WO2019154520A1 - Downy mildew resistant sunflower plants - Google Patents

Downy mildew resistant sunflower plants Download PDF

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WO2019154520A1
WO2019154520A1 PCT/EP2018/053423 EP2018053423W WO2019154520A1 WO 2019154520 A1 WO2019154520 A1 WO 2019154520A1 EP 2018053423 W EP2018053423 W EP 2018053423W WO 2019154520 A1 WO2019154520 A1 WO 2019154520A1
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seq
amino acid
ala
helianthus annuus
downy mildew
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PCT/EP2018/053423
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French (fr)
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Christianus Cornelis Nicolaas Van Schie
Tieme ZEILMAKER
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Scienza Biotechnologies 5 B.V.
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Priority to PCT/EP2018/053423 priority Critical patent/WO2019154520A1/en
Publication of WO2019154520A1 publication Critical patent/WO2019154520A1/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
    • C12N15/8282Phenotypically 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 fungal resistance
    • AHUMAN NECESSITIES
    • A01AGRICULTURE; FORESTRY; ANIMAL HUSBANDRY; HUNTING; TRAPPING; FISHING
    • A01HNEW PLANTS OR NON-TRANSGENIC PROCESSES FOR OBTAINING THEM; PLANT REPRODUCTION BY TISSUE CULTURE TECHNIQUES
    • A01H5/00Angiosperms, i.e. flowering plants, characterised by their plant parts; Angiosperms characterised otherwise than by their botanic taxonomy
    • A01H5/02Flowers
    • AHUMAN NECESSITIES
    • A01AGRICULTURE; FORESTRY; ANIMAL HUSBANDRY; HUNTING; TRAPPING; FISHING
    • A01HNEW PLANTS OR NON-TRANSGENIC PROCESSES FOR OBTAINING THEM; PLANT REPRODUCTION BY TISSUE CULTURE TECHNIQUES
    • A01H6/00Angiosperms, i.e. flowering plants, characterised by their botanic taxonomy
    • A01H6/14Asteraceae or Compositae, e.g. safflower, sunflower, artichoke or lettuce
    • 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
    • C12N15/8242Phenotypically and genetically modified plants via recombinant DNA technology with non-agronomic quality (output) traits, e.g. for industrial processing; Value added, non-agronomic traits
    • C12N15/8243Phenotypically and genetically modified plants via recombinant DNA technology with non-agronomic quality (output) traits, e.g. for industrial processing; Value added, non-agronomic traits involving biosynthetic or metabolic pathways, i.e. metabolic engineering, e.g. nicotine, caffeine
    • C12N15/8251Amino acid content, e.g. synthetic storage proteins, altering amino acid biosynthesis

Definitions

  • the present invention relates to sunflower plants ( Helianthus annuus) being resistant to the plant disease downy mildew and especially to sunflower plants ( Helianthus annuus ) being resistant to the downy mildew disease causing pathogen Plasmopara halstedii.
  • the present invention further relates to seeds and plant part of the present plants and to methods for identifying downy mildew resistant sunflower plants ( Helianthus annuus).
  • Plants employ diverse constitutive and inducible defense strategies to counteract colonization by microbial pathogens and attacks of herbivorous insects. Plant responses induced upon pathogen encounter are triggered by non-self-recognition of common microbial structures and by highly pathogen- specific effectors.
  • Arabidopsis have identified several downy mildew resistance genes that appear to be involved in susceptibility to downy mildew oomycete pathogens. In Arabidopsis, knockdown mutations provide protection against downy mildew. Map-based cloning revealed that a downy mildew resistance gene designated as DMR1 encodes homoserine kinase (HSK) protein which catalyzes the conversion of homoserine to homoserine- 4-phosphate, a step in the Asp-derived Thr biosynthesis pathway. The homoserine kinase (HSK) protein substrate homoserine, which is present at low levels in the wild-type, accumulates in dmrl mutant lines.
  • DMR1 downy mildew resistance gene designated as DMR1 encodes homoserine kinase (HSK) protein which catalyzes the conversion of homoserine to homoserine- 4-phosphate, a step in the Asp-derived Thr biosynthesis pathway.
  • HSK homoserine kinase
  • Helianthus, or sunflower is a genus of plants comprising about 70 species in the family Asteraceae.
  • Helianthus annuus is cultivated in temperate regions and some tropical regions as food crops for humans, cattle, and poultry, and as ornamental plants.
  • Plasmopara halstedii is a plant pathogen infecting sunflowers.
  • the species is one of many pathogens commonly referred to as downy mildew.
  • Plasmopara halstedii is an obligate biotroph that attacks flowering plants of the Asteraceae family. The pathogen causes significant yield losses due to seedling collapse (damping off), plant stunting, chlorosis, root browning and alteration of secondary metabolism of infected plants.
  • Plasmopara halstedii is nearly impossible to eradicate. Between long surviving resting spores and high levels of secondary inoculum, Plasmopara halstedii can affect anywhere from 50% to 95% of sunflowers in the field in a single season.
  • Seed treatment has been shown to be effective in controlling the disease, as the establishment of Plasmopara halstedii in an area of soil is nearly irreversible.
  • the compounds metalaxyl and oxadixyl have been shown to protect seeds in the case of infection, and treatments containing these compounds are commercially available.
  • some strains of Plasmopara halstedii show resistance to metalaxyl-based fungicides.
  • this object of the present invention is met by Helianthus annuus plants, which plants are resistant to downy mildew disease due to one or more amino acid substitutions in the homoserine kinase protein shown in SEQ ID No. 1 or a reduced expression of the gene encoding SEQ ID No.l and of which the coding sequence, including 5’and 3’untranslated regions, is shown in SEQ ID No. 3.
  • HSK homoserine kinase
  • HSK homoserine kinase
  • the present one or more mutations in SEQ ID No. 1 can be provided by generally known plant mutagenesis techniques such as ethyl methane sulfonate (EMS) or radiation or by genetic modification of the coding sequence as shown in SEQ ID No. 3.
  • Reduced expression can be obtained through generally known techniques such as RNAi or manipulation of the promoter sequence directly 5’ upstream of the coding sequence of SEQ ID No. 3.
  • the downy mildew disease is caused by the pathogen Plasmopara halstedii.
  • the present one or more amino acid substitutions in the homoserine kinase protein shown in SEQ ID No. 1 provide a homoserine concentration of 50 to 2000 ng/mg fresh weight in the leaves of said plant.
  • DMR1 based resistance requires a delicate balancing between maintaining a sufficiently high concentration, or activity, of homoserine kinase (HSK) protein in a plant cell to allow for synthesis of essential amino acids and a sufficiently low concentration, or activity, of homoserine kinase (HSK) protein in a plant cell to provide downy mildew resistance.
  • the present inventors have surprisingly found that in planta homoserine concentrations of at least 50 ng/mg fresh weight in the leaves, either through amino acid substitutions or reduced expression, provide the present downy mildew resistance. It is noted that in susceptible plants homoserine concentrations are considerably lower than 50 ng/mg fresh weight.
  • the present one or more amino acid substitutions in the homoserine kinase protein shown in SEQ ID No. 1 , or reduced expression of the gene encoding SEQ ID No. 1, provide an in planta homoserine concentration of 100 to 700 ng/mg fresh in the leaves.
  • Helianthus annuus plants comprise an amino acid substitution at position 247, more preferably an amino acid substitution of methionine with a non-polar amino acid at position 247, most preferably an amino acid substitution methionine for isoleucine (M247I) at position 247.
  • the amino acid sequence of the latter is shown in SEQ ID No. 2 and the coding sequence, including 5’and 3’untranslated regions, in SEQ ID No. 4.
  • the present Helianthus annuus plants comprise one or more amino acid substitutions in the homoserine kinase protein shown in SEQ ID No. 1 such as SEQ ID No. 2, wherein the protein is
  • the present invention also relates to seeds or plant parts thereof and to a downy mildew resistance providing homoserine kinase protein comprising one or more amino acid substitutions in the homoserine kinase protein shown in SEQ ID No. 1 , preferably the homoserine kinase protein comprising the amino acid sequence of SEQ ID No. 2.
  • the present invention also allows for methods for identifying a downy mildew resistant Helianthus annuus plant, wherein the method comprises the step of establishing the presence of one or more amino acid substitutions in the homoserine kinase protein shown in SEQ ID No. 1 , preferably the step of establishing the presence of SEQ ID No. 2.
  • Figure 1 shows that SEQ ID No. 1 can functionally complement the Arabidopsis dmrl mutant
  • Figure 2 shows that SEQ ID No. 2 dmrl mutant M247I accumulates medium levels of homoserine but mutant A249T does not;
  • Figure 3 shows an impression of DM infection assay on whole seedlings. Pictures were taken 14 days after inoculation and the two lower panels are wild-type control lines;
  • Figure 4 shows Helianthus annuus dmrl mutant (M4 generation) DM test (seedling dip inoculation, 5*E4 spores/ml, DM-isolate 307. Sporulation was induced at 13 dpi and scored at 14dpi.
  • the coding sequence of the Sunflower DMR1 gene was cloned into a plant expression vector driven by the Cauliflower mosaic virus 35S promoter.
  • the resulting construct was transformed into the Arabidopsis dmrl mutant (background is Landsberg edsl) using the Agrobacterium mediated floral dipping method.
  • Transgenic seedlings were infected with downy mildew ( Hyaloperonospora Arabidopsidis) and sporulation levels (disease severity) were compared to susceptible control (“edsl”) and resistant control (“edsl.dmrl”).
  • edsl susceptible control
  • edsl.dmrl resistant control
  • transgenic expression of sunflower DMR1 restored susceptibility of the Arabidopsis dmrl mutant.
  • sunflower DMR1 is functional.
  • DM-infected sunflower plantlets (DM-maintenance/culture) were put in 100% RH to induce DM-sporulation.
  • DM spores were harvested by shaking infected leaves in water. Spores were counted on a haemocytometer and the spore-suspension was adjusted to 50,000 spores per ml.
  • the 4d-old seedlings were incubated in the spore-suspension for a few hours, and then potted. After 13 days, sporulation was induced by overnight incubation of the pots with seedlings at 100%RH.
  • SEQ ID No. 1 the wild-type amino acid methionine at position 247 is indicated in bold.
  • SEQ ID No. 2 the present resistance providing isoleucine at position 247 is indicated in bold.
  • SEQ ID No. 3 encoding SEQ ID No. 1
  • the coding sequence is indicated in uppercase while 5’ upstream and 3’ downstream (regulatory) sequences are indicated in lowercase.
  • SEQ ID No. 4 encoding SEQ ID No. 2
  • the coding sequence is indicated in uppercase while 5’ upstream and 3’ downstream (untranslated) sequences are indicated in lowercase.
  • the mutation G to A responsible for the present amino acid substitution is indicated in bold in SEQ ID Nos 3 and 4.
  • Gly lie Gly Asp Phe Val Thr Leu Lys Val Asp Pro Gin Thr Pro Pro
  • Gly Glu lie Ser lie Ser Asp lie Thr Gly Thr Gly Asn Ser Ala Lys
  • Gly lie Gly Asp Phe Val Thr Leu Lys Val Asp Pro Gin Thr Pro Pro
  • Gly Glu lie Ser lie Ser Asp lie Thr Gly Thr Gly Asn Ser Ala Lys
  • Asp Lys lie Val Glu Pro Lys Arg Ala Pro Leu lie Pro Gly Met Glu 290 295 300

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Abstract

The present invention relates to sunflower plants (Helianthus annuus) being resistant to the plant disease downy mildew and especially to sunflower plants (Helianthus annuus) being resistant to the downy mildew disease causing pathogen Plasmopara halstedii. The present invention further relates to seeds and plant part of the present plants and to methods for identifying downy mildew resistant sunflower plants. Specifically, the present invention relates to Helianthus annuus plants being resistant to downy mildew disease wherein the resistance is provided by one or more amino acid substitutions in the homoserine kinase protein shown in SEQ ID No. 1 or a reduced expression of the gene encoding SEQ ID No.1.

Description

DOWNY MILDEW RESISTANT SUNFLOWER PLANTS
Description
The present invention relates to sunflower plants ( Helianthus annuus) being resistant to the plant disease downy mildew and especially to sunflower plants ( Helianthus annuus ) being resistant to the downy mildew disease causing pathogen Plasmopara halstedii. The present invention further relates to seeds and plant part of the present plants and to methods for identifying downy mildew resistant sunflower plants ( Helianthus annuus).
Plants employ diverse constitutive and inducible defense strategies to counteract colonization by microbial pathogens and attacks of herbivorous insects. Plant responses induced upon pathogen encounter are triggered by non-self-recognition of common microbial structures and by highly pathogen- specific effectors.
Obligate biotrophic phytopathogens such as the causal pathogens of powdery and downy mildew diseases employ highly specialized infection strategies. Genetic studies on
Arabidopsis have identified several downy mildew resistance genes that appear to be involved in susceptibility to downy mildew oomycete pathogens. In Arabidopsis, knockdown mutations provide protection against downy mildew. Map-based cloning revealed that a downy mildew resistance gene designated as DMR1 encodes homoserine kinase (HSK) protein which catalyzes the conversion of homoserine to homoserine- 4-phosphate, a step in the Asp-derived Thr biosynthesis pathway. The homoserine kinase (HSK) protein substrate homoserine, which is present at low levels in the wild-type, accumulates in dmrl mutant lines.
However, considering that DMR1 based resistance directly interferes with the biosynthesis of essential amino acids, the development of viable and commercially interesting plants has been hampered. For example, it is very difficult to obtain plants in which expression of homoserine kinase has been completely abolished for example through introduction of a premature stop-codon in the coding sequence because, generally, introducing a premature stop-codon results in lethality or a severe hampering of plant development.
Accordingly, using DMR1 based resistance in plants requires a delicate balancing between maintaining a sufficiently high concentration, or activity, of homoserine kinase (HSK) protein in a plant cell to allow for adequate synthesis of essential amino acids and a sufficiently low concentration, or activity, of homoserine kinase (HSK) in a plant cell to provide downy mildew resistance.
Helianthus, or sunflower, is a genus of plants comprising about 70 species in the family Asteraceae. The common name, "sunflower", typically refers to the annual species Helianthus annuus whose round flower heads in combination with the ligules look like the sun. Helianthus annuus is cultivated in temperate regions and some tropical regions as food crops for humans, cattle, and poultry, and as ornamental plants.
Plasmopara halstedii is a plant pathogen infecting sunflowers. The species is one of many pathogens commonly referred to as downy mildew. Plasmopara halstedii is an obligate biotroph that attacks flowering plants of the Asteraceae family. The pathogen causes significant yield losses due to seedling collapse (damping off), plant stunting, chlorosis, root browning and alteration of secondary metabolism of infected plants.
Once the pathogen has been detected in an area, management is essential, as Plasmopara halstedii is nearly impossible to eradicate. Between long surviving resting spores and high levels of secondary inoculum, Plasmopara halstedii can affect anywhere from 50% to 95% of sunflowers in the field in a single season.
Seed treatment has been shown to be effective in controlling the disease, as the establishment of Plasmopara halstedii in an area of soil is nearly irreversible. The compounds metalaxyl and oxadixyl have been shown to protect seeds in the case of infection, and treatments containing these compounds are commercially available. However, some strains of Plasmopara halstedii show resistance to metalaxyl-based fungicides.
Considering the above, there is a need in the art for sunflowers, or Helianthus annuus, plants in which resistance is encoded by a genetic determinant or resistance gene. It is an object of the present invention, amongst other objects, to address this need in the art.
This object of the present invention, amongst other objects, is met by the provision of Helianthus annuus plants as outlined in the appended claims.
Specifically, this object of the present invention, amongst other objects, is met by Helianthus annuus plants, which plants are resistant to downy mildew disease due to one or more amino acid substitutions in the homoserine kinase protein shown in SEQ ID No. 1 or a reduced expression of the gene encoding SEQ ID No.l and of which the coding sequence, including 5’and 3’untranslated regions, is shown in SEQ ID No. 3.
The present inventors have surprisingly found that through amino acid substitution or a reduced, but not absent, expression, a sufficient activity of homoserine kinase (HSK) can be maintained in Helianthus annuus to allow for synthesis of essential amino acids and,
simultaneously, a sufficient low activity of homoserine kinase (HSK) can be obtained to provide downy mildew resistance.
The present one or more mutations in SEQ ID No. 1 can be provided by generally known plant mutagenesis techniques such as ethyl methane sulfonate (EMS) or radiation or by genetic modification of the coding sequence as shown in SEQ ID No. 3. Reduced expression can be obtained through generally known techniques such as RNAi or manipulation of the promoter sequence directly 5’ upstream of the coding sequence of SEQ ID No. 3. According to a preferred embodiment, the downy mildew disease is caused by the pathogen Plasmopara halstedii.
According to another preferred embodiment, the present one or more amino acid substitutions in the homoserine kinase protein shown in SEQ ID No. 1 provide a homoserine concentration of 50 to 2000 ng/mg fresh weight in the leaves of said plant. As indicated above, DMR1 based resistance requires a delicate balancing between maintaining a sufficiently high concentration, or activity, of homoserine kinase (HSK) protein in a plant cell to allow for synthesis of essential amino acids and a sufficiently low concentration, or activity, of homoserine kinase (HSK) protein in a plant cell to provide downy mildew resistance.
The present inventors have surprisingly found that in planta homoserine concentrations of at least 50 ng/mg fresh weight in the leaves, either through amino acid substitutions or reduced expression, provide the present downy mildew resistance. It is noted that in susceptible plants homoserine concentrations are considerably lower than 50 ng/mg fresh weight.
According to yet another preferred embodiment, the present one or more amino acid substitutions in the homoserine kinase protein shown in SEQ ID No. 1 , or reduced expression of the gene encoding SEQ ID No. 1, provide an in planta homoserine concentration of 100 to 700 ng/mg fresh in the leaves.
According to a more preferred embodiment of the invention, the present
Helianthus annuus plants comprise an amino acid substitution at position 247, more preferably an amino acid substitution of methionine with a non-polar amino acid at position 247, most preferably an amino acid substitution methionine for isoleucine (M247I) at position 247. The amino acid sequence of the latter is shown in SEQ ID No. 2 and the coding sequence, including 5’and 3’untranslated regions, in SEQ ID No. 4.
According to another more preferred embodiment of the present invention, the present Helianthus annuus plants comprise one or more amino acid substitutions in the homoserine kinase protein shown in SEQ ID No. 1 such as SEQ ID No. 2, wherein the protein is
homozygously encoded in the genome of the Helianthus annuus plants.
Considering the benefits of the Helianthus annuus plants as outlined above, the present invention also relates to seeds or plant parts thereof and to a downy mildew resistance providing homoserine kinase protein comprising one or more amino acid substitutions in the homoserine kinase protein shown in SEQ ID No. 1 , preferably the homoserine kinase protein comprising the amino acid sequence of SEQ ID No. 2.
The present invention also allows for methods for identifying a downy mildew resistant Helianthus annuus plant, wherein the method comprises the step of establishing the presence of one or more amino acid substitutions in the homoserine kinase protein shown in SEQ ID No. 1 , preferably the step of establishing the presence of SEQ ID No. 2.
The present invention will be further outlined in the examples below. In the examples, reference is made to figures wherein:
Figure 1: shows that SEQ ID No. 1 can functionally complement the Arabidopsis dmrl mutant;
Figure 2: shows that SEQ ID No. 2 dmrl mutant M247I accumulates medium levels of homoserine but mutant A249T does not;
Figure 3: shows an impression of DM infection assay on whole seedlings. Pictures were taken 14 days after inoculation and the two lower panels are wild-type control lines;
Figure 4: shows Helianthus annuus dmrl mutant (M4 generation) DM test (seedling dip inoculation, 5*E4 spores/ml, DM-isolate 307. Sporulation was induced at 13 dpi and scored at 14dpi.
EXAMPLES
Example 1: Complementation assay
The coding sequence of the Sunflower DMR1 gene was cloned into a plant expression vector driven by the Cauliflower mosaic virus 35S promoter. The resulting construct was transformed into the Arabidopsis dmrl mutant (background is Landsberg edsl) using the Agrobacterium mediated floral dipping method. Transgenic seedlings were infected with downy mildew ( Hyaloperonospora Arabidopsidis) and sporulation levels (disease severity) were compared to susceptible control (“edsl”) and resistant control (“edsl.dmrl”). As shown in Figure 1, transgenic expression of sunflower DMR1 restored susceptibility of the Arabidopsis dmrl mutant. Hence, sunflower DMR1 is functional.
Example 2: Measurement of homoserine concentrations
Leaves from DMR1 mutants and wild- type control plants were sampled and weighed. Samples were homogenized and extracted with water. Samples were re-extracted with chloroform for further cleanup. Half volume of acetonitrile was added to the upper phase, samples were spun and the supernatant was used for metabolite analysis using HPLC-MS/MS. External standards were used for quantitation of homoserine and other amino-acids. Reference samples were included, which represent dmrl mutants from Arabidopsis and other species, with previously confirmed homoserine-accumulation. As shown in Figure 2, analysis of two different sunflower dmrl mutants, M247I and A249T, revealed that M247I is a homoserine-accumulator, whereas A249T is not.
Example 3: Plasmopara halstedii infection assay
Seeds from mutant and wild-type sunflowers were germinated on wet filter-paper for 4 days. Meanwhile, DM-infected sunflower plantlets (DM-maintenance/culture) were put in 100% RH to induce DM-sporulation. DM spores were harvested by shaking infected leaves in water. Spores were counted on a haemocytometer and the spore-suspension was adjusted to 50,000 spores per ml. The 4d-old seedlings were incubated in the spore-suspension for a few hours, and then potted. After 13 days, sporulation was induced by overnight incubation of the pots with seedlings at 100%RH. Sporulation was scored by counting the number of cotyledons and first true leaves that show sporulation (Figures 3 and 4). While 40-80% of wild-type leaves show sporulation, sporulation on leaves of dmrl M247I mutants is less than 5%.
The sequences of the corresponding SEQ ID Nos 1 to 4 referred herein are presented below in a sequence listing. In SEQ ID No. 1 , the wild-type amino acid methionine at position 247 is indicated in bold. In SEQ ID No. 2, the present resistance providing isoleucine at position 247 is indicated in bold. In SEQ ID No. 3 encoding SEQ ID No. 1 , the coding sequence is indicated in uppercase while 5’ upstream and 3’ downstream (regulatory) sequences are indicated in lowercase. In SEQ ID No. 4 encoding SEQ ID No. 2, the coding sequence is indicated in uppercase while 5’ upstream and 3’ downstream (untranslated) sequences are indicated in lowercase. The mutation G to A responsible for the present amino acid substitution is indicated in bold in SEQ ID Nos 3 and 4.
SEQUENCE LISTING
<110> SciENZA Biotechnologies 5 B.V.
<120> DOWNY MILDEW RESISTANT SUNFLOWER PLANTS
<130> 4/2WL15/61
<160> 4
<170> BiSSAP 1.3.6
<210> 1
<211> 376
<212> PRT
<213> Helianthus annuus
<400> 1
Met Ala lie Cys His His His Pro Thr Phe His Thr His His Ala Phe 1 5 10 15
Pro Pro Thr Thr Thr Pro Thr Pro His Leu His Leu His Leu Arg Leu
20 25 30
Pro Ser Ser Phe Arg Cys Asn Leu Ser Val Thr
Figure imgf000007_0001
Pro Pro
Figure imgf000007_0002
Leu
35 40 45
Glu Pro Glu Pro Val Tyr Thr Ser Val Lys Ser Phe Ala Pro Ala Thr 50 55 60
Val Ala Asn Leu Gly Pro Gly Phe Asp Phe Leu Gly Cys Ala Val Asp 65 70 75 80
Gly lie Gly Asp Phe Val Thr Leu Lys Val Asp Pro Gin Thr Pro Pro
85 90 95
Gly Glu lie Ser lie Ser Asp lie Thr Gly Thr Gly Asn Ser Ala Lys
100 105 110
Lys Leu Ser Lys Asn Pro Asn Trp Asn Cys Ala Gly He Ala Ala lie
115 120 125
Ser Val Met Lys Met Leu Asn lie Arg Ser Val Gly Leu Ser Leu Glu 130 135 140
Leu Glu Lys Gly Leu Pro Leu Gly Ser Gly Leu Gly Ser Ser Ala Ala 145 150 155 160
Ser Ala Ala Ala Ala Ala Val Ala Val Asn Glu Leu Phe Gly Gly Lys 165 170 175
Leu Pro Ala Ser Glu Leu Val Leu Ala Gly Leu Glu Ser Glu Ala Lys
180 185 190
Val Ser Gly Tyr His Ala Asp Asn lie Ala Pro Ala lie Met Gly Gly
195 200 205
Phe Val Leu Val Arg Ser Tyr Asp Pro Leu Glu Leu lie Ser Leu Arg 210 215 220
Phe Pro Ser Asp Lys Asn Leu Cys Phe Val Leu Val Asn Pro Glu Phe 225 230 235 240
Glu Ala Pro Thr Lys Lys Met Arg Ala Ala Leu Pro Thr Glu lie Ser
245 250 255
Met Ser Gin His lie Trp Asn Ser Ser Gin Ala Gly Ala Leu Val Ala
260 265 270
Ala Val Leu Gin Gly Asp Leu Val Gly Leu Gly Lys Ala Leu Ser Asn
275 280 285
Asp Lys lie Val Glu Pro Lys Arg Ala Pro Leu lie Pro Gly Met Glu
290 295 300
Glu Val Lys Arg Ala Ala Leu Glu Ala Gly Ala Phe Gly Cys Thr He
305 310 315 320
Ser Gly Ala Gly Pro Thr Ala Val Ala lie Val Asp Asp Glu Glu Lys
325 330 335
Gly Arg Val lie Gly Glu Lys Met Val Glu Ala Phe Met Val Gly Gly
340 345 350
Asn Leu Lys Ala Gin Ala Met Val Lys Lys Leu Asp Arg Val Gly Ala
355 360 365
Arg Leu Val Ser Ser Ser Ser Arg
370 375
<210> 2
<211> 376
<212> PRT
<213> Helianthus annuus
<400> 2
Met Ala lie Cys His His His Pro Thr Phe His Thr His His Ala Phe 1 5 10 15
Pro Pro Thr Thr Thr Pro Thr Pro His Leu His Leu His Leu Arg Leu
20 25 30
Pro Ser Ser Phe Arg Cys Asn Leu Ser Val Thr Ser Pro Pro Lys Leu 35 40 45
Glu Pro Glu Pro Val Tyr Thr Ser Val Lys Ser Phe Ala Pro Ala Thr 50 55 60
Val Ala Asn Leu Gly Pro Gly Phe Asp Phe Leu Gly Cys Ala Val Asp 65 70 75 80
Gly lie Gly Asp Phe Val Thr Leu Lys Val Asp Pro Gin Thr Pro Pro
85 90 95
Gly Glu lie Ser lie Ser Asp lie Thr Gly Thr Gly Asn Ser Ala Lys
100 105 110
Lys Leu Ser Lys Asn Pro Asn Trp Asn Cys Ala Gly He Ala Ala lie
115 120 125
Ser Val Met Lys Met Leu Asn lie Arg Ser Val Gly Leu Ser Leu Glu 130 135 140
Leu Glu Lys Gly Leu Pro Leu Gly Ser Gly Leu Gly Ser Ser Ala Ala 145 150 155 160
Ser Ala Ala Ala Ala Ala Val Ala Val Asn Glu Leu Phe Gly Gly Lys
165 170 175
Leu Pro Ala Ser Glu Leu Val Leu Ala Gly Leu Glu Ser Glu Ala Lys
180 185 190
Val Ser Gly Tyr His Ala Asp Asn lie Ala Pro Ala lie Met Gly Gly
195 200 205
Phe Val Leu Val Arg Ser Tyr Asp Pro Leu Glu Leu He Ser Leu Arg 210 215 220
Phe Pro Ser Asp Lys Asn Leu Cys Phe Val Leu Val Asn Pro Glu Phe 225 230 235 240
Glu Ala Pro Thr Lys Lys lie Arg Ala Ala Leu Pro Thr Glu lie Ser
245 250 255
Met Ser Gin His lie Trp Asn Ser Ser Gin Ala Gly Ala Leu Val Ala
260 265 270
Ala Val Leu Gin Gly Asp Leu Val Gly Leu Gly Lys Ala Leu Ser Asn
275 280 285
Asp Lys lie Val Glu Pro Lys Arg Ala Pro Leu lie Pro Gly Met Glu 290 295 300
Glu Val Lys Arg Ala Ala Leu Glu Ala Gly Ala Phe Gly Cys Thr lie 305 310 315 320
Ser Gly Ala Gly Pro Thr Ala Val Ala lie Val Asp Asp Glu Glu Lys
325 330 335
Gly Arg Val lie Gly Glu Lys Met Val Glu Ala Phe Met Val Gly Gly
340 345 350
Asn Leu Lys Ala Gin Ala Met Val Lys Lys Leu Asp Arg Val Gly Ala 355 360 365
Arg Leu Val Ser Ser Ser Ser Arg
370 375
<210> 3
<211> 1254
<212> DNA
<213> Helianthus annuus
<400> 3
tacgcctcca cttccacttc cacctgcaac actctctctc tctctctcta caactcaaca 60
ATGGCAATCT GCCACCACCA CCCCACATTC CACACCCACC ACGCCTTCCC ACCCACCACC 120
ACCCCCACCC CCCACCTCCA CCTCCACCTC CGTCTACCCT CATCTTTCCG CTGCAACCTC 180
TCGGTCACTT CACCCCCGAA ACTTGAACCC GAACCCGTTT ACACCTCTGT CAAATCCTTC 240
GCCCCAGCCA CCGTAGCCAA CCTGGGTCCC GGCTTCGACT TTCTAGGCTG CGCCGTTGAC 300
GGAATCGGAG ACTTCGTCAC CCTCAAAGTC GACCCGCAAA CCCCACCCGG CGAAATCTCA 360
ATCTCCGACA TCACCGGAAC AGGTAACTCC GCTAAAAAAC TAAGCAAAAA CCCTAACTGG 420
AATTGTGCCG GAATAGCCGC CATTTCTGTT ATGAAGATGC TCAATATTAG ATCTGTGGGT 480
CTGTCTTTAG AACTAGAAAA AGGGTTACCG TTGGGTAGTG GTTTAGGGTC TAGCGCCGCC 540
AGTGCAGCCG CTGCAGCCGT AGCTGTTAAT GAACTGTTTG GTGGGAAGTT GCCGGCATCG 600
GAGTTGGTGC TCGCCGGACT TGAATCCGAG GCGAAGGTGT CCGGTTATCA TGCTGATAAT 660
ATTGCTCCGG CTATTATGGG TGGGTTTGTG TTGGTACGGA GTTATGATCC TTTAGAGTTG 720
ATTTCTTTAA GGTTTCCAAG TGATAAGAAT TTGTGTTTCG TGTTGGTGAA TCCCGAATTC 780
GAAGCGCCCA CGAAGAAGAT GCGGGCGGCG TTGCCAACGG AGATATCGAT GTCGCAACAT 840
ATATGGAACA GTAGTCAGGC GGGTGCGTTG GTGGCGGCTG TGTTGCAGGG GGATTTGGTT 900 GGGTTGGGAA AGGCGTTGTC GAACGATAAG ATTGTGGAGC CGAAGCGGGC GCCTTTGATT 960
CCGGGGATGG AGGAGGTGAA GAGGGCTGCG TTGGAGGCGG GGGCGTTTGG GTGTACGATT 1020
AGTGGGGCGG GGCCCACGGC AGTGGCGATT GTGGATGATG AGGAGAAGGG GAGGGTGATT 1080
GGGGAGAAGA TGGTGGAGGC GTTTATGGTC GGTGGGAATT TGAAAGCTCA GGCTATGGTT 1140
AAGAAGTTGG ATAGAGTTGG TGCTAGGCTT GTTAGCAGCA GTTCAAGATG Attatgaata 1200 tgattgtgtt tggatcttga agatgtttgt gatggtgggg taaggttttt tttt 1254
<210> 4
<211> 1254
<212> DNA
<213> Helianthus annuus
<400> 4
tacgcctcca cttccacttc cacctgcaac actctctctc tctctctcta caactcaaca 60
ATGGCAATCT GCCACCACCA CCCCACATTC CACACCCACC ACGCCTTCCC ACCCACCACC 120
ACCCCCACCC CCCACCTCCA CCTCCACCTC CGTCTACCCT CATCTTTCCG CTGCAACCTC 180
TCGGTCACTT CACCCCCGAA ACTTGAACCC GAACCCGTTT ACACCTCTGT CAAATCCTTC 240
GCCCCAGCCA CCGTAGCCAA CCTGGGTCCC GGCTTCGACT TTCTAGGCTG CGCCGTTGAC 300
GGAATCGGAG ACTTCGTCAC CCTCAAAGTC GACCCGCAAA CCCCACCCGG CGAAATCTCA 360
ATCTCCGACA TCACCGGAAC AGGTAACTCC GCTAAAAAAC TAAGCAAAAA CCCTAACTGG 420
AATTGTGCCG GAATAGCCGC CATTTCTGTT ATGAAGATGC TCAATATTAG ATCTGTGGGT 480
CTGTCTTTAG AACTAGAAAA AGGGTTACCG TTGGGTAGTG GTTTAGGGTC TAGCGCCGCC 540
AGTGCAGCCG CTGCAGCCGT AGCTGTTAAT GAACTGTTTG GTGGGAAGTT GCCGGCATCG 600 GAGTTGGTGC TCGCCGGACT TGAATCCGAG GCGAAGGTGT CCGGTTATCA TGCTGATAAT 660
ATTGCTCCGG CTATTATGGG TGGGTTTGTG TTGGTACGGA GTTATGATCC TTTAGAGTTG 720
ATTTCTTTAA GGTTTCCAAG TGATAAGAAT TTGTGTTTCG TGTTGGTGAA TCCCGAATTC 780
GAAGCGCCCA CGAAGAAGAT ACGGGCGGCG TTGCCAACGG AGATATCGAT GTCGCAACAT 840
ATATGGAACA GTAGTCAGGC GGGTGCGTTG GTGGCGGCTG TGTTGCAGGG GGATTTGGTT 900
GGGTTGGGAA AGGCGTTGTC GAACGATAAG ATTGTGGAGC CGAAGCGGGC GCCTTTGATT 960
CCGGGGATGG AGGAGGTGAA GAGGGCTGCG TTGGAGGCGG GGGCGTTTGG GTGTACGATT 1020
AGTGGGGCGG GGCCCACGGC AGTGGCGATT GTGGATGATG AGGAGAAGGG GAGGGTGATT 1080
GGGGAGAAGA TGGTGGAGGC GTTTATGGTC GGTGGGAATT TGAAAGCTCA GGCTATGGTT 1140
AAGAAGTTGG ATAGAGTTGG TGCTAGGCTT GTTAGCAGCA GTTCAAGATG Attatgaata 1200 tgattgtgtt tggatcttga agatgtttgt gatggtgggg taaggttttt tttt 1254

Claims

1. Helianthus annuus plant, said plant is resistant to downy mildew disease, and wherein said resistance to downy mildew is provided by one or more amino acid substitutions in the homoserine kinase protein shown in SEQ ID No. 1 or a reduced expression of the gene encoding SEQ ID No.1.
2. Helianthus annuus plant according to claim 1 , wherein said downy mildew disease is caused by the pathogen Plasmopara halstedii.
3. Helianthus annuus plant according to claim 1 or claim 2, wherein said one or more amino acid substitutions in the homoserine kinase protein shown in SEQ ID No. 1 , or a reduced expression of the gene encoding SEQ ID No.1 , provide an in planta homoserine concentration of 50 to 2000 ng/mg fresh weight in the leaves of said plant.
4. Helianthus annuus plant according to any one of the claims 1 to 3, wherein said one or more amino acid substitutions in the homoserine kinase protein shown in SEQ ID No. 1 , or a reduced expression of the gene encoding SEQ ID No.l, provide a homoserine concentration of 100 to 700 ng/mg fresh in the leaves of said plant.
5. Helianthus annuus plant according to any one of the claims 1 to 4, wherein said one or more amino acid substitutions in the homoserine kinase protein shown in SEQ ID No. 1 comprise an amino acid substitution at position 247.
6. Helianthus annuus plant according to any one of the claims 1 to 5, wherein said one or more amino acid substitutions in the homoserine kinase protein shown in SEQ ID No. 1 comprise an amino acid substitution of methionine with a non-polar amino acid at position 247.
7. Helianthus annuus plant according to any one of the claims 1 to 6, wherein said one or more amino acid substitutions in the homoserine kinase protein shown in SEQ ID No. 1 comprise the amino acid substitution methionine for isoleucine at position 247 (M247I).
8. Helianthus annuus plant according to any one of the claims 1 to 7, wherein said one or more amino acid substitutions in the homoserine kinase protein shown in SEQ ID No. 1 are homozygously encoded in the genome of said Helianthus annuus plant.
9. Seeds or plant parts of a Helianthus annuus plant according to any one of the claims 1 to 8.
10. Downy mildew resistance providing homoserine kinase protein comprising one or more amino acid substitutions in the homoserine kinase protein shown in SEQ ID No. 1.
11. Downy mildew resistance providing homoserine kinase protein according to claim 10 comprising the amino acid sequence of SEQ ID No. 2.
12. Method for identifying a downy mildew resistant Helianthus annuus plant, said method comprises the step of establishing the presence of one or more amino acid substitutions in the homoserine kinase protein shown in SEQ ID No. 1.
13. Method according to claim 12, wherein said method comprises the step of establishing the presence of SEQ ID No. 2.
PCT/EP2018/053423 2018-02-12 2018-02-12 Downy mildew resistant sunflower plants WO2019154520A1 (en)

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FRANCHEL J ET AL: "Positional cloning of a candidate gene for resistance to the sunflower downy mildew, Plasmopara halstedii race 300", THEORETICAL AND APPLIED GENETICS ; INTERNATIONAL JOURNAL OF PLANT BREEDING RESEARCH, SPRINGER, BERLIN, DE, vol. 126, no. 2, 1 February 2013 (2013-02-01), pages 359 - 367, XP002730706, ISSN: 0040-5752, [retrieved on 20120101], DOI: 10.1007/S00122-012-1984-6 *
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