transcription, RNA processing or stability, or translation of the associated coding sequence. Regulatory sequences include enhancers, promoters, translation leader sequences, introns, and polyadenylation signal sequences. They include natural and synthetic sequences as well as sequences which may be a combination of synthetic and natural sequences. "5' non-coding sequence” refers to a nucleotide sequence located 5'
  • 3 1 non-coding sequence refers to nucleotide sequences located 3'
  • polyadenylation signal (downstream) to a coding sequence and include polyadenylation signal sequences and other sequences encoding regulatory signals capable of affecting mRNA processing or gene expression.
  • the polyadenylation signal is usually characterized by affecting the addition of polyadenylic acid tracts to the 3' end of the mRNA precursor.
  • the use of different 3' non-coding sequences is exemplified by Ingelbrecht et al. (1989) Plant Cell vol. 1, pp. 671-680.
  • Promoter refers to a nucleotide sequence, usually upstream (5') to its coding sequence, which controls the expression of the coding sequence by providing the recognition for RNA polymerase and other factors required for proper transcription.
  • Promoter includes a minimal promoter that is a short DNA sequence comprised of a TATA- box and other sequences that serve to specify the site of transcription initiation, to which regulatory elements are added for control of expression.
  • Promoter also refers to a nucleotide sequence that includes a minimal promoter plus regulatory elements that is capable of controlling the expression of a coding sequence or functional RNA. This type of promoter sequence consists of proximal and more distal upstream elements, the latter elements often referred to as enhancers.
  • an "enhancer” is a DNA sequence which can stimulate promoter activity and may be an innate element of the promoter or a heterologous element inserted to enhance the level or tissue- specificity of a promoter. It is capable of operating in both orientations (normal or flipped), and is capable of functioning even when moved either upstream or downstream from the promoter. Both enhancers and other upstream promoter elements bind sequence-specific DNA-binding proteins that mediate their effects. Promoters may be derived in their entirety from a native gene, or be composed of different elements derived from different promoters found in nature, or even be comprised of synthetic DNA segments. A promoter may also contain DNA sequences that are involved in the binding of protein factors- which control the effectiveness of transcription initiation in response to physiological or __ developmental conditions.
  • Constant expression refers to expression using a constitutive promoter.
  • Consditional or regulated expression refer to expression using a regulated promoter, respectively.
  • Constutive promoter refers to promoters that direct gene expression in all tissues and at all times. Examples of constitutive promoters include CaMV 35S promoter and nopaline synthase promoter.
  • Regular promoter refers to promoters that direct gene expression not constitutively but in a temporally and/or spatially regulated manner and include both tissue-specific and inducible promoters. It includes natural and synthetic sequences as well as sequences which may be a combination of synthetic and natural sequences. Different promoters may direct the expression of a gene in different tissues or cell types, or at different stages of development, or in response to different environmental conditions. New promoters of various types useful in plant cells are constantly being discovered; numerous examples may be found in the compilation by Okamuro et al. (1989) Biochemistry of Plants vol. 15, pp. 1-82. Since in most cases the exact boundaries of regulatory sequences have not been completely defined, DNA fragments of different lengths may have identical promoter activity.
  • tissue-specific promoter refers to regulated promoters that are not expressed in all plant cells but only in one or more cell types in specific organs (such as leaves or seeds), specific tissues (such as embryo or cotyledon), or specific cell types (such as leaf parenchyma or seed storage cells). These also include promoters that are temporally regulated (such as in early or late embryogenesis), during fruit ripening in developing seeds or fruit, in fully differentiated leaf, or at the onset of senescence.
  • “Inducible promoter” refers to those regulated promoters that can be turned on in one or more cell types by an external stimulus (such as a chemical, light, hormone, stress, or pathogen).
  • the term “operably-linked” refers to the association of nucleic acid sequences on a single nucleic acid fragment so that the function of one is affected by the other.
  • a promoter is operably-linked with a coding sequence or functional RNA when it is capable of affecting the expression of that coding sequence or functional RNA (i.e., that the coding sequence or functional RNA is under the transcriptional control of the promoter). Coding sequences can be operably-linked to regulatory sequences in sense or antisense orientation.
  • expression refers to the transcription and stable accumulation ⁇ of sense (mRNA) or functional RNA. Expression may also refer to the production of protein.
  • altered levels refers to the level of expression in transgenic organisms that differs from that of normal or untransformed organisms.
  • “Overexpression” refers to the level of expression in transgenic organisms that exceeds levels of expression in normal or untransformed organisms.
  • Antisense inhibition refers to the production of antisense RNA transcripts capable of suppressing the expression of protein from an endogenous gene or transgene.
  • co-suppression and switch refer to the production of sense RNA transcripts capable of suppressing the expression of identical or substantially similar transgene or endogenous genes (U.S. Patent No. 5,231,020).
  • gene silencing refers to inhibition or down-regulation of an of an endogenous gene or a transgene that is substanitally similar to the target gene.
  • homologous to refers to the similarity between the nucleotide sequence of two nucleic acid molecules or between the amino acid sequences of two protein molecules. Estimates of such homology are provided by either DNA-DNA or DNA-RNA hybridization under conditions of stringency as is well understood by those skilled in the art [as described in Hames and Higgins (eds.) Nucleic Acid Hybridisation, IRL Press, Oxford, U.K.]; or by the comparison of sequence similarity between two nucleic acids or proteins. Homologous genes will be “substantially similar” to each other.
  • substantially similar refers to nucleic acid fragments wherein changes in one or more nucleotide bases does not affect the ability of the nucleic acid fragment to mediate alteration of gene expression by antisense or co-suppression technology. "Substantially similar” also refers to modifications of the nucleic acid fragments of the instant invention such as deletion or insertion of one or more nucleotide bases that do not substantially affect the functional properties of the resulting transcript.
  • substantially similar sequences may be defined by their ability to hybridize, under stringent conditions (0.1X SSC, 0.1% SDS, 65°C), with specifically identified sequences.
  • Preferred substantially similar nucleic acid fragments of the instant invention are those nucleic acid fragments whose DNA sequences are at least 80% identical to specifically identified sequences, either over the entire length of the sequence or over a portion of the sequence. More preferred nucleic acid fragments are at least 90% identical to specifically identified sequences, either over the entire length of the sequence or over a portion of the sequence. Most preferred are nucleic acid fragments that are at least 95%__ identical to specifically identified sequences, either over the entire length of the sequence or over a portion of the sequence.
  • binary transgenic viral expression system describes the expression system comprised of the proreplicon and the chimeric tram-acting replication gene, functioning together to effect the expression of a target gene in a plant. Both elements of the system will be chromosomally-integrated and heritable. Stimulation of the regulated promoter driving the trans -acting gene will cause the expression of viral replication proteins, which will in turn excise the replicon from the proreplicon and initiate replicon replication.
  • Bosset transgenic viral replication system refers to a replication system comprised of two chomosomally-integrated elements.
  • the first element is a proreplicon which lacks a target gene encoding a foreign protein.
  • the second element is comprised of a regulated promoter operably-linked to a chimeric trans- acting replication gene.
  • the proreplicon and a chimeric trans -acting gene, functioning together, will effect replication of the proreplicon in a plant in a regulated manner.
  • Such a system is useful where replication of the vims is desired in a regulated manner but where no foreign gene expression is sought.
  • the regulated expression of vims may be useful in conferring resistance to a plant to viral infection.
  • target gene refers to a gene on the replicon that expresses the desired target sequence which is either a functional RNA or a mRNA encoding a protein.
  • the target gene is not essential for replicon replication.
  • target genes may comprise native non- viral genes inserted into a non-native organism, or chimeric genes and will be under the control of suitable regulatory sequences.
  • the regulatory sequences in the target gene may come from any source, including the vims.
  • Target genes may include coding sequences that are either heterologous or homologous to the genes of a particular plant to be transformed. However, target genes do not include native viral genes. Proteins encoded by target genes are known as "foreign proteins".
  • in CM and in trans refer to the presence of DNA elements, such as the viral origin of replication and the replication protein(s) gene, on the same DNA molecule or different DNA molecules, respectively.
  • cw-acting sequence and "cw-acting element” refer to DNA or RNA sequence, whose function require them to be on the same molecule.
  • An example of a cis -acting sequence on the replicon is the viral replication origin.
  • cw-acting viral sequences refers to viral sequences that are necessary for viral replication (such as the replication origin) and that are in cis orientation.
  • episome and “replicon” refers to a DNA or RNA vector that undergoes episomal replication in plant cells. It contains cz ' _-acting viral sequences, such as the replication origin, necessary for replication. It may or may not contain trans -acting viral sequences necessary for replication, such as the viral replication genes (for example, the ACI and ALl genes in ACMV and TGMV geminivimses, respectively). It may or may not contain a target gene for expression in the host plant.
  • replication-defective replicon refers to a replicon contains cis- acting viral sequences, such as the replication origin, necessary for replication but defective in an essential replication gene. Consequently, a replication-defective replicon can replicate episomally only when provided with the essential replication protein in trans.
  • episomal replication refers to replication of DNA or RNA vimses or virus-derived replicons that are not chromosomally-integrated. It requires the presence of viral replication protein(s), is independent of chromosomal replication, and results in the production of multiple copies of vims or replicons per host genome copy.
  • autonomous episomal replication refers to replication of a replicon that contains all cis- and trans-acting sequences, such as the replication gene, required for replication. Episomal replication does not require the presence of a replication gene provided in trans.
  • replication origin refers to a cw-acting replication sequence essential for viral or episomal replication.
  • proreplicon refers to a replication-defective replicon that is integrated into a bacterial plasmid or host plant chromosome. It is comprised of c/_-acting viral sequences required for replication, and flanking sequences that enable the release of the replicon from it. In addition, the proreplicon may contain a target gene. In the case of RNA vimses, the flanking sequences include regulatory sequences that allow generation of RNA transcripts that can replicate in the presence of replication protein. These regulatory sequences can be for constitutive or regulated expression.
  • Proreplicon lacks a gene encoding a replication protein essential for replication. Therefore, it is unable to undergo autonomous episomal replication but can undergo episomal replication in the __ presence of the replication protein provide in trans. Thus, its replication requires both release from the integration and the presence of the essential replication gene in trans.
  • the release from integration can be triggered in different ways.
  • the proreplicon can be present as a partial or complete tandem duplication, such that a full-length replicon sequence is flanked by vims sequences and such that the duplicated viral sequence includes the viral replication origin.
  • the proreplicon serves as a master copy from which replicons can be excised by replicational release in the presence of replication protein(s) [Bisaro, David. Recombination in geminivimses:
  • RNA vims for example, Brome Mosaic Virus
  • the amplicon sequences flanking the inactive replicon which include regulatory sequences, allow generation of the replicon as RNA transcripts that can replicate in trans in the presence of replication protein. These regulatory sequences can be for constitutive or regulated expression.
  • viral replication protein and "replicase” refer to the viral protein essential for viral replication. It can be provided in trans to the replicon to support its replication. Examples include, viral replication proteins encoded by ACI and ALl genes in ACMV and TGMV geminiviruses, respectively. Some vimses have only one replication protein, others may have more than one. Viral replication proteins may also include replication proteins of single-stranded RNA vimses, such as the RNA-dependent RNA polymerases, when they can support viral replication in trans, for example Brome Mosaic Vims (BMV).
  • BMV Brome Mosaic Vims
  • replication gene refers to a gene encoding a viral replication protein.
  • the replication gene may also contain other overlapping or non-overlapping ORF(s) as found in viral sequences in nature. These additional ORFs (while not essential for replication) may enhance replication and/or viral DNA accumulation. Examples of such additional ORFs are AC3 and AL3 in ACMV and TGMV geminivimses, respectively.
  • chimeric trans-acting replication gene refers to a replication gene in which the coding sequence of a replication protein is under the control of a regulated plant promoter other than that in the native viral replication gene.
  • chromosomally-integrated refers to the integration of a foreign gene or DNA constmct into the host DNA by covalent bonds.
  • transformation refers to the transfer of a foreign gene into the_ genome of a host organism. Examples of methods of plant transformation include Agrobacterium-mediated transformation (De Blaere et al. (1987) Meth. Enzymol. vol. 143, p. 277) and particle-accelerated or “gene gun” transformation technology (Klein et al. (1987) Nature (London) vol. 327, pp. 70-73; U.S. Pat.
  • transformed refers to plants or calli that have been through the transformation process and contain a foreign gene integrated into their chromosome.
  • untransformed refers to normal plants that have not been through the transformation process.
  • transiently transformed refers to cells in which transgenes and foreign DNA have been introduced (by such methods as agrobacterium-mediated transformation or biolistic bombardment), but not selected for stable maintenance.
  • stably transformed refers to cells that have been selected and regenerated on a selection media following transformation.
  • geonetically stable and “heritable” refer to chromosomally- integrated genetic elements that are stably maintained in the plant and stably inherited by progeny through successive generations.
  • primary transformant and "TO generation” refer to transgenic plants that are of the same genetic generation as the tissue which was initially transformed, (i.e., not having gone through meiosis and fertilization since transformation).
  • Secondary transformants and the “Tl, T2, T3, etc. generations” refer to transgenic plants derived from primary transformants through one or more meiotic and fertilization cycles. Secondary transformants may be derived by self-fertilization of primary or secondary transformants or crosses of primary or secondary transformants with other transformed or untransformed plants.
  • the term "derived from” refers to the obtaining of genetic material from a specific, or identified, source.
  • the invention provides a two-component, viral expression system for the production of transgenic plants. Both components are chromosomally-integrated and, thus, stably maintained by themselves. One component is the proreplicon that is unable to replicate by itself.
  • the second component is a chimeric transacting replication gene in which the coding sequence of a viral replication is operably-linked to a regulated promoter. Expression of the viral replication protein-under appropriate stimulus will result in the release of replicon from the proreplicon and its episomal replication in a cell autonomous manner. Thus, replicon replication can be targeted to specific plant cells by controlling the expression of replication protein(s) to those cells.
  • Plants will be most sensitive to cellular toxicity and/or the detrimental effect of viral replication and/or replication protein(s) in early stages of plant growth and differentiation that involve cell division and differentiation.
  • controlling the expression of the replication protein and replicon replication entirely or largely to non-dividing, terminally- differentiated cells will reduce the detrimental effect of replicon replication on plant growth and development.
  • terminally-differentiated cells include, but are not limited to, the storage cells of seed and root tissues and mature leaf cells.
  • the chromosomally-integrated proreplicon serves as a master copy for replicons not only in different generations but also in the same generation if cell divisions occur after the onset of episomal replication.
  • target gene expression can involve either the production of foreign proteins or the silencing of endogenous nuclear gene as well as transgenes by antisense inhibition or co- suppression.
  • novel recombinant vims constmcts are described.
  • the vectors When used to transform a plant cell, the vectors provide a transgenic plant capable of regulated, high level expression though gene amplification. This regulated expression could be in response to a particular stimulus, such as the development stage, wounding of the plant (for example, by insect attack or pathogen), an environmental stress (such as heat or high salinity), or chemicals that induce specific promoters. Plants in which particular tissues and/or plant parts have a new or altered phenotype may be produced by the subject method.
  • the constructs include vectors, expression cassettes and binary plasmids depending upon the intended use of a particular construct.
  • Two basic DNA constmcts are required which may be combined in a variety of ways for transforming a plant cell and obtaining a transgenic plant.
  • the proreplicon and chimeric replication gene may be combined in one binary plasmid or the two may be introduced into a cell on separate binary plasmids by either co-transformation or sequential transformations.
  • the two constmcts may be combined by crossing two transgenic lines containing one or the other constmct.
  • the termination region used in the target gene in the replicon as well as in the chimeric replication protein gene will be chosen primarily for convenience, since the termination regions appear to be relatively interchangeable.
  • the termination region which is used may be native with the transcriptional initiation region, may be native with the DNA sequence of interest, or may be derived from another source.
  • the termination region may be naturally occurring, or wholly or partially synthetic.
  • Convenient termination regions are available from the Ti-plasmid of A. tumefaciens, such as the octopine synthase and nopaline synthase termination regions or from the genes for ⁇ -phaseolin, the chemically inducible lant gene, pIN (Hershey et al. (1991) Plant Mol. Biol. vol. 17(4), pp. 679-90; U.S. 5,364,780).
  • the Proreplicon Constmct is available from the Ti-plasmid of A. tumefaciens, such as the octop
  • the proreplicon is preferably present as a partial or complete tandem dimer in T-DNA, such that a single replicon is flanked by cis -acting viral sequences necessary for viral replication, including the replication origin ( Figure 1). These dimers can serve as master copy from which replicons can be excised by replicative release (Bisaro, David. Recombination in geminiviruses:Mechanisms for maintaining genome size and generating genomic diversity. Homologous Recomb. Gene Silencing Plants (1994), 219-70. Editor(s): Paszkowski, Jerzy.
  • the preferable source of proreplicon sequences is from ACMV and TGMV in which the essential replication gene (for example, ACI) is rendered non-functional by mutation (i.e., addition, rearrangement, or a partial or complete deletion of nucleotide sequences).
  • the mutation can be in the non-coding sequence, such as the promoter, or it can be in the coding sequence of the replication protein so as to result either in one or more altered amino acids in the replication protein or in a frame shift.
  • the entire replication gene is deleted from the proreplicon such that there is no homology between the transactivating replication gene and the replicon in order to reduce vims-induced homology-based silencing of the transactivating replication gene during replicon replication.
  • the proreplicon preferentially has most or all of the coat protein gene which was deleted and replaced by a restriction site for cloning target gene.
  • Proreplicons may also contain a target genes in the replicon sequence. The coding sequence in these target genes are operably-linked to regulatory sequences that are of viral and/or plant origin. One or more introns may be also be present in the cassette.
  • sequences including those encoding transit peptides, secretory leader sequences, or introns, may also be present in the proreplicon and replicon as desired. How to obtain and use these sequences are well known to those skilled n the art.
  • the target gene can encode a polypeptide of interest (for example, an enzyme), or a functional RNA, whose sequence results in antisense inhibition or co-suppression.
  • the nucleotide sequences of this invention may be synthetic, naturally derived, or combinations thereof. Depending upon the nature of the nucleotide sequence of interest, it may be desirable to synthesize the sequence with plant-preferred codons.
  • modified proreplicons may be made that have only the minimal origin of replication (ori) sequence. This will allow maximal room for cloning target genes as well as remove all or almost all homology between the proreplicon and the replicase gene to reduce gene silencing of the chimeric replication gene by the chromosomal proreplicon or the episomally replicating replicon.
  • the source of the minimal ori sequence of bipartite geminivimses can be either DNA from the A genome or DNA from the B genome.
  • Target genes can encode functional RNAs to silence homologous endogenous genes or transgenes or may encode foreign proteins. Foreign proteins will typically encode non- viral proteins and proteins that may be foreign to plant hosts.
  • Such foreign proteins will include, for example, enzymes for primary or secondary metabolism in plants, proteins that confer disease or herbicide resistance, commercially useful non-plant enzymes, and proteins with desired properties useful in animal feed or human food. Additionally foreign proteins encoded by the target genes will include seed storage proteins with improved nutritional properties, such as the high sulfur 10 kD corn seed protein or high sulfur zein proteins.
  • the other basic constmct is a chimeric trans -acting replication gene consisting of a regulated plant promoter operably-linked to the coding sequence of a replication protein.
  • the replication proteins are encoded by the ACI and ALl ORFs, respectively.
  • the replication proteins of single-stranded RNA viruses such as the
  • RNA-dependent RNA polymerase encode by the first ORF of potato vims X (PVX) [Angell et al. (1997) The EMBO Journal, vol. 16, pp. 3675-3684].
  • Regulated expression of the viral replication protein(s) is possible by placing the coding sequence of the replication protein under the control of promoters that are tissue-specific, developmental-specific, or inducible.
  • tissue-specific regulated genes and/or promoters have been " ' reported in plants. These include genes encoding the seed storage proteins (such as napin, craciferin, .beta.-conglycinin, phaseolin), zein or oil bodies proteins (such as oleosin), or genes involved in fatty acid biosynthesis, including acyl __ carrier protein, stearoyl-ACP desaturase, and fatty acid desaturases (fad 2-1), and other genes expressed during embryo development, such as Bce4, which is expressed at high levels in Brassica seed coat cells is the EA9 gene [see, for example, EP 255378 and Kridl et al. (1991) Seed Science Research vol. 1, pp. 209-219].
  • the seed storage proteins such as napin, craciferin, .beta.-conglycinin, phaseolin
  • zein or oil bodies proteins such as oleosin
  • genes involved in fatty acid biosynthesis including acyl
  • pea vicilin promoter [Czako et al. (1992) Mol. Gen. Genet, vol. 235(1), pp. 33-40] that has been shown to be seed-specific by the use of diphtheria toxin.
  • Another useful promoter for expression in mature leaves are those that are switched on at the onset of senescence, such as the SAG promoter from Arabidopsis [Gan et al. (1995) Science (Washington, D. C.) vol. 270(5244), pp. 1986-8].
  • the promoter for polygalacturonase gene is active in fruit ripening.
  • the polygalacturonase gene is described in U.S. Pat. No. 4,535,060 (issued August 13, 1985), U.S. Pat. No. 4,769,061 (issued September 6, 1988), U.S. Pat. No. 4,801,590 (issued January 31, 1989) and U.S. Pat. No. 5,107,065 (issued April 21, 1992), which disclosures are incorporated herein by reference.
  • Mature plastid mRNA for psbA (one of the components of photosystem II) reaches its highest level late in fruit development, in contrast to plastid mRNAS for other components of photosystem I and II which decline to nondetectable levels in chromoplasts after the onset of ripening [Piechulla et al. (1986) Plant Mol. Biol. vol. 7, pp. 367-376].
  • cDNA clones representing genes apparently involved in tomato pollen [McCormick et al., Tomato Biotechnology (1987) Alan R. Liss, Inc., New York) and pistil (Gasser et al. (1989) Plant Cell vol. 1, pp. 15-24] interactions have also been isolated and characterized.
  • tissue-specific promoters include those that direct expression in leaf cells following damage to the leaf (for example, from chewing insects); in tubers, (for example, patatin gene promoter); and in fiber cells (an example of a developmentally regulated fiber cell protein is E6 [John et al. (1992) Gene expression in cotton ⁇ Gossypium hirsutum L.) fiber: cloning of the mRNAs. Proc. Natl. Acad. Sci. U.S.A. vol. 89(13), pp. 5769-73]). The E6 gene is most active in fiber, although low levels of transcripts are found in leaf, ovule and — flower.
  • E6 developmentally regulated fiber cell protein
  • tissue-specificity of some "tissue-specific" promoters may not be absolute and may be tested by one skilled in the art using the diphtheria toxin sequence.
  • tissue-specific expression with "leaky” expression by a combination of different tissue-specific promoters (Beals et al. (1997) Plant Cell vol. 9, pp. 1527-1545).
  • Other tissue-specific promoters can be isolated by one skilled in the art (see U.S. 5,589,379).
  • Several inducible promoters (“gene switches") have been reported. Many are described in the review by Gatz (1996) Current Opinion in Biotechnology vol. 7, pp. 168-172; Gatz (1997) Annu. Rev. Plant Physiol. Plant Mol. Biol. vol.
  • genes inducibly regulated in response to environmental stress or stimuli such as increased salinity, drought, pathogen, and wounding.
  • genes encoding serine proteinase inhibitors which are expressed in response to wounding in tomato (Graham et al. (1985) J. Biol. Chem. vol. 260, pp. 6555-6560; Graham et al. (1985) J. Biol. Chem. vol. 260, pp. 6561-6554) and on mRNAS correlated with ethylene synthesis in ripening fruit and leaves after wounding (Smith et al. (1986) Planta vol. 168, pp. 94-100).
  • a variety of techniques are available and known to those skilled in the art for introduction of constmcts into a plant cell host. These techniques include transformation with DNA employing A. tumefaciens or A. rhizogenes as the transforming agent, electroporation, particle acceleration, etc. [See for example EP 295959 and EP 138341.] It is particularly preferred to use the binary type vectors of Ti and Ri plasmids of Agrobacterium spp. Ti-derived vectors transform a wide variety of higher plants, including monocotyledonous and dicotyledonous plants, such as soybean, cotton, rape, tobacco, and rice [Pacciotti et al. (1985) Bio/Technology vol. 3, pp.
  • T-DNA for transformation of plant cells has received extensive study and is amply described in EP 120516, Hoekema, In: The Binary Plant Vector System. Offset-drukkerij Kanters B.V., Alblasserdam, 1985, Chapter V, Knauf, et al., Genetic Analysis of Host Range Expression by Agrobacterium, In: Molecular Genetics of the Bacteria- Plant Interaction, Puhler, A. ed., Springer- Verlag, New York, 1983, p. 245, and An et al. (1985) EMBO J. vol. 4, pp. 277-284.
  • the chimeric genes of the invention can be inserted into binary vectors as described in the examples.
  • a variety of techniques are available and known to those skilled in the art for introduction of constmcts into a plant cell host. These techniques include transformation with DNA employing A. tumefaciens or A. rhizogenes as the transforming agent, electroporation, particle acceleration, etc. [See for example, EP 295959 and EP 138341]. It is particularly preferred to use the binary type vectors of Ti and Ri plasmids of Agrobacterium spp. Ti-derived vectors transform a wide variety of higher plants, including monocotyledonous and dicotyledonous plants, such as soybean, cotton, rape, tobacco, and rice [Pacciotti et al. (1985) Bio/Technology vol. 3, p.
  • T-DNA T-DNA to transform plant cells has received extensive study and is amply described [EP 120516; Hoekema, In: The Binary Plant Vector System. Offset-drukkerij Kanters B.V.; Alblasserdam, (1985), Chapter V, Knauf, et al., Genetic Analysis of Host Range Expression by Agrobacterium, In: Molecular Genetics of the Bacteria-Plant Interaction. Puhler, A. ed., Springer-Verlag, New York, 1983, p. 245; and An et al. (1985) EMBO J. vol. 4, pp. 277-284].
  • the chimeric genes of the invention can be inserted into binary vectors as described in the examples.
  • Transgenic plant cells are then placed in an appropriate selective medium for selection of transgenic cells which are then grown to callus.
  • From callus shoots are grown and plantlets generated from the shoot by growing in rooting medium.
  • the various constmcts normally will be joined to a marker for selection in plant cells.
  • the marker may be resistance to a biocide, particularly an antibiotic (such as kanamycin, G418, bleomycin, hygromycin, chloramphenicol, herbicide, or the like).
  • an antibiotic such as kanamycin, G418, bleomycin, hygromycin, chloramphenicol, herbicide, or the like.
  • the particular marker used will allow for selection of transformed cells as compared to cells lacking the DNA which has been introduced.
  • Components of DNA constmcts including transcription cassettes of this invention may be prepared from sequences which are native (endogenous) or foreign (exogenous) to the host.
  • heterologous constmcts will contain at least one region which is not native to the gene from which the transcription initiation region is derived.
  • a Southern blot analysis can be performed using methods known to those skilled in the art. Replicons can be detected and quantitated by Southern blot, since they can be readily distinguished from proreplicon sequences by the use of appropriate restriction enzymes. Expression products of the transgenes can be detected in any of a variety of ways, depending upon the nature of the product, and include Western blot and enzyme assay. One particularly useful way to quantitate protein expression and to detect replication in different plant tissues is to use a reporter gene, such as GUS.
  • GUS reporter gene
  • the present viral expression system has been used to demonstrate that (i) soybean and com seed tissue will support geminivirus replication; and (ii) that the expression system will effect expression of foreign genes in tobacco. More specifically, Applicant has used a transient assay using biolistic bombardment to show that developing soybean and com seeds can support replication of ACMV-A-derived vector in which the coat protein gene was deleted. Applicant has tested episomal replication of the mutant ACMV-A DNAs in mature tobacco leaf, developing soybean seed embryo (50-150 mg in weight), developing com seed, and com suspension cell cultures. For this, a greater than full length copy of mutant ACMV-A DNA is introduced into the tissues by biolistic bombardment and the transiently transformed tissues analyzed by Southern blot for replication.
  • CP mutant a 784 bp deletion is made in the coat protein gene from Bam HI site at position 142 to Pml I site at position 926 (with refemce to Ssp I in the stem-loop stmcture of the ori being position 1).
  • CP+REP mutant there is a deletion in the replication gene ACI that was made by deleting 651 bp Bgl II fragment covering ACI, AC2, and AC3 ORFs in addition to the coat protein deletion stated above. While the CP mutant can replicate episomally by itself, CP+REP mutant_ cannot.
  • CP+REP mutant can replicate episomally in all of the tissues when it is co-bombarded either with CP mutant or with a chimeric replication gene under the control of constitutively expressed 35S promoter or seed-specific phaseolin promoter. Since all of these tissues except the suspension culture are past the cell division stage, this shows that non-dividing, fully or partially differentiated cells are capable of supporting geminivims replication.
  • the viral coat protein gene was replaced with a 1.2 kB non- viral gene.
  • Applicant introduced more than full length CP mutant with a 1.2 kB target gene insertion in place of the coat protein into tobacco leaf discs on a binary vector by agrobacterium-mediated transformation. Southern analysis of regenerated shoots showed replication of the modified ACMV-A genome in unrooted shoots but not in rooted shoots.
  • the CP mutant can tolerate at least a 1.2 kb non- viral DNA insertion. Taken together with the ability of the CP+REP mutant to replicate in trans, it is reasonable to expect that at least 1.85 kb of non- viral DNA can be inserted.
  • Applicant also obtained genetically stable transgenic tobacco plants containing a chromosomally-integrated more than full length of CP mutant. Retransformation of leaf discs of these plants with a chimeric replicase gene resulted in excision and replication of the replicon. Applicant also introduced into tobacco via agrobacterium-mediated transformation native or chimeric ACMV A sequences expressing the leftward open reading frames containing ORFs ACI, AC2, and AC3 under the control of its native promoter or other promoters that are expressed during plant regeneration. However, Southern analysis of transgenic plants showed that these chimeric genes are lost or deleted.
  • Restriction enzyme digestions, phosphorylations, ligations and transformations were done as described in Sambrook et al., supra. Restriction enzymes were obtained from New England Biolabs (Boston, MA), GIBCO/BRL (Gaithersburg, MD), or Promega (Madison, WI). Thermostable DNA polymerase was obtained from Perkin Elmer (Branchburg, NJ). Growth media was obtained from GIBCO/BRL (Gaithersburg, MD).
  • the Agrobacterium tumefaciens strain LBA4404 was obtained from Dr. R. Schilperoot, Leiden [Hoekema et al. (1983) Nature vol. 303, pp. 179-180]. Transformation Protocols Biolistic transformations were done essentially as described in U.S. Pat.
  • Gold particles (1 mm in diameter) are coated with DNA using the following technique. Ten ug of plasmid DNAs are added to 50 mL of a suspension of gold particles (60 mg per mL). Calcium chloride (50 uL of a 2.5 M solution) and spermidine free base (20 mL of a 1.0 M solution) are added to the particles. The suspension is vortexed during the addition of these solutions. After 10 min, the tubes are briefly centrifuged (5 sec at 15,000 rpm) and the supernatant removed. The particles are resuspended in 200 mL of absolute ethanol, centrifuged again and the supernatant removed.
  • the ethanol rinse is performed again and the particles resuspended in a final volume_of 30 uL of ethanol.
  • An aliquot (5 mL) of the DNA-coated gold particles can be placed in the center of a flying disc (Bio-Rad Labs, 861 Ridgeview Dr, Medina, OH).
  • the particles are then accelerated into the com tissue with a PDS-1000/He (Bio-Rad Labs, Medina, OH), using a helium pressure of 1000 psi, a gap distance of 0.5 cm and a flying distance of 1.0 cm.
  • Transgenic plants with different constmcts will be selected and regenerated into plants in tissue culture by methods known to one skilled in the art and referred to above.
  • the ability of a chimeric, trans -acting replication gene to replicate the replicon from the proreplicon in plant chromosome in trans will be tested following one of the following methods:
  • the first binary vector could contain either the proreplicon or the chimeric replication gene.
  • the binary vector for retransformation will contain the complementary component. Replication in transgenic plant tissue will be monitored by Southern analysis of genomic DNA (either undigested or following digestion with restriction enzymes) that will distinguish the replicon from chromosomal chimeric replication protein gene and proreplicon by size. Alternatively, replication can be detected by reporter gene expression.
  • GUS reporter genes on the replicon will be assayed by GUS enzyme assay or staining and increased expression of the 10 kD com storage protein will be detected by western blot using antibodies specific for the 10-kD protein.
  • Tomato Golden Mosaic Vims Constructs Partial dimer of TGMV with wild-type replication protein (plasmid pBE651 ⁇ Plasmid pCSTA [Von Arnim et al. (1992) Virology vol. 186(1), pp. 286-93] was obtained from John Stanley (John Innes Center, Norwich, United Kingdom). It consists of a single complete TGMV-A DNA cloned at its unique Eco RI site into Eco RI site of a plasmid pUC19 derivative.
  • plasmid pGV651 consists of an intact TGMV-A genome and a tandem duplication of a 570 bp TGMV-A sequence that includes 206 bp TGMV ori sequence and 370 bp 5' ALl ORF sequence adjacent to the replication origin (ori), such that an intact TGMV-A genome can be made from pGV651 in plant cells either by replicative release or homologous recombination.
  • Plasmid pGV651 can replicate in a plant cell when introduced by biolistic bombardment.
  • the Hind III fragment of pGV651 carrying the TGMV dimer with wild-type ALl ORF was cloned into pBinl9 [Frisch et al., (1995) Plant Mol.
  • the resultant binary plasmid pBE651 was introduced into tobacco plants via Agrobacterium tumefaciens strain LBA4404. Partial dimer of TGMV with wild-type replication protein and GUS reporter (plasmid pBE671) The unique BstB 1 site in plasmid pGV651 was converted to Not I following BstBl digestion, fill-in reaction, and ligation to Not I linkers (New England Biolabs catalog number 1125) to result in pGV652.
  • Plasmid pGV671 can replicate when introduced into plant cells by biolistic bombardment.
  • the Hind III fragment carrying the dimer will be cloned into a binary vector pBinl9 to result in pBE671 and transferred to plants as known to one skilled in the art.
  • TGMV proreplicon without GUS reporter gene (plasmid pGV654) ___
  • Plasmid pGV654 was made from plasmid pGV652 (see description above) by deleting a 895 bp region between Bam HI -Eco RI including 709 bp of the 3' end of ALl ORF and the 5' regions of AL2 and AL3 ORFs following restriction digestion, fill-in, and ligation. When introduced into plant cells by biolistic bombardment the proreplicon in plasmid pGV654 was unable to replicate without the gene encoding the replication protein in trans.
  • TGMV proreplicons with GUS reporter gene Plasmids pGV662 and pGV672 Three different TGMV proreplicons with GUS reporter gene will be introduced into plant cells. They differ in the kind of mutation in the replication gene. Two (pGV662 and pGV672) were made by deletions of different sizes and one is being made by introducing a frameshift mutation.
  • the 696 bp Not I-Nco I fragment in plasmid pGV654 was replaced with a 1875 bp Not I-Nco I fragment containing the GUS ORF (the Nco I site includes the initiation codon) to yield plasmid pGV661. Since the Nco I site is downstream of the coat protein initiation codon, a modified coat protein promoter with a Nco I in the 5' untranslated region was made by nucleic acid amplification using primers [(See U.S.
  • a 663 bp Bam HI+Nco I fragment derived from the PCR product and containing the ori, and coat protein promoter without any coat protein coding sequence was used to replace the corresponding 698 bp Bgl II-Nco I fragment of plasmid pGV661 to result in plasmid pGV662.
  • Plasmids pGV662 and pGV672 differ from their wild-type counte ⁇ art, plasmid pGV671, in having deletions in ALl, AL2 and AL3 ORFs of 709 bp and 433 bp, respectively.
  • the Hind III fragment of plasmid pGV662 was isolated and cloned into the Hind III site of pB in 19 and pGV674 to yield binary plasmids pBE662 and pBE675, respectively.
  • the Hind III fragment of pGV672 was cloned into pGV674 to yield pBE672.
  • Binary vector pGV674 was made by replacing the Bsu 36 I-Cla I fragment in pBinl9 (carrying the nopaline synthase promoter:npt II:3'nopaline synthase chimeric gene that confers resistance to kanamycin in plants) with a Bsu 36 I-Cla I (fragment carrying the nopaline synthase promoter:bar:3'nopaline synthase chimeric gene that confers resistance to phosphonithricin herbicide).
  • pBE662 binary plasmid was introduced into plants via Agrobacterium tumefaciens LB A4404-mediated transformation known to one skilled in the art. [Walden, Vector Systems for Agrobacterium-mediated Transformation In Method Plants Biochem. (1997), 106 (Molecular Biology), 85-102.]
  • EXAMPLE 2 Chimeric tram-acting TGMV replication genes 35S:TGMV replication gene (plasmid pGV653) Plasmid pGV653 was derived from plasmid p35 S-GFP plant vector
  • the 1603 bp Spe I fragment (containing the TGMV ALl, AL2, and AL3 ORFs) was isolated and cloned between the inducible promoter 2-2 and the 3' region of 2-1 gene in plasmid pGV664 to yield plasmid pGV665.
  • Plasmid pGV664 was derived from pGV659 (see description below) by replacing its Not I-Spe I fragment (containing 2-2 promoter and ACMV replication protein gene), with that of a 2-2 promoter in which the Nco I site was modified to Spe I site.
  • the latter was made by PCR such that the Nco I site at its 3' end was replaced by the Spe I site, the Spe I site at the 5' end of the promoter was destroyed, and the Bam HI site at the 5' end was changed to Bgl II.
  • the 2561 bp BglII-Asp718 fragment from pGV665 containing the 2- UN promoter:T-Rep ORF:3' 2-2 chimeric gene was isolated from pGV665 and cloned into binary vector pBinl9 cut with BamHI-Asp718 to result in pBE665.
  • the chimeric gene was introduced into tobacco plants via Agrobacterium tumefaciens LBA4404.
  • Seeds from the reciprocal crosses were planted on soil flats and allowed to germinate in the growth chambers.
  • 48 and 72 progeny seedlings from BA662 X BA665 and BA665 X BA662 crosses, respectively, were transplanted on a gridded flat.
  • the phenotypes of the plants were relatively normal except that the seedlings varied in sizes and some of the leaves appeared crinkled as also observed on seed germination plates.
  • Four leaf discs were punched out from a leaf in each plant and a pair of discs were placed in one well of two different 96 well plates containing agar with Murashige and Skoog salts, 30 g of sucrose, and no hormones.
  • the degree of staining varied not only between different GUS-positive discs but also across a disc. After 72 hours there were not only many more individuals that stained positive compared to 24 hrs but the ones that stained after 24 hrs stained also more heavily after 72 hrs. This indicated that the vims was replicating.
  • Proreplicon replication was confirmed by Southern analysis confirmed that all GUS-positive plants tested were positive for both IN:Rep and proreplicon.
  • the genomic DNA was isolated from leaves of the six highest GUS-expressing plants (three each from BA662 X BA665 and BA665 X BA662 progeny) either without or with 2-CBSU treatment.
  • genomic DNA was isolated from freshly harvested leaves.
  • leaves were cut in strips, placed on agar, treated with 30 mg/L 2-CBSU for 30 min, and placed on agar for 3 days after removing the safener. No replicon was detected in untreated leaves and a large increase in replicon copy number was detected in treated leaves.
  • Seed-specific vicilin promoter TGMV replication gene
  • Plasmid pGV656 (containing a 3086 bp Hind III fragment containing a chimeric com 10 kD storage protein ORF under the control of seed-specific vicilin promoter) was made.
  • the chimeric gene consists of 1) an operably-linked 2308 bp Hind III-Nco I vicilin promoter isolated from plasmid pGA971 [Czako et al. (1992) Mol. Gen. Genet, vol. 235(1), pp. 33-40] and 2) the 276 bp Sac I-Hind III fragment containing a 3' untranslated region of nopaline synthase_ promoter.
  • the 394 bp Spe I-Xba I fragment containing most of the 10 kD ORF was replaced by the 1604 bp Spe I fragment containing AC 1-3 ORFs. (This fragment was made by adding Spe I linker to Mfe I and Bst Bl digested TGMV clone, described above). The 56 bp between the Nco I and Spe I sites was deleted by PCR. The 4236 bp Hind III fragment (containing the chimeric vicilin promoter:TGMV replication protein ORF:3' nopaline synthase gene) was cloned into the Hind III site of pBinl9 binary vector.
  • the resultant binary plasmid pBE679 was introduced into tobacco plants via Agrobacterium tumefaciens LB A4404-mediated transformation known to one skilled in the art.
  • the transgenic plants are in pots and will be crossed with transgenic plants containing the proreplicon BA662 (see above).
  • Senecence-associated promoter SAG TGMV replication gene (plasmid pBE667)
  • the 1.6 kB Spe I fragment containing the TGMV ALl, AL2, and AL3 ORFs (described above) was cloned in the Xba I site of plasmid pGV666, downstream of a senescence associated (SAG) promoter.
  • pGV666 was derived from plasmid pSG516 [Gan et al. (1995) Science (Washington, DC) vol. 270(5244), pp.
  • the 3801 bp Spe I-Sac I fragment (containing the SAG promote ⁇ TGMV replication gene) was isolated from pGV667 and cloned into Xba I-Sac I digested vector pBHOl (Clonetech Inc., 6500 Donlon Rd, Somis, CA) to yield binary plasmid pBE667 such that the SAG promoter: ACMV replication gene is operably-linked to the 3' untranslated region of nopaline synthase gene.
  • the chimeric gene in pBE667 was introduced into plants via Agrobacterium tumefaciens LBA4404-mediated transformation known to one skilled in the art.
  • ACMV African Cassava Mosaic Vims
  • Plasmid pCLVO12 (ATCC 45039), which contains DNA A of African Cassava Mosaic Virus [West Kenyan isolate 844, Stanley et al. (1983) Nature vol. 301, pp. 260-262] was linearized with Pml I and ligated to Bam HI linker (New England Biolab cat. no. 1071). Following Bam HI digestion, the 2 kB fragment containing the ori and AC 1-3 ORFs was isolated and cloned into
  • Bam HI site of pSK to yield pGV592 and pGV592R Bam HI site of pSK to yield pGV592 and pGV592R.
  • These plasmids differ in " insert orientation: the coat protein promoter is proximal to the Sal site in the vector in pGV592 and distal in pGV592R.
  • BstBl site in ACI gene in pGV592R was modified to Sac II, following restriction digestion, fill-in, and Sac II linker __ ligation.
  • the 358 bp Not I-Sac II fragment was isolated and cloned between the Not I-Sac II cleaved pGV592 to yield pGV596a.
  • ACMV proreplicon (plasmid pGV596D) Deletion of a 651 bp region between the Bgl II sites that includes the 3 ' end of ACI gene in pGV596a yielded ACMV proreplicon (plasmid pGV596D). ACMV proreplicons with reporter gene (plasmids pGV614D and pGV616D)
  • Plasmid pGV605 was modified by converting its Sac I site to Asp718 and by destroying the Bam HI site near Sal I to form plasmid pGV611.
  • Chimeric 10 kD com storage protein gene under the control of either a seed-specific or constitutively-expressed promoter was used as a reporter for gene expression.
  • the seed-specific chimeric gene was cloned as a 1164 bp Bam HI-Bgl II fragment in the Bam HI site of pGV611 to yield plasmid pGV614.
  • plasmid pGV611 was first modified to delete the sites between Not I and Bam HI by Bam HI digestion, fill-in, addition of Not I linker (New England Biolabs, catalog no. 1125), and religation to yield plasmid pGV61 IN.
  • the constitutive chimeric gene was cloned as a 1194 bp Not I fragment in the Not I site of pGV61 IN to yield plasmid pGV616. It consists of an operably-linked 411 bp constitutively expressed 35S promoter (from -400 to +11 bp with respect to the transcription start site), 460 bp containing the 10 kD ORF, and 323 bp containing 279 bp of 3' untranslated region of nopaline synthase promoter.
  • Plasmid pCLVO12 (ATCC 45039) containing ACMV DNA was modified by creating an Nco I site at the initiation codon of ACI ORF by PCR and by modifying Pml I site at the 3' end of the coat protein gene to Xba I site.
  • the 1685 bp Nco I-Nco I-Xba I fragment containing AC 1-3 ORFs was used to make seed-specific chimeric replication genes.
  • the chimeric phaseolimreplication gene consists of an operably-linked 384 bp Bam HI-Nco I fragment containing 374 bp of seed-specific phaseolin promoter (from -292 to +82 bp with respect to the transcription start site), 1685 bp containing AC 1-3 ORFs (see above), and 323 bp containing 279 bp of the 3' untranslated region of nopaline synthase promoter.
  • phaseolin ACMV ACI ORF fusion (without the 3' nopaline synthase promoter) will be isolated as a 2120 bp Bam Hi-Sac I fragment and cloned into the Bam Hi-Sac I sites of binary vector pBHOl (Clonetech Co., 6500 Donlon Rd, Somis, CA) to yield binary plasmid pBE625 such that the phaseolin promoter: ACMV ACI ORF is operably-linked to the 3' untranslated region of nopaline synthase gene.
  • the chimeric gene in pBE625 will be introduced into plants via Agrobacterium tumefaciens LB A4404-mediated transformation known to one skilled in the art. Seed-specific vicilin promoter:ACMV replication gene
  • Plasmid pGV656 containing a 3086 bp Hind III fragment containing a chimeric com 10 kD storage protein ORF under the control of seed-specific vicilin promoter was made.
  • the chimeric gene consists of 1) an operably-linked 2308 bp Hind III-Nco I vicilin promoter isolated from plasmid pGA971 [Czako et al. (1992) Mol. Gen. Genet, vol. 235(1), pp. 33-40] and 2) a 276 bp Sac I-Hind III fragment containing the 3' untranslated region of nopaline synthase promoter.
  • the 450 bp Nco I-Xba I fragment containing 10 kD ORF will be replaced by the 1685 bp Nco I-Nco I-Xba I fragment containing AC 1-3 ORFs (see description above).
  • the 4321 bp Hind III fragment containing the chimeric vicilin promoter:ACMV replication protein ORF:3' nopaline synthase gene will be cloned into the Hind III site of pB in 19 binary vector and introduced into tobacco plants via Agrobacterium tumefaciens LB A4404-mediated transformation known to one skilled in the art.
  • Plasmid pCLVO12 (ATCC 45039) containing ACMV DNA was modified by creating an Nco I site at the initiation codon of ACI ORF by PCR and by ' ' ' converting Sna Bl site at the 3' end of the coat protein gene ⁇ Stanley et al. (1983) Nature vol. 301, pp. 260-262 (1983)] to multiple cloning sites (Not I, Xba I, Spe I, and Bam HI sites).
  • Plasmid PGV659 consists of a 452 bp Bam HI-Nco I fragment (sequence shown in Figure 4 of U.S. Patent No. 5,364,780) containing com gene 2-2 promoter
  • Patent No. 5,364,780 The 2538 bp Bam HI-Asp 7181 fragment in pGV659 containing operably-linked chemically- inducible in 2-2 promoter, AC 1-3 ORFs, and 247 bp of the 3' untranslated region of com gene 2-1 will be isolated and cloned into Bam HI-Asp718 sites of pBinl9 binary vector and the resultant binary vector will be introduced into plants via Agrobacterium tumefaciens LBA4404-mediated transformation known to one skilled in the art.
  • Senecence-associated promoter SAG:ACMV Rep (plasmid pBE640 A 1737 bp Nco I-Nco I-Sac I fragment containing ACMV AC 1 -3 ORFs was cloned into Nco I-Sac I-digested plasmid pSG516 [Gan et al. (1995) Science (Washington, D. C), vol. 270(5244), pp. 1986-8] to yield plasmid pGV640.
  • a 3924 bp Spe I-Sac I fragment from pGV640 (containing the SAG promoter operably-linked to the ACMV Rep ORF) will be isolated and cloned into Xba I-Sac I digested pB 1101 to yield binary plasmid pBE676 such that the SAG promoter: ACMV Rep is operably-linked to the 3' untranslated region of nopaline synthase gene.
  • the chimeric gene in pBE676 will be introduced into plants via via Agrobacterium tumefaciens LB A4404-mediated transformation known to one skilled in the art.
  • Modified proreplicons with minimal ori will be made as follows:
  • the 101 bp minimal TGMV-A ori sequence [positions 53 to 153, Orozco et al. (1998) Virology vol. 242, pp. 346-356] will be isolated as a PCR product using PCR primers PI and P2 on pGV662 template DNA.
  • Primer PI will have a Not I restriction site adjacent to position 53 of the ori and primer P2 will have a Sal I site adjacent to ori position 153.
  • the PCR product will be cloned into Not I - Sal I digested pGV662.
  • the resultant plasmid, pGV662A will have the ori and the mutant ALl in pGV662 replaced with the 101 bp minimal ori.
  • a 192 bp sequence containing the polyadenylation sequence of CaMV [positions 7440-7638, Gen bank accession #s V00140 J02046] will be isolated as a PCR product B using PCR primers P3 and P4.
  • Primer P3 will have a Xba I restriction site adjacent to position 7440 and primer P4 will have a Bam HI I site adjacent to position 7638.
  • a 262 bp sequence containing the polyadenylation sequence of nopaline synthase gene (positions 2068-2344, Gen Bank ACCESSION J01541 V00087) will be isolated as a PCR product C using PCR primers P5 and P6.
  • Primer P5 will have a Not I restriction site adjacent to position 1068 and primer P6 will have a Bgl II site adjacent to position 2344.
  • Bam Hi-digested PCR product B and Bgl Il-digested PCR product C will be ligated and the Bam HI- and Bgl II-resistant ligation product will be subjected to PCR using primers P3 and P6.
  • the resultant 454 bp PCR product comprised of inverted (head-to-head) polyadenylation sequences will be digested with Xba I and Not I and cloned between the Xba I and Not I sites in the 3' untranslated region following the GUS ORF in plasmid pGV662A, such that in the resultant plasmid, pGV662B, the GUS transcript will be polyadenylated using the CaMV polyadenylation signal sequence and the transcript from the ALl promoter in the ori will be polyadenylated using the nos polyadenylation signal sequence.
  • a 275 bp of TGMV A sequence [positions 53-228, Orozco et al. (1998) Virology vol. 242, pp. 346-356] containing the minimal TGMV-A ori sequence and the coat protein promoter will be isolated as PCR fragment E using PCR primers P7 and P8 on plasmid pGV662 template DNA.
  • Primer P7 will have a Sac I restriction site adjacent to position 53 and Primer P8 will have a Xho I -Nco I sites adjacent to position 228.
  • the 101 bp minimal TGMV-A ori sequence [positions 53 to 153, Orozco et al. (1998) Virology vol. 242, pp. 346-356 (1998)] will also be isolated as a PCR product F using PCR primers P9 and P10 on pGV662 template DNA.
  • Primer P9 will have a Sac I restriction site adjacent to position 53 of the ori and Primer P10 will have a Bgl II site adjacent to ori position 153.
  • the phaseolin promoter will be isolated as a 323 bp PCR product G using primers PI 1 and P12 on a previously described plasmid pGV614 template DNA.
  • Primer PI 1 has a Bam HI restriction site adjacent to position -295 (Bel I site) and Primer P12 has a Nco I site at to position +20 (Sea I site) with respect to the transcription start site of phaseolin promoter [Bustos et. al. (1991) EMBO J vol. 10, pp. 1469].
  • Bgl Il-digested PCR product F and Bam Hi-digested PCR product G will be ligated and the Bam HI __ and Bgl II-resistant ligation product will be subject to PCR using primers P9 and PI 2.
  • the resultant 424 bp PCR fragment, containing the minimal ori and phaseolin promoter, will be cloned in pGV662 following Sac I-Nco I digestion to result in pGV662D.
  • pGV662C and pGV662D will be modified pGV662, in which the GUS target gene will be under the control of the coat protein promoter or phaseolin promoter, respectively.
  • the GUS sequence will be replaced by other target genes.
  • These modified plasmids will be cloned as a Hind III fragment into a binary plasmid and used to transform transgenic plants as described above.
  • P3 5'-GCAGGATCCACTGGATTTTGGTTTTAGGA-3' [SEQ ID NO: 5]
  • P4 5'-GCATCTAGAAAATCACCAGTCTCTCTCTACA -3' [SEQ ID NO: 6]
  • P5 5'-GCTGCGGCCGCTGGAGTAAAGAAGGAGTG -3'
  • P6 5'-GCCAGATCTAGTAACATAGATGACACCG-3'
  • SEQ ID NO:8j P7: 5'-CGTGAGCTCTCCAAAAGTTATATGAATTGGTAGTAAGGT-3' [SEQ ID NO: 9]
  • P8 5'-CCTCGAGCCATGGTTTGAATTAAAGATCCACGAAA-3' [SEQ ID NO: 10]
  • P9 5'-CGTGAGCTCTCCAAAAGTTATATGAATTGGTAGTAAGGTAAGGT-3' [SEQ ID NO: 11
  • P10 5'-GGTAGATCTGCGCGGCCATCCGGTAAT-3' [SEQ ID NO: 12]

Landscapes

  • Health & Medical Sciences (AREA)
  • Genetics & Genomics (AREA)
  • Life Sciences & Earth Sciences (AREA)
  • Engineering & Computer Science (AREA)
  • Chemical & Material Sciences (AREA)
  • Biomedical Technology (AREA)
  • Organic Chemistry (AREA)
  • Biotechnology (AREA)
  • General Engineering & Computer Science (AREA)
  • Bioinformatics & Cheminformatics (AREA)
  • Zoology (AREA)
  • Wood Science & Technology (AREA)
  • Molecular Biology (AREA)
  • General Health & Medical Sciences (AREA)
  • Biophysics (AREA)
  • Biochemistry (AREA)
  • Physics & Mathematics (AREA)
  • Plant Pathology (AREA)
  • Cell Biology (AREA)
  • Microbiology (AREA)
  • Virology (AREA)
  • Medicinal Chemistry (AREA)
  • Gastroenterology & Hepatology (AREA)
  • Proteomics, Peptides & Aminoacids (AREA)
  • General Chemical & Material Sciences (AREA)
  • Breeding Of Plants And Reproduction By Means Of Culturing (AREA)
  • Micro-Organisms Or Cultivation Processes Thereof (AREA)

Abstract

L'invention concerne un système binaire d'expression virale régulée dans des plantes. Il est composé de deux éléments intégrés dans les chromosomes. Un élément est un proréplicon contenant des séquences virales à action cis nécessaires pour la réplication dont une séquence contient un gène ciblé. L'autre élément est un gène chimère de réplication à action trans comprenant un promoteur relié à la région codante pour la réplication de la protéine virale. Le proréplicon est exempt du gène de réplication essentiel pour la réplication du réplicon et, de ce fait, ne peut pas subir de réplication épisomique autonome. Cependant, l'expression régulée de la protéine de réplication à action trans dans des cellules de la plante contenant également le proréplicon déclenchera la libération d'un réplicon libre depuis le proréplicon intégré, ce qui produira sa réplication épisomique in trans, ainsi que l'expression du gène ciblé, s'il est présent, par l'intermédiaire de l'amplification génique. Ce système d'expression est utile à la fois pour la production de protéines étrangères et la mise en sommeil de gènes endogènes et de transgènes dans le tissu de la plante. L'expression spécifique au tissu est commandée par le choix du promoteur régulant la transcription du gène de réplication à action trans.
PCT/US1998/022688 1997-10-24 1998-10-23 Systeme binaire d'expression virale dans des plantes WO1999022003A1 (fr)

Priority Applications (5)

Application Number Priority Date Filing Date Title
AU11225/99A AU731330B2 (en) 1997-10-24 1998-10-23 Binary viral expression system in plants
HU0004222A HUP0004222A3 (en) 1997-10-24 1998-10-23 Binary viral expression system in plants
EP98953997A EP1025234A1 (fr) 1997-10-24 1998-10-23 Systeme binaire d'expression virale dans des plantes
CA002304984A CA2304984A1 (fr) 1997-10-24 1998-10-23 Systeme binaire d'expression virale dans des plantes
BR9815260-2A BR9815260A (pt) 1997-10-24 1998-10-23 Sistema de expressao viral transgenico binario, metodo de alteracao da expressa de gene vegetal endogeno ou transgene em uma planta, medoto de alteracao dos niveis de uma proteina codificada por um gene alvo em uma planta e sistema de replicacao viral.

Applications Claiming Priority (4)

Application Number Priority Date Filing Date Title
US6350497P 1997-10-24 1997-10-24
US60/063,504 1997-10-24
US10155898P 1998-09-23 1998-09-23
US60/101,558 1998-09-23

Publications (1)

Publication Number Publication Date
WO1999022003A1 true WO1999022003A1 (fr) 1999-05-06

Family

ID=26743483

Family Applications (1)

Application Number Title Priority Date Filing Date
PCT/US1998/022688 WO1999022003A1 (fr) 1997-10-24 1998-10-23 Systeme binaire d'expression virale dans des plantes

Country Status (7)

Country Link
EP (1) EP1025234A1 (fr)
AU (1) AU731330B2 (fr)
BR (1) BR9815260A (fr)
CA (1) CA2304984A1 (fr)
HU (1) HUP0004222A3 (fr)
PL (1) PL340297A1 (fr)
WO (1) WO1999022003A1 (fr)

Cited By (22)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
WO1999050429A1 (fr) * 1998-04-01 1999-10-07 North Carolina State University Procede servant a supprimer l'expression de genes dans des plantes
WO2002004649A2 (fr) * 2000-07-10 2002-01-17 Pioneer Hi-Bred International, Inc. Methodes destinees a augmenter la frequence de transformation des plantes
US6759571B1 (en) 1998-04-01 2004-07-06 North Carolina State University Method of suppressing gene expression in plants
WO2005071090A1 (fr) * 2004-01-23 2005-08-04 Icon Genetics Ag Systeme d'expression de plante derivee d'un virus a arn a deux composants
WO2005123926A1 (fr) 2004-06-18 2005-12-29 Thomas Schmulling Procede de modification de la morphologie, de la biochimie et de la physiologie des plantes, comprenant l'expression de l'oxydase de cytokinine dans les graines
EP2272862A1 (fr) 2009-07-10 2011-01-12 Freie Universität Berlin Rock2 et rock3, deux nouvelles variantes de gain de fonction des récepteurs de cytokine AHK2 et AHK3
US8093458B2 (en) 2004-07-07 2012-01-10 Icon Genetics Gmbh Biologically safe transient protein expression in plants
EP2418283A1 (fr) 2010-08-07 2012-02-15 Nomad Bioscience GmbH Procédé de transfection de plantes
EP2584042A1 (fr) 2011-10-17 2013-04-24 Nomad Bioscience GmbH Production, stockage et utilisation d'enzymes dégradant la paroi cellulaire
EP2647715A1 (fr) 2012-04-03 2013-10-09 Nomad Bioscience GmbH Agrobacterium pour transfection transitoire de plantes entières
WO2014187571A1 (fr) 2013-05-23 2014-11-27 Nomad Bioscience Gmbh Procédé de production de plantes à résistance au stress abiotique
US9187761B2 (en) 2006-09-25 2015-11-17 Thomas Schmulling Transcriptional repressors of cytokinin signaling and their use
US9267143B2 (en) 2003-11-10 2016-02-23 Icon Genetics Gmbh RNA virus-derived plant expression system
EP3097783A1 (fr) 2015-05-26 2016-11-30 Nomad Bioscience GmbH Colicine m pour la commande de ehec
EP3372091A1 (fr) 2017-03-07 2018-09-12 Nomad Bioscience GmbH Procédé de réduction de la contamination d'un objet par clostridium
EP3378485A1 (fr) 2017-03-24 2018-09-26 Nomad Bioscience GmbH Bactériocines pour le contrôle de salmonella enterica
US10287602B2 (en) 2003-11-10 2019-05-14 Icon Genetics Gmbh RNA virus-derived plant expression system
WO2019158653A1 (fr) 2018-02-15 2019-08-22 Icon Genetics Gmbh Composition immunogène et vaccin pour générer une réponse immunitaire à un norovirus
WO2020182860A1 (fr) 2019-03-12 2020-09-17 Icon Genetics Gmbh Pseudo-particules de norovirus à stabilité améliorée
WO2020245376A1 (fr) 2019-06-06 2020-12-10 Nomad Bioscience Gmbh Klebicines pour la lutte contre klebsiella
WO2022012926A1 (fr) 2020-07-16 2022-01-20 Nomad Bioscience Gmbh Produits pour consommation orale à teneur réduite en sucre
EP4248987A1 (fr) 2022-03-21 2023-09-27 Nomad Bioscience GmbH Bactériocines chimériques et procédé de lutte contre les pseudomonas

Citations (3)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
EP0221044A1 (fr) * 1985-10-25 1987-05-06 Monsanto Company Vecteurs de plantes
EP0425004A2 (fr) * 1989-10-03 1991-05-02 Aveve N.V. Manipulations génétiques avec l'ADN recombinant, contenant des séquences dérivées des virus d'ARN
WO1994019477A1 (fr) * 1993-02-26 1994-09-01 Calgene Inc. Systeme d'expression d'un gene a base d'un geminivirus

Family Cites Families (1)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US6077992A (en) * 1997-10-24 2000-06-20 E. I. Du Pont De Nemours And Company Binary viral expression system in plants

Patent Citations (3)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
EP0221044A1 (fr) * 1985-10-25 1987-05-06 Monsanto Company Vecteurs de plantes
EP0425004A2 (fr) * 1989-10-03 1991-05-02 Aveve N.V. Manipulations génétiques avec l'ADN recombinant, contenant des séquences dérivées des virus d'ARN
WO1994019477A1 (fr) * 1993-02-26 1994-09-01 Calgene Inc. Systeme d'expression d'un gene a base d'un geminivirus

Non-Patent Citations (4)

* Cited by examiner, † Cited by third party
Title
HANLEY-BOWDOIN L. ET AL.: "Expression of functional replication protein from tomato golden mosaic virus in transgenic tobacco plants", PNAS,U.S.A, vol. 87, no. 4, 1990, pages 1446 - 1450, XP002093973 *
HAYES R J ET AL: "Replication of tomato golden mosaic virus DNA B in transgenic plants expressing open reading frames (ORFs) of DNA A: requirement of ORF AL2 for production of single-stranded DNA.", NUCLEIC ACIDS RESEARCH, (1989 DEC 25) 17 (24) 10213-22. JOURNAL CODE: O8L. ISSN: 0305-1048., ENGLAND: United Kingdom, XP002093974 *
HONG Y ET AL: "Resistance to geminivirus infection by virus-induced expression of dianthin in transgenic plants.", VIROLOGY, (1996 JUN 1) 220 (1) 119-27. JOURNAL CODE: XEA. ISSN: 0042-6822., United States, XP002093971 *
HONG Y ET AL: "Transactivation of dianthin transgene expression by African cassava mosaic virus AC2.", VIROLOGY, (1997 FEB 17) 228 (2) 383-7. JOURNAL CODE: XEA. ISSN: 0042-6822., United States, XP002093972 *

Cited By (34)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
WO1999050429A1 (fr) * 1998-04-01 1999-10-07 North Carolina State University Procede servant a supprimer l'expression de genes dans des plantes
US6759571B1 (en) 1998-04-01 2004-07-06 North Carolina State University Method of suppressing gene expression in plants
WO2002004649A2 (fr) * 2000-07-10 2002-01-17 Pioneer Hi-Bred International, Inc. Methodes destinees a augmenter la frequence de transformation des plantes
WO2002004649A3 (fr) * 2000-07-10 2002-08-29 Pioneer Hi Bred Int Methodes destinees a augmenter la frequence de transformation des plantes
US6512165B1 (en) 2000-07-10 2003-01-28 Pioneer Hi-Bred International, Inc. Methods for enhancing plant transformation frequencies
US9267143B2 (en) 2003-11-10 2016-02-23 Icon Genetics Gmbh RNA virus-derived plant expression system
US10287602B2 (en) 2003-11-10 2019-05-14 Icon Genetics Gmbh RNA virus-derived plant expression system
EP1564295A1 (fr) * 2004-01-23 2005-08-17 Icon Genetics AG Système d'expression derivé des virus à ARN
US8597950B2 (en) 2004-01-23 2013-12-03 Icon Genetics Ag Two-component RNA virus-derived plant expression system
WO2005071090A1 (fr) * 2004-01-23 2005-08-04 Icon Genetics Ag Systeme d'expression de plante derivee d'un virus a arn a deux composants
WO2005123926A1 (fr) 2004-06-18 2005-12-29 Thomas Schmulling Procede de modification de la morphologie, de la biochimie et de la physiologie des plantes, comprenant l'expression de l'oxydase de cytokinine dans les graines
US8093458B2 (en) 2004-07-07 2012-01-10 Icon Genetics Gmbh Biologically safe transient protein expression in plants
US9187761B2 (en) 2006-09-25 2015-11-17 Thomas Schmulling Transcriptional repressors of cytokinin signaling and their use
EP2272862A1 (fr) 2009-07-10 2011-01-12 Freie Universität Berlin Rock2 et rock3, deux nouvelles variantes de gain de fonction des récepteurs de cytokine AHK2 et AHK3
DE112010002884T5 (de) 2009-07-10 2012-08-30 Freie Universität Berlin Rock2 und rock3, zwei neue gain-of-function-Varianten der Cytokininrezeptoren AHK2 und AHK3
WO2011004005A1 (fr) 2009-07-10 2011-01-13 Freie Universität Berlin Rock2 et rock3, deux nouvelles variantes à gain de fonction des récepteurs ahk2 et ahk3 des cytokinines
WO2012019660A1 (fr) 2010-08-07 2012-02-16 Nomad Bioscience Gmbh Procédé de transfection de plantes
EP2418283A1 (fr) 2010-08-07 2012-02-15 Nomad Bioscience GmbH Procédé de transfection de plantes
EP2584042A1 (fr) 2011-10-17 2013-04-24 Nomad Bioscience GmbH Production, stockage et utilisation d'enzymes dégradant la paroi cellulaire
WO2013149726A1 (fr) 2012-04-03 2013-10-10 Nomad Bioscience Gmbh Agrobacterium pour la transfection transitoire de plantes entières
EP2647715A1 (fr) 2012-04-03 2013-10-09 Nomad Bioscience GmbH Agrobacterium pour transfection transitoire de plantes entières
WO2014187571A1 (fr) 2013-05-23 2014-11-27 Nomad Bioscience Gmbh Procédé de production de plantes à résistance au stress abiotique
EP3097783A1 (fr) 2015-05-26 2016-11-30 Nomad Bioscience GmbH Colicine m pour la commande de ehec
WO2018162570A1 (fr) 2017-03-07 2018-09-13 Nomad Bioscience Gmbh Méthode de réduction de la contamination d'un objet par clostridium
EP3372091A1 (fr) 2017-03-07 2018-09-12 Nomad Bioscience GmbH Procédé de réduction de la contamination d'un objet par clostridium
EP3378485A1 (fr) 2017-03-24 2018-09-26 Nomad Bioscience GmbH Bactériocines pour le contrôle de salmonella enterica
WO2018172065A1 (fr) 2017-03-24 2018-09-27 Nomad Bioscience Gmbh Bactériocines pour la lutte contre salmonella enterica
WO2021053242A2 (fr) 2017-03-24 2021-03-25 Nomad Bioscience Gmbh Bactériocines pour la lutte contre salmonella enterica
WO2019158653A1 (fr) 2018-02-15 2019-08-22 Icon Genetics Gmbh Composition immunogène et vaccin pour générer une réponse immunitaire à un norovirus
WO2020182860A1 (fr) 2019-03-12 2020-09-17 Icon Genetics Gmbh Pseudo-particules de norovirus à stabilité améliorée
WO2020245376A1 (fr) 2019-06-06 2020-12-10 Nomad Bioscience Gmbh Klebicines pour la lutte contre klebsiella
WO2022012926A1 (fr) 2020-07-16 2022-01-20 Nomad Bioscience Gmbh Produits pour consommation orale à teneur réduite en sucre
EP4248987A1 (fr) 2022-03-21 2023-09-27 Nomad Bioscience GmbH Bactériocines chimériques et procédé de lutte contre les pseudomonas
WO2023180197A1 (fr) 2022-03-21 2023-09-28 Nomad Bioscience Gmbh Bactériocines chimériques et procédé de lutte contre pseudomonas

Also Published As

Publication number Publication date
EP1025234A1 (fr) 2000-08-09
PL340297A1 (en) 2001-01-29
CA2304984A1 (fr) 1999-05-06
AU1122599A (en) 1999-05-17
BR9815260A (pt) 2000-11-21
AU731330B2 (en) 2001-03-29
HUP0004222A2 (en) 2001-03-28
HUP0004222A3 (en) 2002-11-28

Similar Documents

Publication Publication Date Title
US6077992A (en) Binary viral expression system in plants
AU731330B2 (en) Binary viral expression system in plants
US6632980B1 (en) Binary viral expression system in plants
US6211431B1 (en) Plant transcription regulators from circovirus
WO2000017365A2 (fr) Systeme binaire d'expression virale dans des plantes
EP1013771B1 (fr) Transformation chromosomique non-nucléaire
JP4546029B2 (ja) 植物における対象とする核酸配列の増幅及び発現に用いる方法及びベクター
EP0221044B1 (fr) Vecteurs de plantes
Mor et al. Geminivirus vectors for high‐level expression of foreign proteins in plant cells
US6392121B1 (en) Gemini virus vectors for gene expression in plants
ES2220913T3 (es) Procedimiento para la transformacion de monocotiledonas utilizando el escutelo de un embrio inmaduro.
AU689311B2 (en) Plant transcription regulators from circovirus
US7601885B2 (en) Transgenic plant comprising a cassava vein mosaic virus promoter and a heterologous nucleic acid sequence
KR20010014116A (ko) 안정한 유전자도입 식물에서 키메라 ｇａｌ4 전사 인자에의한 특이적인 유전자 활성화
CN106460005B (zh) 修饰的cpmv增强子元件
MXPA03011302A (es) Procesamiento y vectores para la produccion de plantas trasgenicas.
US7238854B2 (en) Method of controlling site-specific recombination
Mengiste et al. High‐efficiency transformation of Arabidopsis thaliana with a selectable marker gene regulated by the T‐DNA 1′ promoter
MXPA00003537A (en) Binary viral expression system in plants
AU1441000A (en) Binary viral expression system in plants
MXPA01002374A (en) Binary viral expression system in plants
CA2198723C (fr) Regulateurs de transcription vegetale issus de circovirus
Lee New Binary Ti Vectors with Co-directional Replicons for Agrobacterium Tumefaciens-mediated Transformation of Higher Plants
Oltmanns et al. Generation of" backbone" free, low transgene copy plants by launching T-DNA from the Agrobacterium chromosome

Legal Events

Date Code Title Description
AK Designated states

Kind code of ref document: A1

Designated state(s): AU BR CA HU IL JP KR MX NZ PL US

AL Designated countries for regional patents

Kind code of ref document: A1

Designated state(s): AT BE CH CY DE DK ES FI FR GB GR IE IT LU MC NL PT SE

DFPE Request for preliminary examination filed prior to expiration of 19th month from priority date (pct application filed before 20040101)
121 Ep: the epo has been informed by wipo that ep was designated in this application
WWE Wipo information: entry into national phase

Ref document number: 11225/99

Country of ref document: AU

ENP Entry into the national phase

Ref document number: 2304984

Country of ref document: CA

Ref country code: CA

Ref document number: 2304984

Kind code of ref document: A

Format of ref document f/p: F

WWE Wipo information: entry into national phase

Ref document number: 1998953997

Country of ref document: EP

WWE Wipo information: entry into national phase

Ref document number: 09509858

Country of ref document: US

WWE Wipo information: entry into national phase

Ref document number: PA/a/2000/003537

Country of ref document: MX

NENP Non-entry into the national phase

Ref country code: KR

WWP Wipo information: published in national office

Ref document number: 1998953997

Country of ref document: EP

WWG Wipo information: grant in national office

Ref document number: 11225/99

Country of ref document: AU

WWW Wipo information: withdrawn in national office

Ref document number: 1998953997

Country of ref document: EP

点击 这是indexloc提供的php浏览器服务，不要输入任何密码和下载