EP1287352A2 - Method of screening for negative cross resistance - Google Patents
Method of screening for negative cross resistanceInfo
- Publication number
- EP1287352A2 EP1287352A2 EP01941896A EP01941896A EP1287352A2 EP 1287352 A2 EP1287352 A2 EP 1287352A2 EP 01941896 A EP01941896 A EP 01941896A EP 01941896 A EP01941896 A EP 01941896A EP 1287352 A2 EP1287352 A2 EP 1287352A2
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- European Patent Office
- Prior art keywords
- toxin
- strain
- population
- resistant
- susceptible
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- G—PHYSICS
- G01—MEASURING; TESTING
- G01N—INVESTIGATING OR ANALYSING MATERIALS BY DETERMINING THEIR CHEMICAL OR PHYSICAL PROPERTIES
- G01N33/00—Investigating or analysing materials by specific methods not covered by groups G01N1/00 - G01N31/00
- G01N33/48—Biological material, e.g. blood, urine; Haemocytometers
- G01N33/50—Chemical analysis of biological material, e.g. blood, urine; Testing involving biospecific ligand binding methods; Immunological testing
- G01N33/5005—Chemical analysis of biological material, e.g. blood, urine; Testing involving biospecific ligand binding methods; Immunological testing involving human or animal cells
- G01N33/5008—Chemical analysis of biological material, e.g. blood, urine; Testing involving biospecific ligand binding methods; Immunological testing involving human or animal cells for testing or evaluating the effect of chemical or biological compounds, e.g. drugs, cosmetics
- G01N33/5082—Supracellular entities, e.g. tissue, organisms
- G01N33/5085—Supracellular entities, e.g. tissue, organisms of invertebrates
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- C—CHEMISTRY; METALLURGY
- C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
- C12Q—MEASURING OR TESTING PROCESSES INVOLVING ENZYMES, NUCLEIC ACIDS OR MICROORGANISMS; COMPOSITIONS OR TEST PAPERS THEREFOR; PROCESSES OF PREPARING SUCH COMPOSITIONS; CONDITION-RESPONSIVE CONTROL IN MICROBIOLOGICAL OR ENZYMOLOGICAL PROCESSES
- C12Q1/00—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions
- C12Q1/02—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions involving viable microorganisms
- C12Q1/18—Testing for antimicrobial activity of a material
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- G—PHYSICS
- G01—MEASURING; TESTING
- G01N—INVESTIGATING OR ANALYSING MATERIALS BY DETERMINING THEIR CHEMICAL OR PHYSICAL PROPERTIES
- G01N2333/00—Assays involving biological materials from specific organisms or of a specific nature
- G01N2333/435—Assays involving biological materials from specific organisms or of a specific nature from animals; from humans
- G01N2333/43504—Assays involving biological materials from specific organisms or of a specific nature from animals; from humans from invertebrates
- G01N2333/43552—Assays involving biological materials from specific organisms or of a specific nature from animals; from humans from invertebrates from insects
- G01N2333/43569—Assays involving biological materials from specific organisms or of a specific nature from animals; from humans from invertebrates from insects from flies
- G01N2333/43573—Assays involving biological materials from specific organisms or of a specific nature from animals; from humans from invertebrates from insects from flies from Drosophila
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- G—PHYSICS
- G01—MEASURING; TESTING
- G01N—INVESTIGATING OR ANALYSING MATERIALS BY DETERMINING THEIR CHEMICAL OR PHYSICAL PROPERTIES
- G01N2430/00—Assays, e.g. immunoassays or enzyme assays, involving synthetic organic compounds as analytes
- G01N2430/10—Insecticides
Definitions
- This invention relates generally to negative cross resistance, and more particularly, to evaluating the efficacy of molecules to determine molecules that exhibit negative cross resistance.
- Negative cross-resistance as a strategy for insecticide resistance management refers to a scenario where organisms tolerant to one compound are highly sensitive to another compound and vice versa. For example, if one treats an insect population with a toxin such as pesticide A', the number of insects carrying alleles resistant to pesticide A' will increase in frequency. After numerous generations, insects carrying the resistance allele will comprise the majority of the population. At this time a second toxin that preferentially kills those insects tolerant to the first toxin is used to treat the insect population. Use of the second toxin changes the frequency of the alleles such that the first toxin can again be used to control the insects' population for one to several generations. By alternately deploying the two toxins, a NCR strategy can be used to maintain effective control of the pest while 'managing' the resistance alleles in the insect population.
- a toxin such as pesticide A'
- insects carrying the resistance allele will comprise the majority of the population.
- a second toxin that preferential
- Negative cross-resistance has been shown to occur with a wide variety of organisms. It has been observed with pesticides used to control German cockroaches, diamondback moths, mosquitoes, spider mites, and horn flies. Additionally, this phenomenon has been observed in weeds resistant to herbicides, fungal strains resistant to fungicides, and in bacteria resistant to antibiotics. Negative cross-resistance has been associated, in some cases, with a single amino acid change in the targeted allele. For example, negative cross-resistance in Ustilaho maydies between the fungicides benzimidazole and diethofencarb was due to a mutation at a single locus.
- a method of evaluating the efficacy of a molecule against a target population comprises determining a susceptible strain in the target population and selecting for the resistant strain in the target population.
- the susceptible strain being susceptible to the first toxin and the resistant strain being resistant to the first toxin.
- the method further comprises evaluating the efficacy of the resistant strain with a plurality of compounds to determine a second toxin that is more toxic to the resistant strain than to the susceptible strain, evaluating the efficacy of a heterozygous strain of the target population with separate applications of the first toxin and the second toxin, and assigning a priority rating to the second toxin if the separate applications of the first toxin and the second toxin are at least as toxic to the heterozygous strain as to the susceptible strain.
- a method for testing for negative cross resistance in a target population. The method comprises determining a susceptible strain (S/S) in the target population, the susceptible strain (S/S) susceptible to a first toxin, selecting for a resistant strain (R/R) in the target population, the resistant strain (R/R) resistant to the first toxin, evaluating the efficacy of the resistant strain (R/R) with between about 10 and 10 9 molecules to determine a second toxin that is more toxic to the resistant strain (R/R) than to the susceptible strain (S/S), evaluating the efficacy of a heterozygous strain (R/S) of the target population with separate applications of the first toxin and the second toxin to determine if separate applications of the first toxin and the second toxin are at least as toxic to the heterozygous strain (R S) as to the susceptible strain (S/S), and assigning a high negative cross resistance priority to the second toxin if the separate applications of the first toxin and the second
- a method for screening chemicals to determine a commercialization prioritization for the compounds.
- the method comprises determining a susceptible strain (S/S) in a target population, the susceptible strain (S/S) susceptible to a first toxin, selecting for a resistant strain (R/R) in the target population, the resistant strain (R/R) resistant to the first toxin, testing the resistant strain (R/R) with a number of molecules to determine at least one chemical that is more toxic to the resistant strain (R/R) than to the susceptible strain (S/S), testing a heterozygous strain (R/S) of the target population with separate applications of the at least one chemical and the first toxin to determine if the at least one chemical and the first toxin are at least as toxic to the heterozygous strain (R/S) as to the susceptible strain (S/S), assigning a high priority to the at least one molecule if the at least one molecule and the first toxin are at least as toxic to the heterozygous strain (R/S)
- a method for managing resistant alleles in a target population. The method comprises determining a susceptible strain in the target population, the susceptible strain being susceptible to the first toxin, selecting for a resistant strain in the target population, the resistant strain including at least one resistant allele, the resistant allele providing resistance to the resistant strain against the first toxin, screening the resistant strain with a plurality of molecules to determine a second toxin that is more toxic to the resistant strain than to the susceptible strain, screening a heterozygous strain of the target population with separate applications of the first toxin and the second toxin, and prioritizing the second toxin for commercialization testing if the separate applications of the first toxin and the second toxin are at least as toxic to the heterozygous strain as to the susceptible strain.
- a method for managing a tract of land against a resistant strain of a target population. The method comprises determining a susceptible strain in a target population, the susceptible strain susceptible to the first toxin, selecting for the resistant strain which is resistant to the first toxin, evaluating the resistant strain to determine a second toxin that is more toxic to the resistant strain than to the susceptible strain, evaluating a heterozygous strain of the target population with separate applications of the first toxin and the second toxin, and utilizing the second toxin to manage the land against the resistant strain if the separate applications of the first toxin and the second toxin are at least as toxic to the heterozygous strain as to the susceptible strain.
- a method for managing a portfolio that includes a plurality of molecules. The method comprises selecting a target population, obtaining a first strain in the target population, the first strain susceptible to a first toxin, obtaining a second strain in the target population, the second strain resistant to the first toxin, evaluating the efficacy of the second strain with multiple molecules in the portfolio to determine multiple second toxins that are more toxic to the second strain than to the first strain, evaluating the efficacy of a third strain of the target population with separate applications of the first toxin and the second toxins, the third strain heterozygous for resistance to the first toxin, and prioritizing the second toxins based on their performance in the second strain evaluation and in the third strain evaluation.
- a method for assessing whether to develop a molecule included within a molecule portfolio.
- the method comprises evaluating the efficacy of a resistant strain of a target population with molecules in the molecule portfolio, selecting a molecule that is more toxic to the resistant strain than to a susceptible strain, the susceptible strain susceptible to a first toxin, the resistant strain resistant to the first toxin, evaluating the efficacy of a heterozygous strain of the target population with separate applications of the first toxin and the selected molecule, the heterozygous strain heterozygous for resistance to the first toxin, and selecting the molecule for commercialization if the separate applications of the first toxin and the selected molecule are at least as toxic to the heterozygous strain as to the susceptible strain.
- a method for controlling an insect population on a tract of land. The method comprises obtaining an insect strain susceptible to a first toxin, obtaining an insect strain resistant to the first toxin, screening the resistant insect strain with a plurality of molecules, determining a second toxin that is more toxic to the resistant insect strain than to the susceptible insect strain, screening a heterozygous insect strain with separate applications of the first toxin and the second toxin, determining if separate applications of the first toxin and the second toxin are at least as toxic to the heterozygous strain as to the susceptible strain, and utilizing the second toxin to control the insect population on the tract of land if separate applications of the first toxin and the second toxin are at least as toxic to the heterozygous insect strain as to the susceptible insect strain.
- a method for utilizing a pest management system to manage a pest population.
- the system including a plurality of molecules.
- the method comprises determining a susceptible strain in the pest population, the susceptible strain susceptible to a first toxin, selecting for a resistant strain in the pest population, the resistant strain resistant to the first toxin, evaluating the resistant strain to determine a second toxin that is more toxic to the resistant strain than to the susceptible strain, evaluating a heterozygous strain with the first toxin and the second toxin applied at the same time, and utilizing the second toxin to manage the pest population if the application of the first toxin and the second toxin at the same time are at least as toxic to the heterozygous strain as to the susceptible strain.
- a method for utilizing a pest management system to manage a pest population.
- the system including a plurality of molecules.
- the method comprises determining a susceptible strain in the pest population, the susceptible strain susceptible to a first toxin, selecting for a resistant strain in the pest population, the resistant strain resistant to the first toxin, evaluating the resistant strain to determine a second toxin that is more toxic to the resistant strain than to the susceptible strain, evaluating a heterozygous strain of the target population with separate applications of the first toxin and the second toxin, and utilizing the second toxin to manage the pest population if the separate applications of the first toxin and the second toxin are at least as toxic to the heterozygous strain as to the susceptible strain.
- a method for utilizing a pest management system that includes a plurality of molecules. The method comprises selecting a pest population, obtaining a first strain in the pest population, the first strain susceptible to a first toxin, obtaining a second strain in the pest population, the second strain resistant to the first toxin, evaluating the efficacy of the second strain with multiple molecules in the system to determine multiple second toxins that are more toxic to the second strain than to the first strain, evaluating the efficacy of a third strain of the pest population with separate applications of the first toxin and at least one second toxins, the third strain heterozygous for resistance to the first toxin, and selecting at least one of the at least one second toxin to manage the pest population based on the performance of the selected at least one of the at least one second toxin in the second strain evaluation and in the third strain evaluation.
- a method for utilizing a pest management system that includes a plurality of molecules. The method comprises selecting a pest population, obtaining a first strain in the pest population, the first strain susceptible to a first toxin, obtaining a second strain in the pest population, the second strain resistant to the first toxin, evaluating the efficacy of the second strain with multiple molecules in the system to determine multiple second toxins that are more toxic to the second strain than to the first strain, evaluating the efficacy of the third strain with the first toxin and at least one second toxin applied at the same time, and selecting at least one of the at least one second toxin to manage the pest population based on the performance of the selected at least one of the at least one second toxin if the application of the first toxin and the second toxin at the same time are at least as toxic to the third strain as to the first strain.
- a method for evaluating a molecule for negative cross resistance.
- the method comprising using a Rst(2)DDT locus in Drosophila melanogaster as a resistance locus for use in negative cross resistance screens for molecules capable of controlling metabolic resistance to insecticides.
- a method is provided for evaluating molecules for negative cross resistance. The method comprising using a putative target site locus in Drosophila melanogaster as a resistance locus for use in negative cross resistance screens for molecules capable of controlling metabolic resistance to insecticides.
- Figure 1 is a graphic illustration of the concurrent use of two toxins that are negative cross resistance factors on a target population where both toxins cause equal mortality in homozygous wild-type and mutant insects, and the heterozygotes are unaffected by the combination.
- Figure 2 is a graphic illustration of the concurrent use of two toxins that are negative cross resistance factors on a target population where the two toxins cause equal homozygous mortality rates and the heterozygotes have higher mortality rates than the homozygotes.
- Figure 3 is a graphic illustration of the concurrent use of two toxins that are negative cross resistance factors on a target population where the first toxin causes a 99% mortality rate to the homozygous wild-type insects, the second toxin causes a 70% mortality rate to the homozygous resistant insects, and 70% of the heterozygous target population are killed.
- Figure 4 is a graphic illustration of the concurrent use of two toxins that are negative cross resistance factors on a target population where both toxins cause a 70% mortality rate in the homozygous wild-type and mutant insect population, and the heterozygotes are either unaffected by the combination or they are much more susceptible.
- Figure 5 illustrates the effect of starting allelic frequency on the fate of the resistance allele in the presence of two negative cross resistance factors that kill both homozygous lines (susceptible and resistant) at a 50% level and the heterozygotes at a 70% level.
- Figure 6 illustrates a method of screening for compounds to be deployed commercially as NCR factors.
- Figure 7 is a Northern blot of Canton-S (Can-S), DDT-resistant line with no exposure to DDT (Rst(2)DDT- Wisconsin), and the DDT-resistant fly line with exposure to 20 ⁇ g /vial of DDT for 24 hours (Rst(2)DDT-Wisconsin-20 ⁇ g of
- Figure 8 illustrates a method of providing management decisions for the development of NCR factors.
- Figure 9 is a graphical illustration of the application of deltamethrin, DDT, and the combination of deltamethrin and DDT at the same time to para tsl flies,
- Exemplary embodiments of systems and methods that facilitate evaluating the efficacy of molecules to determine negative cross resistance factors are described below.
- the systems and methods facilitate, for example, evaluating the efficacy of molecules against a target population including a strain resistant to a first toxin, evaluating the efficacy of molecules for negative cross resistance in a target population, and evaluating the efficacy of molecules to determine an advancement order for advancement to additional evaluation regarding commercialization prioritization for the compounds.
- the evaluation methods are often described in terms of an entire process, it should be understood that each evaluation method can be used alone, or in combination with any of the other evaluations described hereinafter.
- the term molecules includes, but is not limited to, natural molecules, synthetic molecules, chemicals, compounds, biotechnical species, and biotechnical moieties.
- evaluating the efficacy includes testing, screening, and determining.
- target population includes a pest population which includes any living organism growing where it is unwanted, including, but not limited to, a weed population, a bacterial population, an insect population, a fungus population, a virus population, and a population of disease contributing organisms living in a body of a mammal.
- a population strain and in particular, an insect strain, is defined as at least one of a genotype, a phenotype, a genotype and a phenotype, a group of genotypes, a group of phenotypes, and a group of genotypes and phenotypes, that display a response to a toxin in terms of a life history parameter.
- a life history parameter is defined in terms of mortality rates (Lethal time 50 (LT50) or lethal dose 50 (LD50)) or developmental time or other terms.
- a strain contains at least one genotype or phenotype that is resistant or susceptible. Resistance and susceptibility are relative terms and are defined in relation to each other
- Resistance ratio is defined as a genotype or phenotype that requires high rates of application to achieve high mortality rates or in which high rates of application of the chemicals do not result in high mortality rates in the resistant strain. High rates, in practical terms include levels of application of the toxin above the acceptable label rate as defined by regulatory agencies.
- a resistance ratio is the LD50 of resistant insects (strain 1) divided by the LD50 of susceptible insects (strain 2). For example:
- the resistance ratio can be provided as a number (e.g'. 2) or as a ratio 2:1.
- a resistance ratio indicating resistance is defined, between strain 1 and strain 2 as 1.5:1 or greater (e.g. 10,000,000:1 ratio). This ratio covers a broad range of toxic ratios. For example, a 1:10,000,000 ratio indicates that the resistant insect could walk on crystals of the toxin without being impacted.
- Table 1 illustrates the concurrent use of two toxins to minimize both the frequency of resistance alleles as well as the size of a target population, for example, an insect population.
- Table 1 shows the impact of the toxicity of the second toxin on both the change in allelic frequency of the resistance allele and the effective control of the insect population.
- the first toxin causes a 99% mortality rate in the homozygous wild-type insects.
- both toxins do not have similar levels of toxicity on the homozygous lines they impact, the allele susceptible to the least toxic compound will increase in frequency. As the allele susceptible to the least toxic compound becomes more common, the toxin-pair becomes less effective in controlling the insect population. In addition, both toxins must kill the heterozygous and homozygous insects at a high rate in order to keep the insect population below economic thresholds.
- Table 2 illustrates the concurrent use of two toxins where the homozygous mortality rates are equal for the two compounds and the heterozygotes have either lower or higher mortality rates than the homozygotes.
- Figures 1 through 4 graphically illustrate the concurrent use of two toxins that are negative cross resistance factors on a target population, such as an insect population. If the combined toxins kill more heterozygotes than homozygotes, 5 the allelic frequency of mutant alleles tend to go to an extreme value, i.e., either close to fixation or close to extinction depending on initial frequency.
- both toxins cause equal mortality in homozygous wild-type and mutant insects, but the heterozygotes are unaffected by the combination (1% heterozygous mortality).
- the two toxins cause equal mortality rates in the homozygous lines and the I o heterozygotes have higher mortality rates than the homozygotes.
- the allelic frequency of the two alleles approaches a 50% equilibrium point.
- the first toxin causes a 99% mortality rate to the homozygous wild-type insects
- the second toxin causes a 70% mortality rate to the homozygous resistant insects.
- 70% of the heterozygous target population are killed (in addition to the background mortality rate).
- both toxins cause a 70% mortality rate in the homozygous wild-type and mutant insect population, but the heterozygotes are either unaffected by the combination (1% heterozygote mortality) or they are much more susceptible (99% heterozygote mortality).
- allelic frequency of the two alleles approaches a 50% equilibrium, the pesticide combination is not effective in controlling the insect population. It is important to note that high heterozygous fitness as compared to both homozygotes is rare in nature. Since heterozygous fitness in the presence of both toxins has not typically been investigated in field and laboratory examples of NCR it is difficult to assess how rare the phenomenon is. hi cases where high heterozygote fitness is observed in screens to discover NCR factors, such toxins should typically be given low priority for commercial development.
- the resistance allele may occasionally tend to high frequency when the two toxins are used.
- the starting allelic frequency of resistance is greater than 10%
- the second NCR factor which kills the resistant insects preferentially
- the probability of keeping the resistance allele at a low frequency when the two toxins are used together (See, for example, Figure 5). Once resistance is driven to a low frequency, the single toxin can again be used.
- Figure 5 illustrates the effect of starting allelic frequency on the fate of the resistance allele in the presence of two negative cross resistance factors that kill both homozygous lines (susceptible and resistant) at a 50% level and the heterozygotes at a 70% level.
- the X-axis represents the time (in days) from the start of the experiment and the Y-axis represents the average fate of the alleles (replicate of 10,000 with a starting population of 10,000) from the given starting frequency shown in Figure 5 for each of the lines.
- the first NCR toxin is used on its own, until the resistance allele becomes common enough in the population that the first toxin is no longer effective in controlling the population. At this time, the toxin pair is then used on the insect population such that the allelic frequency of resistance moves back to a low level.
- Using the second NCR factors sparingly may ultimately be more economically acceptable than the continuous use of two toxins.
- resistant alleles can be managed in a target population.
- the current generation of pesticides includes toxins isolated from bacterial broths, such as Spinosad, and transgenic plants containing genes that code for an insecticidal protein. It is highly likely that in some cases target-site insensitivity to these new classes of insecticides occur in the pest insects. Target-site insensitivity is a major mechanism of resistance to second generation pesticides. After deploying these novel toxins, it is likely that a single (or multiple) point mutation in the gene coding for the target site in the insect's gut or other target system results in the insects developing field resistance. Additionally, metabolic resistance may occur where the insects have a greater ability to alter the toxin such that it has reduced toxic activity.
- NCR factors do occur within classes of toxins, there is no distinct reason to believe that NCR factors will only be found in the same class of compounds as the first toxin.
- exemplary screens for NCR toxins involve random screens for compounds. The random screens are, in one embodiment, coupled with a 'clue-based' screen.
- An advantage of random screening for NCR factors is that an understanding of the molecular basis of resistance is not necessary for the development of the second compound. Knowledge on the molecular basis of resistance typically lags years behind the first appearance of resistant insects in the field. However, knowing the basis of resistance is helpful for 'clue-based' screening. But if discovery of the molecular basis of pesticide resistance is too costly or time consuming, one may be able to use the resistant line (or lines) in a random screen for NCR factors.
- Tests using resistant and susceptible lines of insects are easily , integrated into current large-scale automated screening methodologies.
- the screens identify compounds that are toxic to the resistant line (or lines) in the bioassay and not toxic to the insect lines that are susceptible to the already commercialized toxin.
- Figure 6 illustrates a method 100 of evaluating the efficacy of compounds to be deployed commercially as NCR factors.
- a first toxin is developed and deployed 102 commercially.
- the first toxin is lethal to at least a portion of a target population, e.g., an insect population.
- a susceptible strain (S/S) of the target population is determined that is susceptible to the first toxin.
- S/S susceptible strain
- a strain of the target population that is resistant to the first toxin begins to develop and grow.
- the resistant strain is selected for 104 to be used in a NCR evaluation. In one embodiment, the resistant strain is selected for using a field collected strain.
- the resistant strain is selected for using an EMS-mutagenized line selected for pesticide resistance.
- an EMS-mutagenized line selected for pesticide resistance is selected for using an EMS-mutagenized line selected for pesticide resistance.
- DDT and pyrethroid resistance mutations have been identified in regions of the Drosophila sodium channel, para, that have not been observed in nature.
- One of the resistance mutation lines studied showed no NCR to AalT, but the naturally occurring kdr (from field lines of insects) showed 9 to 14-fold more susceptibility to this compound.
- the use of EMS-mutagenized lines to screen for negative cross resistance in large-scale bioassays may result in failing to identify compounds that may be effective in resistance found in the field.
- NCR factors from EMS-mutagenized lines may not be ultimately useful in field resistant lines of insects.
- a homozygous resistant strain is evaluated 106 with a number of potentially toxic molecules, e.g., natural molecules, synthetic molecules, chemicals, compounds, biotechnical species, and biotechnical moieties, to determine a second toxin that is more toxic to the resistant strain (R/R) than to the susceptible strain (S/S).
- the toxic molecules include variants, mutants, metabolites, and derivatives.
- a susceptible control strain (S/S) is also evaluated with the same compounds.
- the strains are evaluated with between about
- strains are evaluated with about 10 to about 10 compounds
- the compounds are evaluated with about 10 3 to about 10 7 compounds
- compounds to be screened include chemicals from known pesticides, insect biocides, and their variants, mutants, metabolites, and derivatives.
- Exemplary chemicals include a) Bacillus thuringiensis proteins and their variants, b) clorinated hydrocarbons, c) organophosphates, d) pyrethroids, e) carbamates, f) variants of toxins from the bacteria Photorhabdus luminescens, g) insect growth regulators and their derivatives, h) alpha-amylase inhibitors, i) lectins, j) Spinosad derivatives, k) spinosyns and their derivatives, 1) derivatives of insecticidal compounds from the bacteria Saccharopolyspora spinosa, m) Bacillus thuringiensis strains and their variants, n) protease inhibitors and their derivatives, o) Cysteine protease inhibitors and their derivatives, p) Bowman-Birk Inhibitors and their derivatives, q) Kunitz inhibitors and their derivatives, r) Saccharopolyspora spinosa strains
- molecules are supplied from randomly or selectively generated chemicals, and random or selective (chemical rationale approach) screening of chemicals.
- the molecules to be evaluated further include molecules supplied from bio-prospecting from plant, animal, bacteria, and fungal organisms or extracts of these organisms and from prokaryotic or eukaryotic organisms.
- the molecules to be evaluated also include molecules supplied from the generation of antibodies showing preference for binding to proteins or protein complexes or membranes in the organism involved in negative cross resistance (binding preference for versions of the protein that are resistant to the first toxin) and generation of random peptide libraries and bio-panning using phage display.
- a random peptide library is made and is screened for affinity to the product of the target of interest, e.g., the gene product of the target site.
- the resistant allele more specifically the protein product, is then used to identify a protein that has high affinity to the gene product to generate a NCR toxin for specifically targeting the resistant insect.
- the molecules to be evaluated also include molecules obtained from combinatorial shape libraries and molecules supplied using combinatorial chemistry.
- resistance should be determined whether resistance is sex-linked, since if the resistance is sex-linked, individuals of the proper sex that carry two alleles of the gene should be used. For example, since Drosophila is XY for males and XX for females, a bioassay in this species for a sex linked resistance should initially focus on females.
- the heterozygotes are screened by using separate applications of the first toxin and the positive compound being tested, i.e., the second toxin, to determine if separate applications of the first toxin and the second toxin are at least as toxic to the heterozygous strain (R/S) as to the susceptible strain (S/S) of the target population.
- the positive compound is given a high priority for development 112 and commercial exploitation.
- a high negative cross resistance priority is assigned to the second toxin if separate applications of the first toxin and the second toxin are at least as toxic to the heterozygous strain (R/S) as to the susceptible strain (S/S).
- R/S heterozygous strain
- S/S susceptible strain
- the heterozygous strain is evaluated 114 with the first toxin and the second toxin applied at the same time to determine 116 if the application of the first toxin and the second toxin at the same time is at least as toxic to the heterozygous strain (R/S) as to the susceptible strain (S/S). If the application of the first toxin and the second toxin at the same time is not at least as toxic to the heterozygous strain as to the susceptible strain 116, the compound is given a low priority for further development.
- the second toxins are prioritized based on their performance in the resistant strain evaluation and in the heterozygous strain evaluation. At least one of the highest prioritized second toxins is selected for advancement to additional evaluation to determine a commercialization prioritization.
- an economically acceptable rate is, in one embodiment, a rate that someone is willing to pay for using the compounds to obtain a desired effect on the target population.
- a high negative cross resistance priority is assigned to the second toxin if the first toxin and the second toxin can be applied to the target population at the same time at an economically acceptable rate.
- the second toxin in one embodiment, is applied every time the first toxin is applied. In an alternative embodiment, the second toxin is applied intermittently with application of the first toxin, e.g., the second toxin is applied every other time the first toxin is applied.
- both toxins can be applied at the same time every time, one of the toxins can be applied on an intermittent basis, both toxins can be applied on an intermittent basis, and the toxins can be applied in an alternating type application.
- the toxins are delivered to the target population utilizing at least one of sprays, pellets, powders, baited or non-baited traps, and transgenic organisms. For example, in the case of weeds, a first compound is applied to the field by spraying the compound on the weeds. If resistant forms exist in the particular field, a second compound is then applied to the field.
- transgenic antibodies or antibody conjugates with toxins attached could be used in the selection assays.
- the above described method is used to manage a tract of land against a resistant strain of a target population.
- the above described method is used to control an insect population on a tract of land.
- the above described method is used as part of a pest management system to manage a pest population.
- the above described method is not limited to whole organism screening.
- components from the insects could be used for adaptations in in vitro screens of target sites. It is known that insects develop resistance to plant inhibitors and bio-panning helps to develop new forms of inhibitors useful in control of the insects .
- a compound is selected in vitro that works better at the resistant target site than the susceptible target site. This compound is then subjected to the screening process described above to determine if the compound is a viable NCR factor.
- the above described method is utilized to select for a first virus that kills the insects resistant to a second virus.
- the viruses are made transgenic in plants. Eventually, the insects become resistant to the first virus.
- the above method is then used to evaluate variants of the viruses or other related viruses.
- DDT resistance in Drosophila melanogaster Drosophila
- PTU phenyl-thio- urea
- the cytochrome P450 enzymes causing resistance to DDT bio-activate the PTU into a toxic compound.
- the DDT-resistant Drosophila line has higher mortality and takes longer to develop than the susceptible flies.
- potential NCR compounds are screened to determine if the toxins impact other life- history parameters, e.g., delays in developmental time, reduction of the fecundity of only the resistant insect lines. If a NCR toxin is used that delays developmental time, the resistance allele can be kept at a lower level in the population.
- Exemplary insect lines that can be used to screen for compounds include, but are not limited to, Drosophila lines including Rst(2)DDT- Wisconsin and Rst(2)DDT-Hikone. Both lines exhibit NCR between DDT and PTU. More particularly, Rst(2)DDT (also known as Dimethylmtrosamine demethylase; Dmnd) exists between cinnabar (en) and vestigal (vg) and evidence exists to suggest that the Rst(2)DDT locus is the gene CYP6G1 (a cytochrome P450 gene) and resistance is due to over-expression in the Rst(2)DDT- Wisconsin fly line.
- Dmnd Dimethylmtrosamine demethylase
- Rst(2)DDT is located at the cytological position 48A-49D (Recombination map position 64.5-66.0 on Chromosome 2).
- the position of CYP6G1 is 48F1 (Cytological position) and it thus lies in the middle of the resistance region. See for example, FlyBase (htt ⁇ ://cbbridges.harvard.edu:7081 .
- Figure 7 is a Northern blot of Canton-S (Can-S), DDT-resistant line with no exposure to DDT (Rst(2)DDT- Wisconsin), and the DDT-resistant fly line with exposure to 20 ⁇ g /vial of DDT for 24 hours (Rst(2)DDT-Wisconsin-20 ⁇ g of DDT).
- the blot was probed with actin and CYP6G1 cDNA.
- Resistance has been associated with increased expression of cytochrome P450 genes, as is typical of metabolically resistant insects.
- over-expression of CYP6G1 which had >10-fold expression as compared to the susceptible fly line (Canton-s) was observed.
- the above described method is utilized with an Rst(2)DDT fly line to develop chemicals that selectively target resistance. If this mechanism of resistance is common to other species, metabolically resistant Drosophila can be used to screen for NCR toxins that can reduce metabolic resistance in other insect species, hi an exemplary embodiment, the screening method is used to identify toxins to minimize metabolic resistance in mosquitoes that transmit malaria.
- Rst(2)DDT is known to confer resistance to DDT, chlordane, lindane, and imidacloprid and Rst(2)DDT can be targeted to develop toxins to control metabolic resistance to one or all of these compounds.
- putative target sites other than Rst(2)DDT.
- exemplary putative target sites include, but are not limited to, acetylcholinesterases, voltage-gated sodium channels,
- GABA receptors Rdl or Resistance to Dieldrin in Drosophila is an example
- esterases cytochrome P450s
- neurotransmitter uptake channels cation and ion channel
- aromatic biogenic amine receptors and Glutathione-S-Transferases.
- Anther putative target site is CY6G1 in Drosophila also currently refereed to as to as (a) CG8453, (b) AF083946, C6Gl_DROME, AC Q9V674 and O76800 in gene nomenclature.
- Figure 8 is a method 150 of providing management decisions for the development of NCR factors.
- Method 150 includes observing 152 field resistance against a compound commercially deployed to reduce the number of pests in a target population on a tract of land.
- Testing 154 is conducted on a group of NCR factors that were discovered to be effective against the resistant lines bio-assayed in the laboratory. The testing is conducted against the field resistant line of the target population.
- a determination is made 156 regarding whether any compound tested is effective against the target population. If no compounds are found to be effective against the target population, the large scale screening process is repeated 158 using field resistant insects in the bioassay. If compounds are found to be effective against the target population, the effective compounds are prioritized 160 and a decision is made for each such compound regarding whether to initiate 162 a resistant management program to slow entry of the resistant alleles into the insect population • and commercially develop 164 the compound.
- a first factor influencing the decision to develop a NCR factor is the diversity of resistance mechanisms in the field. If the forms of resistance that occur in the field are highly uniform (i.e., similar forms of resistance) this uniformity increases the priority given to the development of negative-cross resistance factors.
- Commercial development of a NCR factor may be feasible if there are highly uniform aniino acid changes across divergent taxa and the resistance mechanism is uniform in the field.
- NCR factor Resistance to toxins that have little commercial value, such as insecticides that are useful in minor or niche markets, may not justify the costs of developing NCR factors. Alternatively, resistance to commonly used antibiotics may warrant the development of multiple NCR factors (effective against different forms of resistance) due to the commercial value of these compounds. Screens for NCR factors may also be useful in the discovery of compounds that kill antibiotic resistant bacteria: Large-scale screens can be performed with antibiotic susceptible and resistant bacterial strains to identify compounds that selectively kill the antibiotic resistant (but not the susceptible) bacteria. These compounds can then be incorporated into materials or medicines that reduce the numbers of antibiotic resistant bacteria in a given environment. As with pesticide resistance, the diversity of resistance alleles and the nature of the antibiotic resistance genes influence how feasible such a screen is for dealing with antibiotic resistance.
- testing is conducted to determine how useful the compound would be in the field.
- Field trials of the compound involve testing a field including a first organism, e.g., an insect, plant, bacteria, virus, and others, with a mixture of resistant and susceptible lines (genotypes/phenotypes). The frequency of resistance is determined before application and after application to determine an effectiveness of the compounds.
- a first organism e.g., an insect, plant, bacteria, virus, and others
- the frequency of resistance is determined before application and after application to determine an effectiveness of the compounds.
- NCR factors utilize a combination of basic research, marketing, extension services, and field applicators of the product.
- research teams access field collected lines of resistant insects to develop effective toxins capable of killing insects that contain those alleles thought most likely to emerge in a field population.
- basic research programs determine the underlying molecular basis of field resistance this information is used to develop molecular diagnostics to determine the frequency of the allele in the insect population being targeted.
- the NCR factors are delivered to the target population utilizing at least one of sprays, pellets, powders, baited or non-baited traps, and transgenic organisms.
- a model for the developmental cycle of a hypothetical insect pest was formulated and the following assumptions were made.
- the number of progeny per female had a Poisson distribution, mean fecundity, ⁇ and was assumed to be 60 offspring per female. When there were fewer than 20 mating pairs the progeny was simulated directly. Above 20 mating pairs, the total number of progeny was approximated using the normal distribution.
- the number of insects of each genotype among the total progeny has a multinomial distribution with the proportion of each genotype being given by their respective Hardy- Weinberg frequencies.
- the number of males and females was binomialfy distributed with the expected ratio of males to females in the population being 1:1.
- the proportion of mutant alleles in the population is initially equal to m (mutation rate). Initially there are N 0 insects in different stages of development in the population. Each insect mates once on average.
- Mating occurs, with equal probability, at any time during the breeding period of the insect's adulthood (3.5 days of breeding). Mutation rate (per individual, per unit time) is constant, as is female fecundity. The developmental times for the following stages are egg (7 days), larval development (30 days) and reproductive period (3.5 days). The standard (background) mortality rate was calculated using an egg mortality of 5%, a larval establishment mortality of 5%, and a larval developmental mortality of 20%. It is further assumed that the genotype does not affect the background mortality rate such that the background mortality is independent of the mortality caused by the pesticide or pesticides. A Monte Carlo simulation tool, i.e., a decisioneering tool, was used to estimate the maximum population size and mutant allelic frequency after a given number of days.
- the model calculated these values at each half-day. Given the number of adults mating during a time interval, the number of progeny was determined, and these progeny were classified as homozygous wild-type, homozygous mutants, or heterozygous for these alleles (based on Hardy- Weinberg frequencies). Selection and mutation occurred before the mating phase for each insect.
- the allelic frequency of the resistance allele approached 50% asympotically.
- the combined toxins killed more heterozygotes than homozygotes and the resistance allele was rare at the start of the experiment, the allele was likely to remain rare.
- the resistance allele was already common in the population when the two-toxin regime (both compounds used at once) was initiated (where there was greater heterozygote toxicity than homozygote toxicity), the resistance allele ultimately went to an extreme value (near 0% or near 100%).
- the probability of the allele going to fixation (100%) or extinction (0%), or close to these values, depended on its starting frequency. If the resistance allele started below 50%, on average it would tend towards extinction. The further the starting allelic frequency was below 50% the greater the probability that the allele would be lost from the population. On the other hand, if the frequency of the resistance allele exceeded 50% at the start of the concurrent treatments, then the resistance allele would on average go to fixation. If the starting allelic frequency was at 50% then the allele was as likely to tend towards fixation as it was to go to extinction.
- heterozygotes are resistant to deltamethrin and resistance is dominant.
- heterozygotes are resistant to DDT.
- resistance was not recessive to either deltamethrin or DDT.
- An additional test was conducted to determine if DDT and deltamethrin applied at the same time killed the heterozygotes.
- FIG 9 graphically illustrates the application of deltamethrin by itself 200, the application of DDT by itself 202, and the application of both deltamethrin and DDT at the same time 204 to para tsl flies, Canton-S flies, and heterozygotes.
- both deltamethrin and DDT together killed the heterozygotes better than either deltamethrin or DDT on its own.. Therefore, DDT and deltamethrin combined effectively to kill the heterozygotes and it was determined that deltamethrin and DDT are NCR factors.
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