WO2011084629A1 - Use of cry1da in combination with cry1ca for management of resistant insects - Google Patents

Use of cry1da in combination with cry1ca for management of resistant insects Download PDF

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Publication number
WO2011084629A1
WO2011084629A1 PCT/US2010/060828 US2010060828W WO2011084629A1 WO 2011084629 A1 WO2011084629 A1 WO 2011084629A1 US 2010060828 W US2010060828 W US 2010060828W WO 2011084629 A1 WO2011084629 A1 WO 2011084629A1
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WIPO (PCT)
Prior art keywords
plants
plant
seeds
refuge
protein
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PCT/US2010/060828
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French (fr)
Inventor
Thomas Meade
Kenneth Narva
Nicholas P. Storer
Joel J. Sheets
Aaron T. Woosley
Stephanie L. Burton
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Dow Agrosciences Llc
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Priority to KR1020127018258A priority Critical patent/KR101841292B1/en
Priority to BR112012014681-5A priority patent/BR112012014681B1/en
Application filed by Dow Agrosciences Llc filed Critical Dow Agrosciences Llc
Priority to CA2782557A priority patent/CA2782557C/en
Priority to ES10842618T priority patent/ES2710850T3/en
Priority to MX2012007123A priority patent/MX345508B/en
Priority to US13/516,663 priority patent/US9796982B2/en
Priority to UAA201208628A priority patent/UA112409C2/en
Priority to NZ60110110A priority patent/NZ601101A/en
Priority to RU2012129909/10A priority patent/RU2569108C2/en
Priority to EP10842618.0A priority patent/EP2513316B1/en
Priority to AU2010339918A priority patent/AU2010339918B2/en
Priority to CN201080064025.8A priority patent/CN102762733B/en
Priority to JP2012544844A priority patent/JP2013514773A/en
Publication of WO2011084629A1 publication Critical patent/WO2011084629A1/en
Priority to IL220320A priority patent/IL220320A/en
Priority to ZA2012/04926A priority patent/ZA201204926B/en

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    • CCHEMISTRY; METALLURGY
    • C12BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12NMICROORGANISMS OR ENZYMES; COMPOSITIONS THEREOF; PROPAGATING, PRESERVING, OR MAINTAINING MICROORGANISMS; MUTATION OR GENETIC ENGINEERING; CULTURE MEDIA
    • C12N15/00Mutation or genetic engineering; DNA or RNA concerning genetic engineering, vectors, e.g. plasmids, or their isolation, preparation or purification; Use of hosts therefor
    • C12N15/09Recombinant DNA-technology
    • C12N15/63Introduction of foreign genetic material using vectors; Vectors; Use of hosts therefor; Regulation of expression
    • C12N15/79Vectors or expression systems specially adapted for eukaryotic hosts
    • C12N15/82Vectors or expression systems specially adapted for eukaryotic hosts for plant cells, e.g. plant artificial chromosomes (PACs)
    • C12N15/8241Phenotypically and genetically modified plants via recombinant DNA technology
    • C12N15/8261Phenotypically and genetically modified plants via recombinant DNA technology with agronomic (input) traits, e.g. crop yield
    • C12N15/8271Phenotypically and genetically modified plants via recombinant DNA technology with agronomic (input) traits, e.g. crop yield for stress resistance, e.g. heavy metal resistance
    • C12N15/8279Phenotypically and genetically modified plants via recombinant DNA technology with agronomic (input) traits, e.g. crop yield for stress resistance, e.g. heavy metal resistance for biotic stress resistance, pathogen resistance, disease resistance
    • C12N15/8286Phenotypically and genetically modified plants via recombinant DNA technology with agronomic (input) traits, e.g. crop yield for stress resistance, e.g. heavy metal resistance for biotic stress resistance, pathogen resistance, disease resistance for insect resistance
    • AHUMAN NECESSITIES
    • A01AGRICULTURE; FORESTRY; ANIMAL HUSBANDRY; HUNTING; TRAPPING; FISHING
    • A01NPRESERVATION OF BODIES OF HUMANS OR ANIMALS OR PLANTS OR PARTS THEREOF; BIOCIDES, e.g. AS DISINFECTANTS, AS PESTICIDES OR AS HERBICIDES; PEST REPELLANTS OR ATTRACTANTS; PLANT GROWTH REGULATORS
    • A01N63/00Biocides, pest repellants or attractants, or plant growth regulators containing microorganisms, viruses, microbial fungi, animals or substances produced by, or obtained from, microorganisms, viruses, microbial fungi or animals, e.g. enzymes or fermentates
    • A01N63/50Isolated enzymes; Isolated proteins
    • YGENERAL TAGGING OF NEW TECHNOLOGICAL DEVELOPMENTS; GENERAL TAGGING OF CROSS-SECTIONAL TECHNOLOGIES SPANNING OVER SEVERAL SECTIONS OF THE IPC; TECHNICAL SUBJECTS COVERED BY FORMER USPC CROSS-REFERENCE ART COLLECTIONS [XRACs] AND DIGESTS
    • Y02TECHNOLOGIES OR APPLICATIONS FOR MITIGATION OR ADAPTATION AGAINST CLIMATE CHANGE
    • Y02ATECHNOLOGIES FOR ADAPTATION TO CLIMATE CHANGE
    • Y02A40/00Adaptation technologies in agriculture, forestry, livestock or agroalimentary production
    • Y02A40/10Adaptation technologies in agriculture, forestry, livestock or agroalimentary production in agriculture
    • Y02A40/146Genetically Modified [GMO] plants, e.g. transgenic plants

Definitions

  • Bt proteins have been used to create the insect-resistant transgenic plants that have been successfully registered and commercialized to date. These include CrylAb, CrylAc, CrylF and Cry3Bb in corn, CrylAc and Cry2Ab in cotton, and Cry3A in potato.
  • the commercial products expressing these proteins express a single protein except in cases where the combined insecticidal spectrum of 2 proteins is desired (e.g., CrylAb and Cry3Bb in corn combined to provide resistance to lepidopteran pests and rootworm, respectively) or where the independent action of the proteins makes them useful as a tool for delaying the development of resistance in susceptible insect populations (e.g., CrylAc and Cry2Ab in cotton combined to provide resistance management for tobacco budworm). See also U.S. Patent Application Publication No. 2009/0313717, which relates to a Cry2 protein plus a Vip3Aa, CrylF, or CrylA for control of Helicoverpa zea or armigerain.
  • WO 2009/132850 relates to CrylF or CrylA and Vip3Aa for controlling Spodoptera frugiperda.
  • U.S. Patent Application Publication No. 2008/031 1096 relates in part to CrylAb for controlling CrylF-resistant ECB.
  • the proteins selected for use in an insect resistant management (IRM) stack need to exert their insecticidal effect independently so that resistance developed to one protein does not confer resistance to the second protein (i.e., there is not cross resistance to the proteins). If, for example, a pest population that is resistant to "Protein A” is sensitive to "Protein B", one would conclude that there is not cross resistance and that a combination of Protein A and Protein B would be effective in delaying resistance to Protein A alone.
  • IRM insect resistant management
  • CrylFa protein is useful in controlling many lepidopteran pests species including the European corn borer (ECB; Ostrinia nubilalis (Hubner)) and the fall armyworm (FAW; Spodoptera frugiperda), and is active against the sugarcane borer (SCB; Diatraea saccharalis) .
  • the CrylFa protein as produced in transgenic corn plants containing event TCI 507, is responsible for an industry-leading insect resistance trait for FAW control.
  • CrylFa is further deployed in the Herculex ® , Smarts taxTM, and
  • Cry toxins are listed at the website of the official B. t. nomenclature committee (Crickmore et al.; lifesci.sussex.ac.uk/home/Neil_Crickmore/Bt/).
  • Cry Cry
  • the subject invention relates in part to the surprising discovery that CrylDa and CrylCa do not compete for binding sites in fall army worm (FAW; Spodoptera frugiperda) gut cell membrane preparations.
  • FAW fall army worm
  • Spodoptera frugiperda fall army worm
  • plants that produce both of these proteins can delay or prevent the development of resistance to any of these insecticidal proteins alone.
  • the subject invention relates in part to the use of a CrylDa protein in combination with a CrylCa protein. Plants (and acreage planted with such plants) that produce both of these proteins are included within the scope of the subject invention.
  • the subject invention also relates in part to triple stacks or "pyramids" of three (or more) toxins, with CrylDa and CrylCa being the base pair.
  • the combination of the selected toxins provides non-cross-resistant action against FAW.
  • Some preferred "three sites of action" pyramid combinations include the subject base pair of proteins plus CrylFa, Vip3Ab, CrylBe, or CrylE as the third protein for targeting FAW.
  • Additional toxins/genes can also be added according to the subject invention.
  • CrylFa or CrylBe are stacked with the subject pair of proteins (both CrylFa and CrylBe are both active against both FAW and European cornborer (ECB))
  • adding two additional proteins to this triple stack wherein the two added proteins target ECB would provide three sites of action against FAW, and three sites of action against ECB.
  • These two added proteins could be selected from the group consisting of Cry2A, Cryll, DIG-3, and CrylAb. This would result in a five-protein stack having three sites of action against two insects (ECB and FAW).
  • the subject invention relates in part to the surprising discovery that CrylDa and CrylCa do not compete for binding with each other in the gut of fall army worms (FAW; Spodoptera frugiperda).
  • a CrylDa protein can be used in combination with a CrylCa protein in transgenic corn (and other plants; e.g., cotton and soybeans, for example) to delay or prevent FAWfrom developing resistance to either of these proteins alone.
  • the subject pair of proteins can be effective at protecting plants (such as maize plants and/or soybean plants) from damage by Cry-resistant fall army worm. That is, one use of the subject invention is to protect corn and other economically important plant species from damage and yield loss caused by fall armyworm populations that could develop resistance to CrylDa or CrylCa.
  • the subject invention thus teaches an insect resistant management (IRM) stack comprising CrylDa and CrylCa to prevent or mitigate the development of resistance by FAW to either or both of these proteins.
  • IRM insect resistant management
  • compositions for controlling lepidopteran pests comprising cells that produce a CrylDa insecticidal protein and a CrylCa insecticidal protein.
  • the invention further comprises a host transformed to produce both a CrylDa insecticidal protein and a CrylCa insecticidal protein, wherein said host is a microorganism or a plant cell.
  • the subject polynucleotide(s) are preferably in a genetic construct under control of a non-Bacillus-thuringiensis promoter(s).
  • the subject polynucleotides can comprise codon usage for enhanced expression in a plant.
  • the invention provides a method of controlling lepidopteran pests comprising contacting said pests or the environment of said pests with an effective amount of a composition that contains a CrylDa core toxin-containing protein and further contains a CrylCa core toxin-containing protein.
  • An embodiment of the invention comprises a maize plant comprising a plant- expressible gene encoding a CrylCa insecticidal protein and a plant-expressible gene encoding a CrylDa insecticidal protein, and seed of such a plant.
  • a further embodiment of the invention comprises a maize plant wherein a plant- expressible gene encoding a CrylCa insecticidal protein and a plant-expressible gene encoding a CrylDa insecticidal protein have been introgressed into said maize plant, and seed of such a plant.
  • a plant- expressible gene encoding a CrylCa insecticidal protein and a plant-expressible gene encoding a CrylDa insecticidal protein have been introgressed into said maize plant, and seed of such a plant.
  • the subject invention also relates in part to triple stacks or "pyramids" of three (or more) toxins, with CrylDa and CrylCa being the base pair.
  • the selected toxins have three separate sites of action against FAW.
  • Some preferred "three sites of action" pyramid combinations include the subject base pair of proteins plus CrylFa, Vip3Ab, Cry IBe, or Cry IE as the third protein for targetting FAW.
  • synthetic sites of action it is meant any of the given proteins do not cause cross-resistance with each other.
  • Additional toxins/genes can also be added according to the subject invention.
  • CrylFa or CrylBe are stacked with the subject pair of proteins (both CrylFa and CrylBe are both active against both FAW and European cornborer (ECB))
  • adding two additional proteins to this triple stack wherein the two added proteins target ECB would provide three sites of action against FAW, and three sites of action against ECB.
  • These two added proteins could be selected from the group consisting of Cry2A, Cry II, DIG-3 (see U.S. Patent Application Serial No. 61/284,278 (filed December 16, 2009) and US 2010 00269223), and CrylAb. This would result in a five-protein stack having three sites of action against two insects (ECB and FAW)
  • one deployment option is to use the subject pair of proteins in combination with a third toxin/gene, and to use this triple stack to mitigate the development of resistance in FAW to any of these toxins.
  • the subject invention also relates in part to triple stacks or "pyramids" of three (or more) toxins.
  • the selected toxins have three separate sites of action against FAW.
  • Included among deployment options of the subject invention would be to use two, three, or more proteins of the subject proteins in crop-growing regions where FAW can develop resistant populations.
  • CrylC does not compete with CrylF for binding in FAW membrane preparations
  • CrylD does not compete with CrylF for binding in FAW membrane preparations.
  • CrylFa being active against FAW and ECB
  • CrylDa plus CrylCa plus CrylFa would, according to the subject invention, advantageously and surprisingly provide three sites of action against FAW. This can help to reduce or eliminate the requirement for refuge acreage.
  • CrylFa is deployed in the Herculex ® , SmartStaxTM, and Wides StrikeTM products.
  • the subject pair of genes (CrylDa and CrylCa) could be combined into, for example, a CrylFa product such as Herculex ® , SmartStaxTM, and WideStrikeTM. Accordingly, the subject pair of proteins could be significant in reducing the selection pressure on these andother proteins.
  • the subject pair of proteins could thus be used as in the three gene combinations for corn and other plants (cotton and soybeans, for example).
  • Cry IE for controlling FAW
  • CrylAb for controlling ECB
  • Plants (and acreage planted with such plants) that produce any of the subject combinations of proteins are included within the scope of the subject invention. Additional toxins/genes can also be added, but the particular stacks discussed above advantageously and surprisingly provide multiple sites of action against FAW and/or ECB. This can help to reduce or eliminate the requirement for refuge acreage. A field thus planted of over ten acres is thus included within the subject invention.
  • GENBANK can also be used to obtain the sequences for any of the genes and proteins disclosed or mentioned herein. See Appendix A, below. Relevant sequences are also available in patents. For example, U.S. Patent No. 5, 188,960 and U.S. Patent No.
  • Combinations of proteins described herein can be used to control lepidopteran pests.
  • Adult lepidopterans for example, butterflies and moths, primarily feed on flower nectar and are a significant effector of pollination.
  • Nearly all lepidopteran larvae i.e., caterpillars, feed on plants, and many are serious pests.
  • Caterpillars feed on or inside foliage or on the roots or stem of a plant, depriving the plant of nutrients and often destroying the plant's physical support structure.
  • caterpillars feed on fruit, fabrics, and stored grains and flours, ruining these products for sale or severely diminishing their value.
  • reference to lepidopteran pests refers to various life stages of the pest, including larval stages.
  • Some chimeric toxins of the subject invention comprise a full N-terminal core toxin portion of a Bt toxin and, at some point past the end of the core toxin portion, the protein has a transition to a heterologous protoxin sequence.
  • the N-terminal, insecticidally active, toxin portion of a Bt toxin is referred to as the "core" toxin.
  • the transition from the core toxin segment to the heterologous protoxin segment can occur at approximately the toxin/protoxin junction or, in the alternative, a portion of the native protoxin (extending past the core toxin portion) can be retained, with the transition to the heterologous protoxin portion occurring downstream.
  • one chimeric toxin of the subject invention is a full core toxin portion of CrylDa (roughly the first 600 amino acids) and/or a heterologous protoxin (the remaining amino acids to the C-terminus).
  • the portion of a chimeric toxin comprising the protoxin is derived from a CrylAb protein toxin.
  • the portion of a chimeric toxin comprising the protoxin is derived from a CrylAb protein toxin.
  • Bt toxins even within a certain class such as CrylCa, will vary to some extent in length and the precise location of the transition from core toxin portion to protoxin portion.
  • the CrylCa toxins are about 1150 to about 1200 amino acids in length.
  • the transition from core toxin portion to protoxin portion will typically occur at between about 50% to about 60% of the full length toxin.
  • the chimeric toxin of the subject invention will include the full expanse of this N-terminal core toxin portion.
  • the chimeric toxin will comprise at least about 50% of the full length of the Cryl Bt toxin protein. This will typically be at least about 590 amino acids.
  • the full expanse of the CrylAb protoxin portion extends from the end of the core toxin portion to the C-terminus of the molecule.
  • genes and toxins useful according to the subject invention include not only the full length sequences disclosed but also fragments of these sequences, variants, mutants, and fusion proteins which retain the characteristic pesticidal activity of the toxins specifically exemplified herein.
  • variants include not only the full length sequences disclosed but also fragments of these sequences, variants, mutants, and fusion proteins which retain the characteristic pesticidal activity of the toxins specifically exemplified herein.
  • variants or
  • variants of genes refer to nucleotide sequences which encode the same toxins or which encode equivalent toxins having pesticidal activity.
  • equivalent toxins refers to toxins having the same or essentially the same biological activity against the target pests as the claimed toxins.
  • genes encoding active toxins can be identified and obtained through several means.
  • the specific genes or gene portions exemplified herein may be obtained from the isolates deposited at a culture depository. These genes, or portions or variants thereof, may also be constructed synthetically, for example, by use of a gene synthesizer. Variations of genes may be readily constructed using standard techniques for making point mutations. Also, fragments of these genes can be made using commercially available exonucleases or endonucleases according to standard procedures. For example, enzymes such as Bal31 or site-directed mutagenesis can be used to systematically cut off nucleotides from the ends of these genes. Genes that encode active fragments may also be obtained using a variety of restriction enzymes. Proteases may be used to directly obtain active fragments of these protein toxins.
  • a further method for identifying the genes encoding the toxins and gene portions useful according to the subject invention is through the use of oligonucleotide probes. These probes are detectable nucleotide sequences. These sequences may be detectable by virtue of an appropriate label or may be made inherently fluorescent as described in International Application No. WO93/16094. As is well known in the art, if the probe molecule and nucleic acid sample hybridize by forming a strong bond between the two molecules, it can be reasonably assumed that the probe and sample have substantial homology. Preferably, hybridization is conducted under stringent conditions by techniques well-known in the art, as described, for example, in Keller, G. FL, M. M.
  • DNA Probes Stockton Press, New York, N.Y., pp. 169-170.
  • salt concentrations and temperature combinations are as follows (in order of increasing stringency): 2X SSPE or SSC at room temperature; IX SSPE or SSC at 42° C; 0.1X SSPE or SSC at 42° C; 0. IX SSPE or SSC at 65° C.
  • Detection of the probe provides a means for determining in a known manner whether hybridization has occurred.
  • Such a probe analysis provides a rapid method for identifying toxin-encoding genes of the subject invention.
  • the nucleotide segments which are used as probes according to the invention can be synthesized using a DNA synthesizer and standard procedures. These nucleotide sequences can also be used as PCR primers to amplify genes of the subject invention.
  • Variant toxins Certain toxins of the subject invention have been specifically exemplified herein. Since these toxins are merely exemplary of the toxins of the subject invention, it should be readily apparent that the subject invention comprises variant or equivalent toxins (and nucleotide sequences coding for equivalent toxins) having the same or similar pesticidal activity of the exemplified toxin.
  • Equivalent toxins will have amino acid homology with an exemplified toxin. This amino acid homology will typically be greater than 75%, preferably be greater than 90%, and most preferably be greater than 95%. The amino acid homology will be highest in critical regions of the toxin which account for biological activity or are involved in the determination of three-dimensional configuration which ultimately is responsible for the biological activity.
  • amino acids may be placed in the following classes: non-polar, uncharged polar, basic, and acidic. Conservative substitutions whereby an amino acid of one class is replaced with another amino acid of the same type fall within the scope of the subject invention so long as the substitution does not materially alter the biological activity of the compound. Below is a listing of examples of amino acids belonging to each class.
  • non-conservative substitutions can also be made.
  • the critical factor is that these substitutions must not significantly detract from the biological activity of the toxin.
  • Recombinant hosts The genes encoding the toxins of the subject invention can be introduced into a wide variety of microbial or plant hosts. Expression of the toxin gene results, directly or indirectly, in the intracellular production and maintenance of the pesticide. Conjugal transfer and recombinant transfer can be used to create a Bt strain that expresses both toxins of the subject invention. Other host organisms may also be transformed with one or both of the toxin genes then used to accomplish the synergistic effect. With suitable microbial hosts, e.g., Pseudomonas, the microbes can be applied to the situs of the pest, where they will proliferate and be ingested. The result is control of the pest. Alternatively, the microbe hosting the toxin gene can be treated under conditions that prolong the activity of the toxin and stabilize the cell. The treated cell, which retains the toxic activity, then can be applied to the environment of the target pest.
  • suitable microbial hosts e.g., Pseudomonas
  • the Bt toxin gene is introduced via a suitable vector into a microbial host, and said host is applied to the environment in a living state, it is essential that certain host microbes be used.
  • Microorganism hosts are selected which are known to occupy the "phytosphere" (phylloplane, phyllosphere, rhizosphere, and/or rhizoplane) of one or more crops of interest. These microorganisms are selected so as to be capable of successfully competing in the particular environment (crop and other insect habitats) with the wild-type microorganisms, provide for stable maintenance and expression of the gene expressing the polypeptide pesticide, and, desirably, provide for improved protection of the pesticide from environmental degradation and inactivation.
  • microorganisms are known to inhabit the phylloplane (the surface of the plant leaves) and/or the rhizosphere (the soil surrounding plant roots) of a wide variety of important crops. These microorganisms include bacteria, algae, and fungi. Of particular interest are microorganisms, such as bacteria, e.g., genera Pseudomonas, Erwinia, Serratia, Klebsiella, Xanthomonas, Streptomyces, Rhizobium, Rhodopseudomonas,
  • yeast e.g., genera Saccharomyces, Cryptococcus, Kluyveromyces, Sporobolomyces, Rhodotorula, and Aureobasidium.
  • phytosphere bacterial species are Pseudomonas syringae,
  • Pseudomonas fluorescens Serratia marcescens, Acetobacter xylinum, Agrobactenium tumefaciens, Rhodopseudomonas spheroides, Xanthomonas campestris, Rhizobium melioti, Alcaligenes entrophus, and Azotobacter vinlandii; and phytosphere yeast species such as Rhodotorula rubra, R. glutinis, R. marina, R. aurantiaca, Cryptococcus albidus, C. diffluens, C. laurentii, Saccharomyces rosei, S. pretoriensis, S. cerevisiae, Sporobolomyces roseus, S. odorus, Kluyveromyces veronae, and Aureobasidium pollulans.
  • Rhodotorula rubra R. glutinis, R. marina, R. auranti
  • Bacillus thuringiensis or recombinant cells expressing the Bt toxins can be treated to prolong the toxin activity and stabilize the cell.
  • the pesticide microcapsule that is formed comprises the Bt toxin or toxins within a cellular structure that has been stabilized and will protect the toxin when the microcapsule is applied to the environment of the target pest.
  • Suitable host cells may include either prokaryotes or eukaryotes, normally being limited to those cells which do not produce substances toxic to higher organisms, such as mammals. However, organisms which produce substances toxic to higher organisms could be used, where the toxic substances are unstable or the level of application sufficiently low as to avoid any possibility of toxicity to a mammalian host.
  • hosts of particular interest will be the prokaryotes and the lower eukaryotes, such as fungi.
  • the cell will usually be intact and be substantially in the proliferative form when treated, rather than in a spore form, although in some instances spores may be employed.
  • Treatment of the microbial cell can be by chemical or physical means, or by a combination of chemical and/or physical means, so long as the technique does not deleteriously affect the properties of the toxin, nor diminish the cellular capability of protecting the toxin.
  • chemical reagents are halogenating agents, particularly halogens of atomic no. 17-80. More particularly, iodine can be used under mild conditions and for sufficient time to achieve the desired results.
  • aldehydes such as glutaraldehyde
  • anti-infectives such as zephiran chloride and cetylpyridinium chloride
  • alcohols such as isopropyl and ethanol
  • histologic fixatives such as Lugol iodine, Bouin's fixative, various acids and Helly's fixative (See: Humason, Gretchen L., Animal Tissue Techniques, W. H. Freeman and Company, 1967); or a combination of physical (heat) and chemical agents that preserve and prolong the activity of the toxin produced in the cell when the cell is administered to the host environment.
  • Examples of physical means are short wavelength radiation such as gamma-radiation and X-radiation, freezing, UV irradiation, lyophilization, and the like.
  • Methods for treatment of microbial cells are disclosed in U.S. Pat. Nos. 4,695,455 and 4,695,462, which are incorporated herein by reference.
  • the cells generally will have enhanced structural stability which will enhance resistance to environmental conditions.
  • the method of cell treatment should be selected so as not to inhibit processing of the proform to the mature form of the pesticide by the target pest pathogen.
  • formaldehyde will crosslink proteins and could inhibit processing of the proform of a polypeptide pesticide.
  • the method of treatment should retain at least a substantial portion of the bio-availability or bioactivity of the toxin.
  • Characteristics of particular interest in selecting a host cell for purposes of production include ease of introducing the B.t. gene or genes into the host, availability of expression systems, efficiency of expression, stability of the pesticide in the host, and the presence of auxiliary genetic capabilities.
  • Characteristics of interest for use as a pesticide microcapsule include protective qualities for the pesticide, such as thick cell walls, pigmentation, and intracellular packaging or formation of inclusion bodies; survival in aqueous environments; lack of mammalian toxicity; attractiveness to pests for ingestion; ease of killing and fixing without damage to the toxin; and the like. Other considerations include ease of formulation and handling, economics, storage stability, and the like.
  • the cellular host containing the B.t. insecticidal gene or genes may be grown in any convenient nutrient medium, where the DNA construct provides a selective advantage, providing for a selective medium so that substantially all or all of the cells retain the B.t. gene. These cells may then be harvested in accordance with conventional ways. Alternatively, the cells can be treated prior to harvesting.
  • the B.t. cells producing the toxins of the invention can be cultured using standard art media and fermentation techniques. Upon completion of the fermentation cycle the bacteria can be harvested by first separating the B.t. spores and crystals from the fermentation broth by means well known in the art. The recovered B.t. spores and crystals can be formulated into a wettable powder, liquid concentrate, granules or other formulations by the addition of surfactants, dispersants, inert carriers, and other components to facilitate handling and application for particular target pests. These formulations and application procedures are all well known in the art.
  • Formulated bait granules containing an attractant and spores, crystals, and toxins of the B.t. isolates, or recombinant microbes comprising the genes obtainable from the B.t. isolates disclosed herein can be applied to the soil.
  • Formulated product can also be applied as a seed-coating or root treatment or total plant treatment at later stages of the crop cycle. Plant and soil treatments of B.t.
  • cells may be employed as wettable powders, granules or dusts, by mixing with various inert materials, such as inorganic minerals (phyllosilicates, carbonates, sulfates, phosphates, and the like) or botanical materials (powdered corncobs, rice hulls, walnut shells, and the like).
  • the formulations may include spreader-sticker adjuvants, stabilizing agents, other pesticidal additives, or surfactants.
  • Liquid formulations may be aqueous-based or non-aqueous and employed as foams, gels, suspensions, emulsifiable concentrates, or the like.
  • the ingredients may include rheological agents, surfactants, emulsifiers, dispersants, or polymers.
  • the pesticidal concentration will vary widely depending upon the nature of the particular formulation, particularly whether it is a concentrate or to be used directly.
  • the pesticide will be present in at least 1% by weight and may be 100% by weight.
  • the dry formulations will have from about 1-95% by weight of the pesticide while the liquid formulations will generally be from about 1 -60% by weight of the solids in the liquid phase.
  • the formulations will generally have from about 10 2 to about 10 4 cells/mg. These formulations will be administered at about 50 mg (liquid or dry) to 1 kg or more per hectare.
  • the formulations can be applied to the environment of the lepidopteran pest, e.g., foliage or soil, by spraying, dusting, sprinkling, or the like.
  • a preferred recombinant host for production of the insecticidal proteins of the subject invention is a transformed plant.
  • Genes encoding Bt toxin proteins, as disclosed herein, can be inserted into plant cells using a variety of techniques which are well known in the art. For example, a large number of cloning vectors comprising a replication system in Escherichia coli and a marker that permits selection of the transformed cells are available for preparation for the insertion of foreign genes into higher plants.
  • the vectors comprise, for example, pBR322, pUC series, M13mp series, pACYC184, inter alia.
  • the DNA fragment having the sequence encoding the Bt toxin protein can be inserted into the vector at a suitable restriction site.
  • the resulting plasmid is used for transformation into E. coli.
  • the E. coli cells are cultivated in a suitable nutrient medium, then harvested and lysed.
  • the plasmid is recovered. Sequence analysis, restriction analysis, electrophoresis, and other biochemical-molecular biological methods are generally carried out as methods of analysis.
  • the DNA sequence used can be cleaved and joined to the next DNA sequence.
  • Each plasmid sequence can be cloned in the same or other plasmids. Depending on the method of inserting desired genes into the plant, other DNA sequences may be necessary.
  • the Ti or Ri plasmid is used for the transformation of the plant cell, then at least the right border, but often the right and the left border of the Ti or Ri plasmid T-DNA, has to be joined as the flanking region of the genes to be inserted.
  • T-DNA for the transformation of plant cells has been intensively researched and sufficiently described in EP 120 516, Lee and Gelvin (2008), Hoekema (1985), Fraley et al, (1986), and An et al, (1985), and is well established in the art.
  • the transformation vector normally contains a selectable marker that confers on the transformed plant cells resistance to a biocide or an antibiotic, such as Bialaphos,
  • Kanamycin, G418, Bleomycin, or Hygromycin inter alia.
  • the individually employed marker should accordingly permit the selection of transformed cells rather than cells that do not contain the inserted DNA.
  • a large number of techniques are available for inserting DNA into a plant host cell. Those techniques include transformation with T-DNA using Agrobacterium tumefaciens or Agrobacterium rhizogenes as transformation agent, fusion, injection, biolistics
  • the DNA to be inserted has to be cloned into special plasmids, namely either into an intermediate vector or into a binary vector.
  • the intermediate vectors can be integrated into the Ti or Ri plasmid by homologous
  • the Ti or Ri plasmid also comprises the vir region necessary for the transfer of the T-DNA.
  • intermediate vectors cannot replicate themselves in Agrobacteria.
  • the intermediate vector can be transferred into Agrobacterium tumefaciens by means of a helper plasmid
  • Binary vectors can replicate themselves both in E. coli and in Agrobacteria. They comprise a selection marker gene and a linker or polylinker which are framed by the Right and Left T-DNA border regions. They can be transformed directly into Agrobacteria (Holsters et ah, 1978).
  • the Agrobacterium used as host cell is to comprise a plasmid carrying a vir region. The vir region is necessary for the transfer of the T-DNA into the plant cell. Additional T-DNA may be contained. The bacterium so transformed is used for the transformation of plant cells.
  • Plant explants can advantageously be cultivated with Agrobacterium tumefaciens ox Agrobacterium rhizogenes for the transfer of the DNA into the plant cell.
  • Whole plants can then be regenerated from the infected plant material (for example, pieces of leaf, segments of stalk, roots, but also protoplasts or suspension- cultivated cells) in a suitable medium, which may contain antibiotics or biocides for selection.
  • the plants so obtained can then be tested for the presence of the inserted DNA.
  • No special demands are made of the plasmids in the case of injection and electroporation. It is possible to use ordinary plasmids, such as, for example, pUC derivatives.
  • the transformed cells grow inside the plants in the usual manner. They can form germ cells and transmit the transformed trait(s) to progeny plants. Such plants can be grown in the normal manner and crossed with plants that have the same transformed hereditary factors or other hereditary factors. The resulting hybrid individuals have the corresponding phenotypic properties.
  • plants will be transformed with genes wherein the codon usage has been optimized for plants. See, for example, U.S. Patent No. 5,380,831, which is hereby incorporated by reference. While some truncated toxins are exemplified herein, it is well-known in the Bt art that 130 kDa-type (full-length) toxins have an N-terminal half that is the core toxin, and a C-terminal half that is the protoxin "tail.” Thus, appropriate "tails" can be used with truncated / core toxins of the subject invention. See e.g. U.S. Patent No. 6,218,188 and U.S. Patent No. 6,673,990.
  • One non-limiting example of a preferred transformed plant is a fertile maize plant comprising a plant expressible gene encoding a CrylDa protein, and further comprising a second plant expressible gene encoding a CrylCa protein.
  • Transfer (or introgression) of the CrylDa- and CrylCa-determined trait(s) into inbred maize lines can be achieved by recurrent selection breeding, for example by backcrossing.
  • a desired recurrent parent is first crossed to a donor inbred (the non-recurrent parent) that carries the appropriate gene(s) for the Cry ID- and CrylC- determined traits.
  • the progeny of this cross is then mated back to the recurrent parent followed by selection in the resultant progeny for the desired trait(s) to be transferred from the non-recurrent parent.
  • the progeny will be heterozygous for loci controlling the trait(s) being transferred, but will be like the recurrent parent for most or almost all other genes (see, for example, Poehlman & Sleper (1995) Breeding Field Crops, 4th Ed., 172-175; Fehr (1987) Principles of Cultivar Development, Vol. 1 : Theory and Technique, 360-376).
  • IRM Insect Resistance Management
  • non-transgenic i.e., non-B.t.
  • refuges a section of non-Bt crops / corn
  • transgenic crops producing a single Bt protein active against target pests.
  • Structured refuges 20% non-Lepidopteran Bt corn refuge in Corn Belt;
  • Strips must be at least 4 rows wide (preferably 6 rows) to reduce
  • the refuge strips can be planted as strips within the Bt field; the refuge strips must be at least 4 rows wide
  • the above percentages, or similar refuge ratios, can be used for the subject double or triple stacks or pyramids.
  • a goal would be zero refuge (or less than 5% refuge, for example). This is particularly true for commercial acreage - of over 10 acres for example.
  • Iodination of Cry toxins Purified truncated Cry toxins were was iodinated using Iodo-Beads or Iodo-gen (Pierce). Briefly, two Iodo-Beads were washed twice with 500 ⁇ of phosphate buffered saline, PBS (20 mM sodium phosphate, 0.15 M NaCl, pH 7.5), and placed into a 1.5 ml centrifuge tube behind lead shielding. To this was added 100 ⁇ of PBS.
  • the iodo-bead was washed twice with 10 ⁇ of PBS each and the wash solution also applied to the desalting column.
  • the radioactive solution was eluted through the desalting column by centrifugation at 1,000 x g for 2 min.
  • the Iodo- gen method was used to conduct the radiolabeling procedure.
  • the cry toxin in 100 mM phosphate buffer (pH 8) was first cleaned of lipopolysaccharides (LPS) by passing it through a small 0.5 ml polymyxin column multiple times.
  • LPS lipopolysaccharides
  • Radio-purity of the iodinated Cry proteins was determined by SDS-PAGE, phosphorimaging and gamma counting. Briefly, 2 ⁇ of the radioactive protein was separated by SDS-PAGE. After separation, the gels were dried using a BioRad gel drying apparatus following the manufacturer's instructions. The dried gels were imaged by wrapping them in Mylar film (12 ⁇ thick), and exposing them under a Molecular Dynamics storage phosphor screen (35 cm x 43 cm), for 1 hour. The plates were developed using a Molecular Dynamics Storm 820 phosphorimager and the imaged analyzed using ImageQuantTM software. The radioactive band along with areas immediately above and below the band were cut from the gel using a razor blade and counted in a gamma counter. Radioactivity was only detected in the Cry protein band and in areas below the band. No radioactivity was detected above the band, indicating that all radioactive contaminants consisted of smaller protein components than the truncated Cry protein. These components most probably represent degradation products.
  • BBMV's were prepared by the MgCi 2 precipitation method of Wolfersberger (1993). Briefly, an equal volume of a 24 mM MgCi 2 solution in 300 mM mannitol was mixed with the midgut homogenate, stirred for 5 minutes and allowed to stand on ice for 15 min. The solution was centrifuged at 2,500 x g for 15 min at 4° C. The supernatant was saved and the pellet suspended into the original volume of 0.5-X diluted homogenization buffer and centrifuged again. The two supernatants were combined, centrifuged at 27,000 x g for 30 min at 4° C to form the BBMV fraction.
  • the pellet was suspended into 10 ml homogienization buffer and supplemented to protease inhibitiors and centrifuged again at 27,000 x g of r30 min at 4 °C to wash the BBMV's.
  • the resulting pellet was suspended into BBMV Storage Buffer (10 mM HEPES, 130 mM KC1, 10% glycerol, pH 7.4) to a concentration of about 3 mg/ml protein. Protein concentration was determined by using the Bradford method (1976) with bovine serum albumin (BSA) as the standard. Alkaline phosphatase determination was made prior to freezing the samples using the Sigma assay following manufacturer's instructions. The specific activity of this marker enzyme in the BBMV fraction typically increased 7-fold compared to that found in the midgut homogenate fraction.
  • the BBMV's were aliquoted into 250 ⁇ samples, flash frozen in liquid 2 and stored at -80°C.
  • Binding of 125 I Cry Proteins to BBMV's To determine the optimal amount of BBMV protein to use in the binding assays, a saturation curve was generated. 125 I radiolabeled Cry protein (0.5 nM) was incubated for 1 hr. at 28 °C with various amounts of BBMV protein, ranging from 0-500 ⁇ / ⁇ in binding buffer (8 mM NaHP0 4 , 2 mM ⁇ 3 ⁇ 4 ⁇ 0 4 , 150 mM NaCl, 0.1% bovine serum albumin, pH 7.4). Total volume was 0.5 ml.
  • Bound 125 I Cry protein was separated from unbound by sampling 150 ⁇ of the reaction mixture in triplicate from a 1.5 ml centrifuge tube into a 500 ⁇ centrifuge tube and centrifuging the samples at 14,000 x g for 6 minutes at room temperature. The supernatant was gently removed, and the pellet gently washed three times with ice cold binding buffer. The bottom of the centrifuge containing the pellet was cut out and placed into a 13 x 75-mm glass culture tube. The samples were counted for 5 minutes each in the gamma counter. The counts contained in the sample were subtracted from background counts (reaction with out any protein) and was plotted versus BBMV protein concentration. The optimal amount of protein to use was determined to be 0.15 mg/ml of BBMV protein.
  • BBMV's 150 ⁇ g/ml were incubated for 1 hr. at 28 °C with increasing concentrations of 125 I Cry toxin, ranging from 0.01 to 10 nM.
  • Total binding was determined by sampling 150 ⁇ of each concentration in triplicate, centrifugation of the sample and counting as described above.
  • Non-specific binding was determined in the same manner, with the addition of 1 ,000 nM of the homologous trypsinized non-radioactive Cry toxin added to the reaction mixture to saturate all non-specific receptor binding sites. Specific binding was calculated as the difference between total binding and non-specific binding.
  • Homologous and heterologous competition binding assays were conducted using 150 ⁇ g/ml BBMV protein and 0.5 nM of the 125 I radiolabeled Cry protein.
  • concentration of the competitive non-radiolabeled Cry toxin added to the reaction mixture ranged from 0.045 to 1,000 nM and were added at the same time as the radioactive ligand, to assure true binding competition.
  • Incubations were carried out for 1 hr. at 28 °C and the amount of 125 I Cry protein bound to its receptor toxin measured as described above with non-specific binding subtracted. One hundred percent total binding was determined in the absence of any competitor ligand. Results were plotted on a semi-logarithmic plot as percent total specific binding versus concentration of competitive ligand added.
  • Figure 1 shows percent specific binding of 125 I CrylDa (0.5 nM) in BBMV's from FAW versus competition by unlabeled homologous CrylDa (o) and heterologous CrylCa ( ⁇ ).
  • the displacement curve for homologous competition by CrylDa results in a sigmoidal shaped curve showing 50% displacement of the radioligand at about 1.5 nM of CrylDa.
  • CrylCa does not displace the specific binding of 125 I CrylDa at any concentration tested, up to 1,000 nM, or 2,000 times the concentration of 125 I CrylDa used in the assay.

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Abstract

The subject invention includes methods and plants for controlling fall armyworm lepidopteran insects, said plants comprising a Cry1Da insecticidal protein and a Cry1Ca insecticidal protein, and various combinations of other proteins comprising this pair of proteins, to delay or prevent development of resistance by the insects.

Description

USE OF Cry1Da IN COMBINATION WITH Cry1Ca FOR MANAGEMENT OF RESISTANT INSECTS
Background of the Invention
[0001] Humans grow corn for food and energy applications. Humans also grow many other crops, including soybeans and cotton. Insects eat and damage plants and thereby undermine these human efforts. Billions of dollars are spent each year to control insect pests and additional billions are lost to the damage they inflict. Synthetic organic chemical insecticides have been the primary tools used to control insect pests but biological insecticides, such as the insecticidal proteins derived from Bacillus thuringiensis (Bt), have played an important role in some areas. The ability to produce insect-resistant plants through transformation with Bt insecticidal protein genes has revolutionized modern agriculture and heightened the importance and value of insecticidal proteins and their genes.
[0002] Several Bt proteins have been used to create the insect-resistant transgenic plants that have been successfully registered and commercialized to date. These include CrylAb, CrylAc, CrylF and Cry3Bb in corn, CrylAc and Cry2Ab in cotton, and Cry3A in potato.
[0003] The commercial products expressing these proteins express a single protein except in cases where the combined insecticidal spectrum of 2 proteins is desired (e.g., CrylAb and Cry3Bb in corn combined to provide resistance to lepidopteran pests and rootworm, respectively) or where the independent action of the proteins makes them useful as a tool for delaying the development of resistance in susceptible insect populations (e.g., CrylAc and Cry2Ab in cotton combined to provide resistance management for tobacco budworm). See also U.S. Patent Application Publication No. 2009/0313717, which relates to a Cry2 protein plus a Vip3Aa, CrylF, or CrylA for control of Helicoverpa zea or armigerain. WO 2009/132850 relates to CrylF or CrylA and Vip3Aa for controlling Spodoptera frugiperda. U.S. Patent Application Publication No. 2008/031 1096 relates in part to CrylAb for controlling CrylF-resistant ECB.
[0004] That is, some of the qualities of insect-resistant transgenic plants that have led to rapid and widespread adoption of this technology also give rise to the concern that pest populations will develop resistance to the insecticidal proteins produced by these plants. Several strategies have been suggested for preserving the utility of 5?-based insect resistance traits which include deploying proteins at a high dose in combination with a refuge, and alternation with, or co-deployment of, different toxins (McGaughey et al.
(1998), "5.?. Resistance Management," Nature Biotechnol. 16: 144-146).
[0005] The proteins selected for use in an insect resistant management (IRM) stack need to exert their insecticidal effect independently so that resistance developed to one protein does not confer resistance to the second protein (i.e., there is not cross resistance to the proteins). If, for example, a pest population that is resistant to "Protein A" is sensitive to "Protein B", one would conclude that there is not cross resistance and that a combination of Protein A and Protein B would be effective in delaying resistance to Protein A alone.
[0006] In the absence of resistant insect populations, assessments can be made based on other characteristics presumed to be related to mechanism of action and cross-resistance potential. The utility of receptor-mediated binding in identifying insecticidal proteins likely to not exhibit cross resistance has been suggested (van Mellaert et al. 1999). The key predictor of lack of cross resistance inherent in this approach is that the insecticidal proteins do not compete for receptors in a sensitive insect species.
[0007] In the event that two Bt toxins compete for the same receptor, then if that receptor mutates in that insect so that one of the toxins no longer binds to that receptor and thus is no longer insecticidal against the insect, it might be the case that the insect will also be resistant to the second toxin (which competitively bound to the same receptor). That is, the insect is said to be cross-resistant to both Bt toxins. However, if two toxins bind to two different receptors, this could be an indication that the insect would not be simultaneously resistant to those two toxins.
[0008] For example, CrylFa protein is useful in controlling many lepidopteran pests species including the European corn borer (ECB; Ostrinia nubilalis (Hubner)) and the fall armyworm (FAW; Spodoptera frugiperda), and is active against the sugarcane borer (SCB; Diatraea saccharalis) . The CrylFa protein, as produced in transgenic corn plants containing event TCI 507, is responsible for an industry-leading insect resistance trait for FAW control. CrylFa is further deployed in the Herculex®, Smarts tax™, and
WideStrike™ products.
[0009] Additional Cry toxins are listed at the website of the official B. t. nomenclature committee (Crickmore et al.; lifesci.sussex.ac.uk/home/Neil_Crickmore/Bt/). There are currently nearly 60 main groups of "Cry" toxins (Cryl-Cry59), with additional Cyt toxins and VIP toxins and the like. Many of each numeric group have capital-letter subgroups, and the capital letter subgroups have lower-cased letter sub-subgroups. (Cryl has A-L, and CrylA has a-i, for example).
Brief Summary of the Invention
[0010] The subject invention relates in part to the surprising discovery that CrylDa and CrylCa do not compete for binding sites in fall army worm (FAW; Spodoptera frugiperda) gut cell membrane preparations. As one skilled in the art will recognize with the benefit of this disclosure, plants that produce both of these proteins (including insecticidal portions of the full-length proteins) can delay or prevent the development of resistance to any of these insecticidal proteins alone.
[0011] Thus, the subject invention relates in part to the use of a CrylDa protein in combination with a CrylCa protein. Plants (and acreage planted with such plants) that produce both of these proteins are included within the scope of the subject invention.
[0012] The subject invention also relates in part to triple stacks or "pyramids" of three (or more) toxins, with CrylDa and CrylCa being the base pair. In some preferred pyramid embodiments, the combination of the selected toxins provides non-cross-resistant action against FAW. Some preferred "three sites of action" pyramid combinations include the subject base pair of proteins plus CrylFa, Vip3Ab, CrylBe, or CrylE as the third protein for targeting FAW. These particular triple stacks would, according to the subject invention, advantageously and surprisingly provide three sites of action against FAW. This can help to reduce or eliminate the requirement for refuge acreage.
[0013] Additional toxins/genes can also be added according to the subject invention. For example, if CrylFa or CrylBe are stacked with the subject pair of proteins (both CrylFa and CrylBe are both active against both FAW and European cornborer (ECB)), adding two additional proteins to this triple stack wherein the two added proteins target ECB, would provide three sites of action against FAW, and three sites of action against ECB. These two added proteins (the fourth and fifth proteins) could be selected from the group consisting of Cry2A, Cryll, DIG-3, and CrylAb. This would result in a five-protein stack having three sites of action against two insects (ECB and FAW). DETAILED DESCRIPTION OF THE INVENTION
[0014] The subject invention relates in part to the surprising discovery that CrylDa and CrylCa do not compete for binding with each other in the gut of fall army worms (FAW; Spodoptera frugiperda). Thus, a CrylDa protein can be used in combination with a CrylCa protein in transgenic corn (and other plants; e.g., cotton and soybeans, for example) to delay or prevent FAWfrom developing resistance to either of these proteins alone. The subject pair of proteins can be effective at protecting plants (such as maize plants and/or soybean plants) from damage by Cry-resistant fall army worm. That is, one use of the subject invention is to protect corn and other economically important plant species from damage and yield loss caused by fall armyworm populations that could develop resistance to CrylDa or CrylCa.
[0015] The subject invention thus teaches an insect resistant management (IRM) stack comprising CrylDa and CrylCa to prevent or mitigate the development of resistance by FAW to either or both of these proteins.
[0016] The present invention provides compositions for controlling lepidopteran pests comprising cells that produce a CrylDa insecticidal protein and a CrylCa insecticidal protein.
[0017] The invention further comprises a host transformed to produce both a CrylDa insecticidal protein and a CrylCa insecticidal protein, wherein said host is a microorganism or a plant cell. The subject polynucleotide(s) are preferably in a genetic construct under control of a non-Bacillus-thuringiensis promoter(s). The subject polynucleotides can comprise codon usage for enhanced expression in a plant.
[0018] It is additionally intended that the invention provides a method of controlling lepidopteran pests comprising contacting said pests or the environment of said pests with an effective amount of a composition that contains a CrylDa core toxin-containing protein and further contains a CrylCa core toxin-containing protein.
[0019] An embodiment of the invention comprises a maize plant comprising a plant- expressible gene encoding a CrylCa insecticidal protein and a plant-expressible gene encoding a CrylDa insecticidal protein, and seed of such a plant.
[0020] A further embodiment of the invention comprises a maize plant wherein a plant- expressible gene encoding a CrylCa insecticidal protein and a plant-expressible gene encoding a CrylDa insecticidal protein have been introgressed into said maize plant, and seed of such a plant. [0021] As described in the Examples, competitive receptor binding studies using radiolabeled Cry 1 Da protein show that the CrylCa protein does not compete for binding in FAW tissues to which Cry 1 Da binds. These results also indicate that the combination of CrylDa and CrylCa proteins can be an effective means to mitigate the development of resistance in FAW populations to either of these proteins. Thus, based in part on the data described herein, it is thought that co-production (stacking) of the CrylCa and CrylDa proteins can be used to produce a high dose IRM stack for FAW.
[0022] Other proteins can be added to this pair. For example, the subject invention also relates in part to triple stacks or "pyramids" of three (or more) toxins, with CrylDa and CrylCa being the base pair. In some preferred pyramid embodiments, the selected toxins have three separate sites of action against FAW. Some preferred "three sites of action" pyramid combinations include the subject base pair of proteins plus CrylFa, Vip3Ab, Cry IBe, or Cry IE as the third protein for targetting FAW. By "separate sites of action," it is meant any of the given proteins do not cause cross-resistance with each other. These particular triple stacks would, according to the subject invention, advantageously and surprisingly provide three sites of action against FAW. This can help to reduce or eliminate the requirement for refuge acreage.
[0023] Additional toxins/genes can also be added according to the subject invention. For example, if CrylFa or CrylBe are stacked with the subject pair of proteins (both CrylFa and CrylBe are both active against both FAW and European cornborer (ECB)), adding two additional proteins to this triple stack wherein the two added proteins target ECB, would provide three sites of action against FAW, and three sites of action against ECB. These two added proteins (the fourth and fifth proteins) could be selected from the group consisting of Cry2A, Cry II, DIG-3 (see U.S. Patent Application Serial No. 61/284,278 (filed December 16, 2009) and US 2010 00269223), and CrylAb. This would result in a five-protein stack having three sites of action against two insects (ECB and FAW)
[0024] Thus, one deployment option is to use the subject pair of proteins in combination with a third toxin/gene, and to use this triple stack to mitigate the development of resistance in FAW to any of these toxins. Accordingly, the subject invention also relates in part to triple stacks or "pyramids" of three (or more) toxins. In some preferred pyramid embodiments, the selected toxins have three separate sites of action against FAW. [0025] Included among deployment options of the subject invention would be to use two, three, or more proteins of the subject proteins in crop-growing regions where FAW can develop resistant populations.
[0026] For use of CrylFa plus CrylC, see U.S. Patent Application Serial No. 61/284,281 (filed December 16, 2009), which shows that CrylC is active against CrylF-resistant FAW. For use of CrylFa plus CrylD, see U.S. Patent Application Serial No. 61/284,252 (filed December 16, 2009), which shows that CrylD is active against CrylF-resistant FAW.
These two applications also show that CrylC does not compete with CrylF for binding in FAW membrane preparations, and that CrylD does not compete with CrylF for binding in FAW membrane preparations. With CrylFa being active against FAW and ECB, CrylDa plus CrylCa plus CrylFa would, according to the subject invention, advantageously and surprisingly provide three sites of action against FAW. This can help to reduce or eliminate the requirement for refuge acreage.
[0027] CrylFa is deployed in the Herculex®, SmartStax™, and Wides Strike™ products. The subject pair of genes (CrylDa and CrylCa) could be combined into, for example, a CrylFa product such as Herculex®, SmartStax™, and WideStrike™. Accordingly, the subject pair of proteins could be significant in reducing the selection pressure on these andother proteins. The subject pair of proteins could thus be used as in the three gene combinations for corn and other plants (cotton and soybeans, for example).
[0028] As discussed above, additional toxins/genes can also be added according to the subject invention. For the use of Cry IE (for controlling FAW), see U.S. Patent Application Serial No. 61/284,278 (filed December 16, 2009). For use of CrylAb (for controlling ECB), see U.S. Patent Application Publication No. 2008/0311096.
[0029] Plants (and acreage planted with such plants) that produce any of the subject combinations of proteins are included within the scope of the subject invention. Additional toxins/genes can also be added, but the particular stacks discussed above advantageously and surprisingly provide multiple sites of action against FAW and/or ECB. This can help to reduce or eliminate the requirement for refuge acreage. A field thus planted of over ten acres is thus included within the subject invention.
[0030] GENBANK can also be used to obtain the sequences for any of the genes and proteins disclosed or mentioned herein. See Appendix A, below. Relevant sequences are also available in patents. For example, U.S. Patent No. 5, 188,960 and U.S. Patent No.
5,827,514 describe CrylFa core toxin containing proteins suitable for use in carrying out the present invention. U.S. Patent No. 6,218,188 describes plant-optimized DNA sequences encoding Cry 1 Fa core toxin-containing proteins that are suitable for use in the present invention.
[0031] Combinations of proteins described herein can be used to control lepidopteran pests. Adult lepidopterans, for example, butterflies and moths, primarily feed on flower nectar and are a significant effector of pollination. Nearly all lepidopteran larvae, i.e., caterpillars, feed on plants, and many are serious pests. Caterpillars feed on or inside foliage or on the roots or stem of a plant, depriving the plant of nutrients and often destroying the plant's physical support structure. Additionally, caterpillars feed on fruit, fabrics, and stored grains and flours, ruining these products for sale or severely diminishing their value. As used herein, reference to lepidopteran pests refers to various life stages of the pest, including larval stages.
J0032J Some chimeric toxins of the subject invention comprise a full N-terminal core toxin portion of a Bt toxin and, at some point past the end of the core toxin portion, the protein has a transition to a heterologous protoxin sequence. The N-terminal, insecticidally active, toxin portion of a Bt toxin is referred to as the "core" toxin. The transition from the core toxin segment to the heterologous protoxin segment can occur at approximately the toxin/protoxin junction or, in the alternative, a portion of the native protoxin (extending past the core toxin portion) can be retained, with the transition to the heterologous protoxin portion occurring downstream.
[0033] As an example, one chimeric toxin of the subject invention, is a full core toxin portion of CrylDa (roughly the first 600 amino acids) and/or a heterologous protoxin (the remaining amino acids to the C-terminus). In one preferred embodiment, the portion of a chimeric toxin comprising the protoxin is derived from a CrylAb protein toxin. In a preferred embodiment, the portion of a chimeric toxin comprising the protoxin is derived from a CrylAb protein toxin.
[0034] A person skilled in this art will appreciate that Bt toxins, even within a certain class such as CrylCa, will vary to some extent in length and the precise location of the transition from core toxin portion to protoxin portion. Typically, the CrylCa toxins are about 1150 to about 1200 amino acids in length. The transition from core toxin portion to protoxin portion will typically occur at between about 50% to about 60% of the full length toxin. The chimeric toxin of the subject invention will include the full expanse of this N-terminal core toxin portion. Thus, the chimeric toxin will comprise at least about 50% of the full length of the Cryl Bt toxin protein. This will typically be at least about 590 amino acids. With regard to the protoxin portion, the full expanse of the CrylAb protoxin portion extends from the end of the core toxin portion to the C-terminus of the molecule.
[0035] Genes and toxins. The genes and toxins useful according to the subject invention include not only the full length sequences disclosed but also fragments of these sequences, variants, mutants, and fusion proteins which retain the characteristic pesticidal activity of the toxins specifically exemplified herein. As used herein, the terms "variants" or
"variations" of genes refer to nucleotide sequences which encode the same toxins or which encode equivalent toxins having pesticidal activity. As used herein, the term "equivalent toxins" refers to toxins having the same or essentially the same biological activity against the target pests as the claimed toxins.
[0036] As used herein, the boundaries represent approximately 95% (Cryl Da's and
CrylCa's), 78% (CrylD's and CrylC's), and 45% (Cryl 's) sequence identity, per "Revision of the Nomenclature for the Bacillus thuringiensis Pesticidal Crystal Proteins," N.
Crickmore, D.R. Zeigler, J. Feitelson, E. Schnepf, J. Van Rie, D. Lereclus, J. Baum, and D.H. Dean. Microbiology and Molecular Biology Reviews (1998) Vol 62: 807-813. These cut offs can also be applied to the core toxins only.
[0037] It should be apparent to a person skilled in this art that genes encoding active toxins can be identified and obtained through several means. The specific genes or gene portions exemplified herein may be obtained from the isolates deposited at a culture depository. These genes, or portions or variants thereof, may also be constructed synthetically, for example, by use of a gene synthesizer. Variations of genes may be readily constructed using standard techniques for making point mutations. Also, fragments of these genes can be made using commercially available exonucleases or endonucleases according to standard procedures. For example, enzymes such as Bal31 or site-directed mutagenesis can be used to systematically cut off nucleotides from the ends of these genes. Genes that encode active fragments may also be obtained using a variety of restriction enzymes. Proteases may be used to directly obtain active fragments of these protein toxins.
[0038] Fragments and equivalents which retain the pesticidal activity of the exemplified toxins would be within the scope of the subject invention. Also, because of the redundancy of the genetic code, a variety of different DNA sequences can encode the amino acid sequences disclosed herein. It is well within the skill of a person trained in the art to create these alternative DNA sequences encoding the same, or essentially the same, toxins. These variant DNA sequences are within the scope of the subject invention. As used herein, reference to "essentially the same" sequence refers to sequences which have amino acid substitutions, deletions, additions, or insertions which do not materially affect pesticidal activity. Fragments of genes encoding proteins that retain pesticidal activity are also included in this definition.
[0039] A further method for identifying the genes encoding the toxins and gene portions useful according to the subject invention is through the use of oligonucleotide probes. These probes are detectable nucleotide sequences. These sequences may be detectable by virtue of an appropriate label or may be made inherently fluorescent as described in International Application No. WO93/16094. As is well known in the art, if the probe molecule and nucleic acid sample hybridize by forming a strong bond between the two molecules, it can be reasonably assumed that the probe and sample have substantial homology. Preferably, hybridization is conducted under stringent conditions by techniques well-known in the art, as described, for example, in Keller, G. FL, M. M. Manak (1987) DNA Probes, Stockton Press, New York, N.Y., pp. 169-170. Some examples of salt concentrations and temperature combinations are as follows (in order of increasing stringency): 2X SSPE or SSC at room temperature; IX SSPE or SSC at 42° C; 0.1X SSPE or SSC at 42° C; 0. IX SSPE or SSC at 65° C. Detection of the probe provides a means for determining in a known manner whether hybridization has occurred. Such a probe analysis provides a rapid method for identifying toxin-encoding genes of the subject invention. The nucleotide segments which are used as probes according to the invention can be synthesized using a DNA synthesizer and standard procedures. These nucleotide sequences can also be used as PCR primers to amplify genes of the subject invention.
[0040] Variant toxins. Certain toxins of the subject invention have been specifically exemplified herein. Since these toxins are merely exemplary of the toxins of the subject invention, it should be readily apparent that the subject invention comprises variant or equivalent toxins (and nucleotide sequences coding for equivalent toxins) having the same or similar pesticidal activity of the exemplified toxin. Equivalent toxins will have amino acid homology with an exemplified toxin. This amino acid homology will typically be greater than 75%, preferably be greater than 90%, and most preferably be greater than 95%. The amino acid homology will be highest in critical regions of the toxin which account for biological activity or are involved in the determination of three-dimensional configuration which ultimately is responsible for the biological activity. In this regard, certain amino acid substitutions are acceptable and can be expected if these substitutions are in regions which are not critical to activity or are conservative amino acid substitutions which do not affect the three-dimensional configuration of the molecule. For example, amino acids may be placed in the following classes: non-polar, uncharged polar, basic, and acidic. Conservative substitutions whereby an amino acid of one class is replaced with another amino acid of the same type fall within the scope of the subject invention so long as the substitution does not materially alter the biological activity of the compound. Below is a listing of examples of amino acids belonging to each class.
Figure imgf000011_0001
[0041] In some instances, non-conservative substitutions can also be made. The critical factor is that these substitutions must not significantly detract from the biological activity of the toxin.
[0042] Recombinant hosts. The genes encoding the toxins of the subject invention can be introduced into a wide variety of microbial or plant hosts. Expression of the toxin gene results, directly or indirectly, in the intracellular production and maintenance of the pesticide. Conjugal transfer and recombinant transfer can be used to create a Bt strain that expresses both toxins of the subject invention. Other host organisms may also be transformed with one or both of the toxin genes then used to accomplish the synergistic effect. With suitable microbial hosts, e.g., Pseudomonas, the microbes can be applied to the situs of the pest, where they will proliferate and be ingested. The result is control of the pest. Alternatively, the microbe hosting the toxin gene can be treated under conditions that prolong the activity of the toxin and stabilize the cell. The treated cell, which retains the toxic activity, then can be applied to the environment of the target pest.
[0043] Where the Bt toxin gene is introduced via a suitable vector into a microbial host, and said host is applied to the environment in a living state, it is essential that certain host microbes be used. Microorganism hosts are selected which are known to occupy the "phytosphere" (phylloplane, phyllosphere, rhizosphere, and/or rhizoplane) of one or more crops of interest. These microorganisms are selected so as to be capable of successfully competing in the particular environment (crop and other insect habitats) with the wild-type microorganisms, provide for stable maintenance and expression of the gene expressing the polypeptide pesticide, and, desirably, provide for improved protection of the pesticide from environmental degradation and inactivation.
[0044] A large number of microorganisms are known to inhabit the phylloplane (the surface of the plant leaves) and/or the rhizosphere (the soil surrounding plant roots) of a wide variety of important crops. These microorganisms include bacteria, algae, and fungi. Of particular interest are microorganisms, such as bacteria, e.g., genera Pseudomonas, Erwinia, Serratia, Klebsiella, Xanthomonas, Streptomyces, Rhizobium, Rhodopseudomonas,
Methylophilius, Agrobactenum, Acetobacter, Lactobacillus, Arthrobacter, Azotobacter, Leuconostoc, and Alcaligenes; fungi, particularly yeast, e.g., genera Saccharomyces, Cryptococcus, Kluyveromyces, Sporobolomyces, Rhodotorula, and Aureobasidium. Of particular interest are such phytosphere bacterial species as Pseudomonas syringae,
Pseudomonas fluorescens, Serratia marcescens, Acetobacter xylinum, Agrobactenium tumefaciens, Rhodopseudomonas spheroides, Xanthomonas campestris, Rhizobium melioti, Alcaligenes entrophus, and Azotobacter vinlandii; and phytosphere yeast species such as Rhodotorula rubra, R. glutinis, R. marina, R. aurantiaca, Cryptococcus albidus, C. diffluens, C. laurentii, Saccharomyces rosei, S. pretoriensis, S. cerevisiae, Sporobolomyces roseus, S. odorus, Kluyveromyces veronae, and Aureobasidium pollulans. Of particular interest are the pigmented microorganisms.
[0045] A wide variety of methods is available for introducing a Bt gene encoding a toxin into a microorganism host under conditions which allow for stable maintenance and expression of the gene. These methods are well known to those skilled in the art and are described, for example, in U.S. Patent No. 5, 135,867, which is incorporated herein by reference.
[0046] Treatment of cells. Bacillus thuringiensis or recombinant cells expressing the Bt toxins can be treated to prolong the toxin activity and stabilize the cell. The pesticide microcapsule that is formed comprises the Bt toxin or toxins within a cellular structure that has been stabilized and will protect the toxin when the microcapsule is applied to the environment of the target pest. Suitable host cells may include either prokaryotes or eukaryotes, normally being limited to those cells which do not produce substances toxic to higher organisms, such as mammals. However, organisms which produce substances toxic to higher organisms could be used, where the toxic substances are unstable or the level of application sufficiently low as to avoid any possibility of toxicity to a mammalian host. As hosts, of particular interest will be the prokaryotes and the lower eukaryotes, such as fungi.
[0047] The cell will usually be intact and be substantially in the proliferative form when treated, rather than in a spore form, although in some instances spores may be employed.
[0048] Treatment of the microbial cell, e.g., a microbe containing the B.t. toxin gene or genes, can be by chemical or physical means, or by a combination of chemical and/or physical means, so long as the technique does not deleteriously affect the properties of the toxin, nor diminish the cellular capability of protecting the toxin. Examples of chemical reagents are halogenating agents, particularly halogens of atomic no. 17-80. More particularly, iodine can be used under mild conditions and for sufficient time to achieve the desired results. Other suitable techniques include treatment with aldehydes, such as glutaraldehyde; anti-infectives, such as zephiran chloride and cetylpyridinium chloride; alcohols, such as isopropyl and ethanol; various histologic fixatives, such as Lugol iodine, Bouin's fixative, various acids and Helly's fixative (See: Humason, Gretchen L., Animal Tissue Techniques, W. H. Freeman and Company, 1967); or a combination of physical (heat) and chemical agents that preserve and prolong the activity of the toxin produced in the cell when the cell is administered to the host environment. Examples of physical means are short wavelength radiation such as gamma-radiation and X-radiation, freezing, UV irradiation, lyophilization, and the like. Methods for treatment of microbial cells are disclosed in U.S. Pat. Nos. 4,695,455 and 4,695,462, which are incorporated herein by reference.
[0049] The cells generally will have enhanced structural stability which will enhance resistance to environmental conditions. Where the pesticide is in a proform, the method of cell treatment should be selected so as not to inhibit processing of the proform to the mature form of the pesticide by the target pest pathogen. For example, formaldehyde will crosslink proteins and could inhibit processing of the proform of a polypeptide pesticide. The method of treatment should retain at least a substantial portion of the bio-availability or bioactivity of the toxin.
[0050] Characteristics of particular interest in selecting a host cell for purposes of production include ease of introducing the B.t. gene or genes into the host, availability of expression systems, efficiency of expression, stability of the pesticide in the host, and the presence of auxiliary genetic capabilities. Characteristics of interest for use as a pesticide microcapsule include protective qualities for the pesticide, such as thick cell walls, pigmentation, and intracellular packaging or formation of inclusion bodies; survival in aqueous environments; lack of mammalian toxicity; attractiveness to pests for ingestion; ease of killing and fixing without damage to the toxin; and the like. Other considerations include ease of formulation and handling, economics, storage stability, and the like.
[0051] Growth of cells. The cellular host containing the B.t. insecticidal gene or genes may be grown in any convenient nutrient medium, where the DNA construct provides a selective advantage, providing for a selective medium so that substantially all or all of the cells retain the B.t. gene. These cells may then be harvested in accordance with conventional ways. Alternatively, the cells can be treated prior to harvesting.
[0052] The B.t. cells producing the toxins of the invention can be cultured using standard art media and fermentation techniques. Upon completion of the fermentation cycle the bacteria can be harvested by first separating the B.t. spores and crystals from the fermentation broth by means well known in the art. The recovered B.t. spores and crystals can be formulated into a wettable powder, liquid concentrate, granules or other formulations by the addition of surfactants, dispersants, inert carriers, and other components to facilitate handling and application for particular target pests. These formulations and application procedures are all well known in the art.
[0053] Formulations. Formulated bait granules containing an attractant and spores, crystals, and toxins of the B.t. isolates, or recombinant microbes comprising the genes obtainable from the B.t. isolates disclosed herein, can be applied to the soil. Formulated product can also be applied as a seed-coating or root treatment or total plant treatment at later stages of the crop cycle. Plant and soil treatments of B.t. cells may be employed as wettable powders, granules or dusts, by mixing with various inert materials, such as inorganic minerals (phyllosilicates, carbonates, sulfates, phosphates, and the like) or botanical materials (powdered corncobs, rice hulls, walnut shells, and the like). The formulations may include spreader-sticker adjuvants, stabilizing agents, other pesticidal additives, or surfactants. Liquid formulations may be aqueous-based or non-aqueous and employed as foams, gels, suspensions, emulsifiable concentrates, or the like. The ingredients may include rheological agents, surfactants, emulsifiers, dispersants, or polymers.
[0054] As would be appreciated by a person skilled in the art, the pesticidal concentration will vary widely depending upon the nature of the particular formulation, particularly whether it is a concentrate or to be used directly. The pesticide will be present in at least 1% by weight and may be 100% by weight. The dry formulations will have from about 1-95% by weight of the pesticide while the liquid formulations will generally be from about 1 -60% by weight of the solids in the liquid phase. The formulations will generally have from about 102 to about 104 cells/mg. These formulations will be administered at about 50 mg (liquid or dry) to 1 kg or more per hectare.
[0055] The formulations can be applied to the environment of the lepidopteran pest, e.g., foliage or soil, by spraying, dusting, sprinkling, or the like.
[0056] Plant transformation. A preferred recombinant host for production of the insecticidal proteins of the subject invention is a transformed plant. Genes encoding Bt toxin proteins, as disclosed herein, can be inserted into plant cells using a variety of techniques which are well known in the art. For example, a large number of cloning vectors comprising a replication system in Escherichia coli and a marker that permits selection of the transformed cells are available for preparation for the insertion of foreign genes into higher plants. The vectors comprise, for example, pBR322, pUC series, M13mp series, pACYC184, inter alia. Accordingly, the DNA fragment having the sequence encoding the Bt toxin protein can be inserted into the vector at a suitable restriction site. The resulting plasmid is used for transformation into E. coli. The E. coli cells are cultivated in a suitable nutrient medium, then harvested and lysed. The plasmid is recovered. Sequence analysis, restriction analysis, electrophoresis, and other biochemical-molecular biological methods are generally carried out as methods of analysis. After each manipulation, the DNA sequence used can be cleaved and joined to the next DNA sequence. Each plasmid sequence can be cloned in the same or other plasmids. Depending on the method of inserting desired genes into the plant, other DNA sequences may be necessary. If, for example, the Ti or Ri plasmid is used for the transformation of the plant cell, then at least the right border, but often the right and the left border of the Ti or Ri plasmid T-DNA, has to be joined as the flanking region of the genes to be inserted. The use of T-DNA for the transformation of plant cells has been intensively researched and sufficiently described in EP 120 516, Lee and Gelvin (2008), Hoekema (1985), Fraley et al, (1986), and An et al, (1985), and is well established in the art.
[0057] Once the inserted DNA has been integrated in the plant genome, it is relatively stable. The transformation vector normally contains a selectable marker that confers on the transformed plant cells resistance to a biocide or an antibiotic, such as Bialaphos,
Kanamycin, G418, Bleomycin, or Hygromycin, inter alia. The individually employed marker should accordingly permit the selection of transformed cells rather than cells that do not contain the inserted DNA.
[0058] A large number of techniques are available for inserting DNA into a plant host cell. Those techniques include transformation with T-DNA using Agrobacterium tumefaciens or Agrobacterium rhizogenes as transformation agent, fusion, injection, biolistics
(microparticle bombardment), or electroporation as well as other possible methods. If Agrobacteria are used for the transformation, the DNA to be inserted has to be cloned into special plasmids, namely either into an intermediate vector or into a binary vector. The intermediate vectors can be integrated into the Ti or Ri plasmid by homologous
recombination owing to sequences that are homologous to sequences in the T-DNA. The Ti or Ri plasmid also comprises the vir region necessary for the transfer of the T-DNA.
Intermediate vectors cannot replicate themselves in Agrobacteria. The intermediate vector can be transferred into Agrobacterium tumefaciens by means of a helper plasmid
(conjugation). Binary vectors can replicate themselves both in E. coli and in Agrobacteria. They comprise a selection marker gene and a linker or polylinker which are framed by the Right and Left T-DNA border regions. They can be transformed directly into Agrobacteria (Holsters et ah, 1978). The Agrobacterium used as host cell is to comprise a plasmid carrying a vir region. The vir region is necessary for the transfer of the T-DNA into the plant cell. Additional T-DNA may be contained. The bacterium so transformed is used for the transformation of plant cells. Plant explants can advantageously be cultivated with Agrobacterium tumefaciens ox Agrobacterium rhizogenes for the transfer of the DNA into the plant cell. Whole plants can then be regenerated from the infected plant material (for example, pieces of leaf, segments of stalk, roots, but also protoplasts or suspension- cultivated cells) in a suitable medium, which may contain antibiotics or biocides for selection. The plants so obtained can then be tested for the presence of the inserted DNA. No special demands are made of the plasmids in the case of injection and electroporation. It is possible to use ordinary plasmids, such as, for example, pUC derivatives.
[0059] The transformed cells grow inside the plants in the usual manner. They can form germ cells and transmit the transformed trait(s) to progeny plants. Such plants can be grown in the normal manner and crossed with plants that have the same transformed hereditary factors or other hereditary factors. The resulting hybrid individuals have the corresponding phenotypic properties.
[0060] In a preferred embodiment of the subject invention, plants will be transformed with genes wherein the codon usage has been optimized for plants. See, for example, U.S. Patent No. 5,380,831, which is hereby incorporated by reference. While some truncated toxins are exemplified herein, it is well-known in the Bt art that 130 kDa-type (full-length) toxins have an N-terminal half that is the core toxin, and a C-terminal half that is the protoxin "tail." Thus, appropriate "tails" can be used with truncated / core toxins of the subject invention. See e.g. U.S. Patent No. 6,218,188 and U.S. Patent No. 6,673,990. In addition, methods for creating synthetic Bt genes for use in plants are known in the art (Stewart and Burgin, 2007). One non-limiting example of a preferred transformed plant is a fertile maize plant comprising a plant expressible gene encoding a CrylDa protein, and further comprising a second plant expressible gene encoding a CrylCa protein.
[0061] Transfer (or introgression) of the CrylDa- and CrylCa-determined trait(s) into inbred maize lines can be achieved by recurrent selection breeding, for example by backcrossing. In this case, a desired recurrent parent is first crossed to a donor inbred (the non-recurrent parent) that carries the appropriate gene(s) for the Cry ID- and CrylC- determined traits. The progeny of this cross is then mated back to the recurrent parent followed by selection in the resultant progeny for the desired trait(s) to be transferred from the non-recurrent parent. After three, preferably four, more preferably five or more generations of backcrosses with the recurrent parent with selection for the desired trait(s), the progeny will be heterozygous for loci controlling the trait(s) being transferred, but will be like the recurrent parent for most or almost all other genes (see, for example, Poehlman & Sleper (1995) Breeding Field Crops, 4th Ed., 172-175; Fehr (1987) Principles of Cultivar Development, Vol. 1 : Theory and Technique, 360-376).
[0062] Insect Resistance Management (IRM) Strategies. Roush et ah, for example, outlines two-toxin strategies, also called "pyramiding" or "stacking," for management of insecticidal transgenic crops. (The Royal Society. Phil. Trans. R. Soc. Lond. B. (1998) 353, 1777- 1786).
[0063] On their website, the United States Environmental Protection Agency
(epa.gov/oppbppdl/biopesticides/pips/bt_corn_refuge_2006.htm) publishes the following requirements for providing non-transgenic (i.e., non-B.t.) refuges (a section of non-Bt crops / corn) for use with transgenic crops producing a single Bt protein active against target pests. "The specific structured requirements for corn borer-protected Bt (CrylAb or
Cry IF) corn products are as follows:
Structured refuges: 20% non-Lepidopteran Bt corn refuge in Corn Belt;
50% non-Lepidopteran Bt refuge in Cotton Belt
Blocks
Internal (i.e., within the Bt field)
External (i.e., separate fields within ½ mile (¼ mile if possible) of the
Bt field to maximize random mating)
In-field Strips
Strips must be at least 4 rows wide (preferably 6 rows) to reduce
the effects of larval movement"
[0064] In addition, the National Corn Growers Association, on their website:
(ncga.com/insect-resistance-management-fact-sheet-bt-corn)
[0065] also provides similar guidance regarding the refuge requirements. For example:
"Requirements of the Corn Borer IRM:
-Plant at least 20% of your corn acres to refuge hybrids
-In cotton producing regions, refuge must be 50%>
-Must be planted within 1/2 mile of the refuge hybrids
-Refuge can be planted as strips within the Bt field; the refuge strips must be at least 4 rows wide
-Refuge may be treated with conventional pesticides only if economic thresholds are reached for target insect
-Bt-based sprayable insecticides cannot be used on the refuge corn
-Appropriate refuge must be planted on every farm with Bt corn"
[0066] As stated by Roush et al. (on pages 1780 and 1784 right column, for example), stacking or pyramiding of two different proteins each effective against the target pests and with little or no cross-resistance can allow for use of a smaller refuge. Roush suggests that for a successful stack, a refuge size of less than 10% refuge, can provide comparable resistance management to about 50% refuge for a single (non-pyramided) trait. For currently available pyramided Bt corn products, the U.S. Environmental Protection Agency requires significantly less (generally 5%) structured refuge of non-Bt corn be planted than for single trait products (generally 20%).
[0067] There are various ways of providing the IRM effects of a refuge, including various geometric planting patterns in the fields (as mentioned above) and in-bag seed mixtures, as discussed further by Roush et al. (supra), and U.S. Patent No. 6,551,962.
[0068] The above percentages, or similar refuge ratios, can be used for the subject double or triple stacks or pyramids. For triple stacks with three sites of action against a single target pest, a goal would be zero refuge (or less than 5% refuge, for example). This is particularly true for commercial acreage - of over 10 acres for example.
[0069] All patents, patent applications, provisional applications, and publications referred to or cited herein are incorporated by reference in their entirety to the extent they are not inconsistent with the explicit teachings of this specification.
[0070] Unless specifically indicated or implied, the terms "a", "an", and "the" signify "at least one" as used herein.
[0071] Following are examples that illustrate procedures for practicing the invention.
These examples should not be construed as limiting. All percentages are by weight and all solvent mixture proportions are by volume unless otherwise noted. All temperatures are in degrees Celsius.
EXAMPLES
Example 1 - I Labeling of Cry Proteins
Iodination of Cry toxins. Purified truncated Cry toxins were was iodinated using Iodo-Beads or Iodo-gen (Pierce). Briefly, two Iodo-Beads were washed twice with 500 μΐ of phosphate buffered saline, PBS (20 mM sodium phosphate, 0.15 M NaCl, pH 7.5), and placed into a 1.5 ml centrifuge tube behind lead shielding. To this was added 100 μΐ of PBS. In a hood and through the use of proper radioactive handling techniques, 0.5 mCi Na125I (17.4 Ci/mg, Lot 01 14, Amersham) was added to the PBS solution with the Iodo-Bead. The components were allowed to react for 5 minutes at room temperature, then 2-25 μg of highly pure truncated Cry protein was added to the solution and allowed to react for an additional 3-5 minutes. The reaction was terminated by removing the solution from the iodo-beads and applying it to a 0.5 ml desalting Zeba spin column (InVitrogen) equilibrated in PBS. The iodo-bead was washed twice with 10 μΐ of PBS each and the wash solution also applied to the desalting column. The radioactive solution was eluted through the desalting column by centrifugation at 1,000 x g for 2 min. In the case of Cry 1 Da, the Iodo- gen method was used to conduct the radiolabeling procedure. Using this procedure, the cry toxin in 100 mM phosphate buffer (pH 8) was first cleaned of lipopolysaccharides (LPS) by passing it through a small 0.5 ml polymyxin column multiple times. To the iodo-gen tube (Pierce Chem. Co.) was added 20 μg of the LPS-free CrylDa toxin, then 0.5 mCi of Na125I. The reaction mixture was shaken for 15 min at 25 °C. The solution was removed from the tube, and 50 μΐ of 0.2M non-radiolabeled Nal added to quench the reaction. The protein was dialyzed vs PBS with 3 changes of buffer to remove any unbound 125I.
Radio-purity of the iodinated Cry proteins was determined by SDS-PAGE, phosphorimaging and gamma counting. Briefly, 2 μΐ of the radioactive protein was separated by SDS-PAGE. After separation, the gels were dried using a BioRad gel drying apparatus following the manufacturer's instructions. The dried gels were imaged by wrapping them in Mylar film (12 μιη thick), and exposing them under a Molecular Dynamics storage phosphor screen (35 cm x 43 cm), for 1 hour. The plates were developed using a Molecular Dynamics Storm 820 phosphorimager and the imaged analyzed using ImageQuant™ software. The radioactive band along with areas immediately above and below the band were cut from the gel using a razor blade and counted in a gamma counter. Radioactivity was only detected in the Cry protein band and in areas below the band. No radioactivity was detected above the band, indicating that all radioactive contaminants consisted of smaller protein components than the truncated Cry protein. These components most probably represent degradation products.
Example 2 - BBMV Preparation Protocol
Preparation and Fractionation of Solubilized BBMV's. Last instar Spodoptera frugiperda, Ostrinia nubilalis, or Heleothis. zea larvae were fasted overnight and then dissected in the morning after chilling on ice for 15 minutes. The midgut tissue was removed from the body cavity, leaving behind the hindgut attached to the integument. The midgut was placed in 9X volume of ice cold homogenization buffer (300 mM mannitol, 5 mM EGTA, 17 mM tris. base, pH 7.5), supplemented with Protease Inhibitor Cocktail1 (Sigma P-2714) diluted as recommended by the supplier. The tissue was homogenized with 15 strokes of a glass tissue homogenizer. BBMV's were prepared by the MgCi2 precipitation method of Wolfersberger (1993). Briefly, an equal volume of a 24 mM MgCi2 solution in 300 mM mannitol was mixed with the midgut homogenate, stirred for 5 minutes and allowed to stand on ice for 15 min. The solution was centrifuged at 2,500 x g for 15 min at 4° C. The supernatant was saved and the pellet suspended into the original volume of 0.5-X diluted homogenization buffer and centrifuged again. The two supernatants were combined, centrifuged at 27,000 x g for 30 min at 4° C to form the BBMV fraction. The pellet was suspended into 10 ml homogienization buffer and supplemented to protease inhibitiors and centrifuged again at 27,000 x g of r30 min at 4 °C to wash the BBMV's. The resulting pellet was suspended into BBMV Storage Buffer (10 mM HEPES, 130 mM KC1, 10% glycerol, pH 7.4) to a concentration of about 3 mg/ml protein. Protein concentration was determined by using the Bradford method (1976) with bovine serum albumin (BSA) as the standard. Alkaline phosphatase determination was made prior to freezing the samples using the Sigma assay following manufacturer's instructions. The specific activity of this marker enzyme in the BBMV fraction typically increased 7-fold compared to that found in the midgut homogenate fraction. The BBMV's were aliquoted into 250 μΐ samples, flash frozen in liquid 2 and stored at -80°C.
1 Final concentration of cocktail components (in μΜ) are AEBSF (500), EDTA (250 mM), Bestatin (32), E-64 (0.35), Leupeptin (0.25), and Aprotinin (0.075). Example 3 - Method to Measure Binding of I Cry Proteins to BBMV Proteins
Binding of 125I Cry Proteins to BBMV's. To determine the optimal amount of BBMV protein to use in the binding assays, a saturation curve was generated. 125I radiolabeled Cry protein (0.5 nM) was incubated for 1 hr. at 28 °C with various amounts of BBMV protein, ranging from 0-500 μ§/πύ in binding buffer (8 mM NaHP04, 2 mM ΚΙ¾Ρ04, 150 mM NaCl, 0.1% bovine serum albumin, pH 7.4). Total volume was 0.5 ml. Bound 125I Cry protein was separated from unbound by sampling 150 μΐ of the reaction mixture in triplicate from a 1.5 ml centrifuge tube into a 500 μΐ centrifuge tube and centrifuging the samples at 14,000 x g for 6 minutes at room temperature. The supernatant was gently removed, and the pellet gently washed three times with ice cold binding buffer. The bottom of the centrifuge containing the pellet was cut out and placed into a 13 x 75-mm glass culture tube. The samples were counted for 5 minutes each in the gamma counter. The counts contained in the sample were subtracted from background counts (reaction with out any protein) and was plotted versus BBMV protein concentration. The optimal amount of protein to use was determined to be 0.15 mg/ml of BBMV protein.
To determine the binding kinetics, a saturation curve was generated. Briefly, BBMV's (150 μg/ml) were incubated for 1 hr. at 28 °C with increasing concentrations of 125I Cry toxin, ranging from 0.01 to 10 nM. Total binding was determined by sampling 150 μΐ of each concentration in triplicate, centrifugation of the sample and counting as described above. Non-specific binding was determined in the same manner, with the addition of 1 ,000 nM of the homologous trypsinized non-radioactive Cry toxin added to the reaction mixture to saturate all non-specific receptor binding sites. Specific binding was calculated as the difference between total binding and non-specific binding.
Homologous and heterologous competition binding assays were conducted using 150 μg/ml BBMV protein and 0.5 nM of the 125I radiolabeled Cry protein. The concentration of the competitive non-radiolabeled Cry toxin added to the reaction mixture ranged from 0.045 to 1,000 nM and were added at the same time as the radioactive ligand, to assure true binding competition. Incubations were carried out for 1 hr. at 28 °C and the amount of 125I Cry protein bound to its receptor toxin measured as described above with non-specific binding subtracted. One hundred percent total binding was determined in the absence of any competitor ligand. Results were plotted on a semi-logarithmic plot as percent total specific binding versus concentration of competitive ligand added.
Example 4 - Summary of Results
Figure 1 shows percent specific binding of 125I CrylDa (0.5 nM) in BBMV's from FAW versus competition by unlabeled homologous CrylDa (o) and heterologous CrylCa (■). The displacement curve for homologous competition by CrylDa results in a sigmoidal shaped curve showing 50% displacement of the radioligand at about 1.5 nM of CrylDa. CrylCa does not displace the specific binding of 125I CrylDa at any concentration tested, up to 1,000 nM, or 2,000 times the concentration of 125I CrylDa used in the assay.
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Tabashnik,B.E., Malvar,T., Liu,Y.B., Finson,N., Borthakur,D., Shin,B.S., Park,S.FL, Masson,L., de Maagd,R.A., and Bosch,D. (1996). Cross-resistance of the diamondback moth indicates altered interactions with domain II of Bacillus thuringiensis toxins. Appl. Environ. Microbiol. 62, 2839-2844.
Tabashnik,B.E., Roush,R.T., Earle,E.D., and Shelton,A.M. (2000). Resistance to Bt toxins. Science 287, 42.
Wolfersberger,M.G. (1993). Preparation and partial characterization of amino acid transporting brush border membrane vesicles from the larval midgut of the gypsy moth (Lymantria dispar). Arch. Insect Biochem. Physiol 24, 139-147.
Xu,X., Yu,L., and Wu,Y. (2005). Disruption of a cadherin gene associated with resistance to CrylAc {delta} -endotoxin of Bacillus thuringiensis in Helicoverpa armigera. Appl Environ Microbiol 71, 948-954.
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Claims

We claim:
1. A transgenic plant comprising DNA encoding a Cry 1 Da insecticidal protein and DNA encoding a CrylCa insecticidal protein.
2. The transgenic plant of claim 1, said plant further comprising DNA encoding a third insecticidal protein, said third protein being selected from the group consisting of CrylFa, Vip3Ab, CrylBe, and CrylE.
3. The transgenic plant of claim 2, wherein said third protein is selected from the group consisting of CrylFa and CrylBe, plant further comprising DNA encoding fourth and fifth insecticidal proteins selected from the group consisting of Cry2A, Cry II, DIG-3, and CrylAb.
4. Seed of a plant according to any of claims 1-3, wherein said seed comprises said DNA.
5. A field of plants comprising non-Bt refuge plants and a plurality of plants according to any of claims 1-3, wherein said refuge plants comprise less than 40% of all crop plants in said field.
6. The field of plants of claim 5, wherein said refuge plants comprise less than 30% of all the crop plants in said field.
7. The field of plants of claim 5, wherein said refuge plants comprise less than 20% of all the crop plants in said field.
8. The field of plants of claim 5, wherein said refuge plants comprise less than 10% of all the crop plants in said field.
9. The field of plants of claim 5, wherein said refuge plants comprise less than 5% of all the crop plants in said field.
10. The field of plants of claim 5, wherein said refuge plants are in blocks or strips.
1 1. A mixture of seeds comprising refuge seeds from non-Bt refuge plants, and a
plurality of seeds of claim 4, wherein said refuge seeds comprise less than 40% of all the seeds in the mixture.
12. The mixture of seeds of claim 11, wherein said refuge seeds comprise less than 30% of all the seeds in the mixture.
13. The mixture of seeds of claim 11, wherein said refuge seeds comprise less than 20% of all the seeds in the mixture.
14. The mixture of seeds of claim 11, wherein said refuge seeds comprise less than 10% of all the seeds in the mixture.
15. The mixture of seeds of claim 11, wherein said refuge seeds comprise less than 5% of all the seeds in the mixture.
16. A method of managing development of resistance to a Cry protein by an insect, said method comprising planting seeds to produce a field of plants of claim 5.
17. A field of any of claims 5-10, wherein said plants occupy more than 10 acres.
18. A plant of any of claims 1-3, wherein said plant is selected from the group
consisting of corn, soybeans, and cotton.
19. The plant of claim 18, wherein said plant is a maize plant.
20. A plant cell of a plant of any of claims 1-3, wherein said plant cell comprises said DNA encoding said CrylCa insecticidal protein and said DNA encoding said CrylDa insecticidal protein, wherein said CrylCa insecticidal protein is at least 99% identical with SEQ ID NO: l, and said CrylDa insecticidal protein is at least 99% identical with SEQ ID NO:2.
21. A plant of any of claims 1-3, wherein said CrylCa insecticidal protein comprises SEQ ID NO: l, and said CrylDa insecticidal protein comprises SEQ ID NO:2.
22. A method of producing the plant cell of claim 20.
23. A method of controlling a fall armyworm insect by contacting said insect with a CrylCa insecticidal protein and a CrylDa insecticidal protein.
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RU2012129909/10A RU2569108C2 (en) 2009-12-16 2010-12-16 APPLICATION OF Cry1Da IN COMBINATION WITH Cry1Ca FOR CONTROL OF RESISTANT INSECTS
NZ60110110A NZ601101A (en) 2009-12-16 2010-12-16 Use of cry1da in combination with cry1ca for management of resistant insects
CA2782557A CA2782557C (en) 2009-12-16 2010-12-16 Use of cry1da in combination with cry1ca for management of resistant insects
BR112012014681-5A BR112012014681B1 (en) 2009-12-16 2010-12-16 METHODS OF MANAGING THE DEVELOPMENT OF RESISTANCE TO PLANTS TRANSFORMED BY CRY PROTEINS BY A LEPIDOPTERA PEST AND OF CONTROL OF A CATERPILLAR INSECT
MX2012007123A MX345508B (en) 2009-12-16 2010-12-16 Use of cry1da in combination with cry1ca for management of resistant insects.
US13/516,663 US9796982B2 (en) 2009-12-16 2010-12-16 Use of Cry1Da in combination with Cry1Ca for management of resistant insects
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ES10842618T ES2710850T3 (en) 2009-12-16 2010-12-16 Use of Cry1Da in combination with Cry1Ca for the control of resistant insects
UAA201208628A UA112409C2 (en) 2009-12-16 2010-12-16 TRANSGENIC PLANT CONTAINING DNA CODING THE Cry1Da PROTEIN AND DNA CODING THE Cry1Ca PROTEIN FOR THE MANAGEMENT OF RESISTANT INSECTS OF SPODOPTERA FRUGIPERDA
AU2010339918A AU2010339918B2 (en) 2009-12-16 2010-12-16 Use of Cry1Da in combination with Cry1Ca for management of resistant insects
CN201080064025.8A CN102762733B (en) 2009-12-16 2010-12-16 With the Cry1Da of Cry1Ca combination for managing the purposes of resistant insects
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