IP Library › Granted Patent US 12,655,442
Granted Patent B2
US 12,655,442 · App. 17/609,723 · Granted Jun 16, 2026

Self-compatibility in cultivated potato

Inventors: Ate Van Der Burgt (Wageningen, NL); Ernst-Jan Eggers (Wageningen, NL); Michiel Erik De Vries (Holthees, NL); Adriaan Willem Van Heusden (Wageningen, NL); Willem Hendrik Lindhout (Wageningen, NL)
Assignee: Agventure B.V.
C12N15/8282A01H5/04A01H6/827C07K14/415C12N15/8287
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Quick Facts
Patent No.
US 12,655,442
App. No.
17/609,723
Granted
Jun 16, 2026
Kind
B2
Abstract

An isolated nucleic acid molecule comprising a nucleic acid sequence encoding a protein having the amino acid sequence as depicted in SEQ ID NO:10, and sequences having at least 70% sequence identity with this amino acid sequence and conferring self-compatibility to a potato plant is provided. Also provided is a transformed plant and parts thereof that comprise the nucleic acid sequence, along with related methods for the selection and production of a plant comprising the nucleic acid sequence. Food products prepared from such plants are also provided. The plants provided herein may further comprise at least one allele of each of a Phytophtera infestans resistance gene selected from S. avilesii 478-2 Rpi*-avl1, S. tarinjense 852-5 Rpi-tar1, S. chacoense 543-5 Rpi-chc1, and S. venturii 283-1 Rpi-vnt1.

Claims (21)

1 . A recombinant nucleic acid construct comprising a nucleic acid sequence encoding a protein having the amino acid sequence depicted in SEQ ID NO: 10, or a protein having a sequence having at least 98% sequence identity with SEQ ID NO: 10 and conferring self-compatibility to a potato plant when expressed in the pollen of said plant, wherein the nucleic acid sequence is complementary to an mRNA template and lacks intron sequences, said recombinant nucleic acid construct further comprising a promoter nucleic acid sequence for expression of the protein in plant pollen.

2 . A vector comprising the recombinant nucleic acid construct of claim 1 .

3 . A potato plant protoplast, a potato plant cell, or a potato plant callus transformed with the recombinant nucleic acid construct of claim 1 .

4 . A transformed potato plant regenerated from the potato plant protoplast, cell, or callus of claim 3 , comprising the recombinant nucleic acid construct.

5 . The transformed plant of claim 4 , wherein the recombinant nucleic acid construct has replaced the endogenous genomic sequences of the Potato Self Compatibility (PSC) gene of the potato plant.

6 . A part of the transformed plant of claim 4 , wherein said part is an isolated cell, a propagation material, or an isolated organ.

7 . A food product prepared from at least one of the cell, the propagation material, and the organ of claim 6 , wherein said cell, propagation material, or organ comprises the recombinant nucleic acid construct.

8 . The transformed plant of claim 4 , further comprising at least one allele of a Phytophthora infestans resistance gene of S. tarinjense 852-5 Rpi-tar 1.

9 . The transformed plant of claim 4 , wherein said plant does not comprise one or more of the genes that do not confer self-compatibility and that are present in the genomic region between genomic markers SOT12-58962004 and SOT12-59130723.

10 . A potato plant comprising a recombinant nucleic acid construct comprising a nucleic acid sequence encoding a protein having the amino acid sequence depicted in SEQ ID NO:10, or a sequence having at least 98% sequence identity with said amino acid sequence and conferring self-compatibility to a potato plant when expressed in the pollen of said plant, wherein the nucleic acid sequence is complementary to an mRNA template and lacks intron sequences, said recombinant nucleic acid construct further comprising a promoter nucleic acid sequence for expression of the protein in plant pollen, and said potato plant further comprising at least one allele of each of a Phytophthora infestans resistance gene selected from:

S. avilesii 478-2 Rpi*-avl1;

S. tarinjense 852-5 Rpi-tar1;

S. chacoense 543-5 Rpi-chc1; and

S. venturi 283-1 Rpi-vnt1.

11 . The recombinant nucleic acid construct according to claim 1 , wherein said recombinant nucleic acid construct further comprises a truncated or non-truncated promoter region of the native PSC gene which is located at coordinates 53954293 to 53532708 of the Solyntus 1.0 genome assembly.

12 . The recombinant nucleic acid construct according to claim 1 , wherein said recombinant nucleic acid construct further comprises the nucleic acid sequence depicted in SEQ ID NO:18.

13 . The potato plant protoplast, cell, or callus according to claim 3 , wherein the protoplast, cell, or callus is a S. tuberosum Group Tuberosum plant protoplast, cell, or callus.

14 . The transformed potato plant of claim 4 , which is a Solanum tuberosum Group Tuberosum potato plant.

15 . The part of the transformed plant of claim 6 , wherein said part is a tuber or seed.

16 . A plant part of the plant of claim 10 , wherein said part comprises the recombinant nucleic acid construct.

17 . The plant part of claim 16 , which is a tuber or seed.

Assignments (1)
ASSIGNMENT OF ASSIGNOR'S INTEREST Recorded Jan 13, 2022
From: VAN DER BURGT, ATE; EGGERS, ERNST-JAN; DE VRIES, MICHIEL ERIK; VAN HEUSDEN, ADRIAAN WILLEM; LINDHOUT, WILLEM HENDRIK
To: AGVENTURE B.V.
Reel/Frame 058640/0033 →
Priority Claims (2)
EP 19173138 · May 7, 2019 · regional
EP 19218289 · Dec 19, 2019 · regional
Continuity (1)
Related Publication 20220267386A1 · Aug 25, 2022
References Cited (97)
US 9551007B2 · Vossen et al. · 2017 [cited by applicant]
US 10524436B2 · Lindhout et al. · 2020 [cited by applicant]
US 11140841B2 · Lindhout et al. · 2021 [cited by applicant]
US 12433236B2 · Lindhout et al. · 2025 [cited by applicant]
US 20140115736A1 · Lindhout et al. · 2014 [cited by applicant]
US 20200385819A1 · Huang et al. · 2020 [cited by applicant]
US 20210029956A1 · Lindhout et al. · 2021 [cited by applicant]
US 20210137041A1 · De Vries et al. · 2021 [cited by applicant]
US 20220095576A1 · Lindhout et al. · 2022 [cited by applicant]
US 20260013461A1 · Lindhout et al. · 2026 [cited by applicant]
CN 109548646 · 2019 [cited by applicant]
CN 110894539X · 2020 [cited by applicant]
CN 110938120 · 2020 [cited by applicant]
WO 2003010319 · 2003 [cited by applicant]
WO 2011034433A1 · 2011 [cited by applicant]
WO 2011053135A1 · 2011 [cited by applicant]
WO 2018112356A · 2018 [cited by applicant]
Spooner, D.M., Ghislain, M., Simon, R. et al. Systematics, Diversity, Genetics, and Evolution of Wild and Cultivated Potatoes. Bot. Rev. 80, 283-383 (2014). https://doi.org/10.1007/s12229-014-9146-y (Year: 2014). [cited by examiner]
Lazar et al. Transforming growth factor alpha: mutation of aspartic acid 47 and leucine 48 results in different biological activities. Mol Cell Biol. Mar. 1988;8(3):1247-52. doi: 10.1128/mcb.8.3.1247-1252.1988. PMID: 32… [cited by examiner]
Nonaka et al. Truncation and pathogenic mutations facilitate the formation of intracellular aggregates of TDP-43. Hum Mol Genet. Sep. 15, 2009;18(18):3353-64. doi: 10.1093/hmg/ddp275. PMID: 19515851. (Year: 2009). [cited by examiner]
GenPept Accession No. XP_010314855.1, dated Aug. 8, 2018. [cited by applicant]
NCBI Gene ID No. 101264806, dated May 9, 2020. [cited by applicant]
Enciso-Rodriguez, Felix et al.: “Overcoming Self-Incompatibility in Diploid Potato Using CRSPR-Cas9” Frontiers in Plant Science, vol. 10, Apr. 2, 2019, pp. 1-12. [cited by applicant]
International Search Report and Written Opinion regarding International App. No. PCT/NL2020/050295, mailed Jul. 9, 2023, 2020. [cited by applicant]
Abdalla, et al., A two-loci system of gametophytic incompatibility in Solanum phureja and S. stenotomum, Euphytica, 20:345-350, 1971. [cited by applicant]
Anithakumari, et al. A pipeline for high throughput detection and mapping of SNPs from EST databases. Mol Breeding, 26:65-75, 2010. [cited by applicant]
Bankevich, et al. SPAdes: A New Genome Assembly Algorithm and Its Applications to Single-Cell Sequencing. Journal of Computational Biology. vol. 19, No. 5, pp. 455-477, 2012. [cited by applicant]
Birhman, et al. Production of inbred progenies of diploid potatoes using an S-locus inhibitor (Sli) gene, and their characterization. Genome, vol. 43, No. 3, pp. 495-502, 2000. [cited by applicant]
Black, et al. A proposal for an international nomenclature of races of Phytophthora infestans and of genes controlling immunity in Solanum demissum derivatives. Euphytica, 2, 173-179 (1953). [cited by applicant]
Boettcher, et al. Choosing the Right Tool for the Job: RNAi, TALEN, or CRISPR. Mol. Cell, Vo. 58, Issue 4, pp. 575-585, 2015. [cited by applicant]
Brootaerts, et al. Petunia hybrida S-proteins: ribonuclease activity and the role of their glycan side chains in self-incompatibility. Sexual Plant Reprod 4, 258-266 (1991). [cited by applicant]
Deblaere, et al. Vectors for cloning in plant cell. Meth. Enzymol. 153:277-292, 1987. [cited by applicant]
Edgar. Muscle: multiple sequence alignment with high accuracy and high throughput. Nucleic Acids Research, vol. 32, Issue 5, pp. 1792-1797, 2004. [cited by applicant]
Eggers, et al. Neofunctionalisation of the Sli gene leads to self-compatibility and facilitates precision breeding in potato. Nat Commun 12, 4141, 2021. [cited by applicant]
Fernandez-Pozo, et al. The Sol Genomics Network (SGN)-from genotype to phenotype to breeding. Nucleic Acids Research, vol. 43, Issue D1, pp. D1036-D1041, 2015. [cited by applicant]
Foster, et al. Rpi-vnt1.1, a Tm-22 Homolog from Solanum venturii, Confers Resistance to Potato Late Blight. MPMI vol. 22, No. 5, pp. 589-600, 2009. [cited by applicant]
FRY. Phytophthora infestans : the plant (and R gene) destroyer. Mol. Plant Pathology. vol. 9, Issue 3, pp. 385-402, 2008. [cited by applicant]
Gaj, et al. ZFN, TALEN, and CRISPR/Cas-based methods for genome engineering. Trends in Biotechnology, vol. 31, Issue 7, pp. 397-405, 2013. [cited by applicant]
Gebhardt, et al. RFLP maps of potato and their alignment with the homoeologous tomato genome. Theoret. Appl. Genetics 83, 49-57, 1991. [cited by applicant]
Gruber, et al. Vectors for Plant Transformation. Methods in Plant Molecular Biology and Biotechnology. pp. 89-119, 1993. [cited by applicant]
Haas, et al. Genome sequence and analysis of the Irish potato famine pathogen Phytophthora infestans. Nature 461, 393-398, 2009. [cited by applicant]
Hancock, et al. The stylar 120 kDa glycoprotein is required for S-specific pollen rejection in Nicotiana. The Plant Journal, vol. 43, Issue 5, pp. 716-723, 2005. [cited by applicant]
Hanneman. Self fertility in Solanum chacoense. Am. Potato J, 62, 428-429, 1985. [cited by applicant]
Hardigan, et al. Genome Reduction Uncovers a Large Dispensable Genome and Adaptive Role for Copy Number Variation in Asexually Propagated Solanum tuberosum. The Plant Cell, vol. 28, Issue 2, pp. 388-405, 2016. [cited by applicant]
Haverkort, et al. Durable Late Blight Resistance in Potato Through Dynamic Varieties Obtained by Cisgenesis: Scientific and Societal Advances in the DuRPh Project. Potato Res. 59, 35-66, 2016. [cited by applicant]
Hawkes. Taxonomic Studies On the Tuber—Bearing Solanums. 1: Solanum Tuberosum and the Tetraploid Species Complex, Proceedings Linnean Society London, vol. 166, Issue 1-2, pp. 97-144, 1956. [cited by applicant]
Hermsen. Genetics of self-compatibility in dihaploids of [cited by applicant]
Higgins, et al. Fast and sensitive multiple sequence alignments on a microcomputer, Comput Appl Biosci., vol. 5, Issue 2, pp. 151-153, 1989. [cited by applicant]
Hirsch, et al. Spud DB: A Resource for Mining Sequences, Genotypes, and Phenotypes to Accelerate Potato Breeding. The Plant Genome, vol. 7, Issue 1, pp. 1-12, 2014. [cited by applicant]
Horsch, et al. A Simple and General Method for Transferring Genes into Plants. Science, vol. 227, Issue 4691, pp. 1229-1231, 1985. [cited by applicant]
Hosaka, et al. Genetics of self-compatibility in a self-incompatible wild diploid potato species [cited by applicant]
Hosaka, et al. Genetics of self-compatibility in a self-incompatible wild diploid potato species [cited by applicant]
Hutten. Basic aspects of potato breeding via the diploid level. Thesis, Wageningen University, Wageningen, ISBN 9054852925, (1994). [cited by applicant]
Jansky, et al. M6: A Diploid Potato Inbred Line for Use in Breeding and Genetics Research. J. of Plant Reg. vol. 8, Issue 2, pp. 195-199, 2014. [cited by applicant]
Karlin, et al. Methods for assessing the statistical significance of molecular sequence features by using general scoring schemes. PNAS, vol. 87, No. 6, pp. 2264-2268, 1990. [cited by applicant]
Karlin, et al. Applications and statistics for multiple high-scoring segments in molecular sequences. PNAS, vol. 90, No. 12, pp. 5873-5877, 1993. [cited by applicant]
Kim, et al. Genome sequence of the hot pepper provides insights into the evolution of pungency in [cited by applicant]
Klein, et al. High-velocity microprojectiles for delivering nucleic acids into living cells. Nature 327, 70-73 (1987). [cited by applicant]
Li, et al. All 17 S-locus F-box proteins of the S2- and S3-haplotypes of Petunia inflata are assembled into similar SCF complexes with a specific function in self-incompatibility. The Plant Journal, vol. 87, Issue 6, pp… [cited by applicant]
Lindhout, et al. Achieving Sustainable Cultivation of Potatoes vol. 1: Chapter 5, Hybrid potato breeding for improved varieties, 2018. United Kingdom: Burleigh Dodds Science Publishing Limited. [cited by applicant]
Mcclure, et al. Compatibility and incompatibility in S-RNase-based systems. Annals of Botany, vol. 108, Issue 4, pp. 647-658, Sep. 2011. [cited by applicant]
McDonald, et al. Pathogen Population Genetics, Evolutionary Potential, and Durable Resistance. Annual Review of Phytopathology, vol. 40:349-379, 2002. [cited by applicant]
Meijer, et al. QTL mapping in diploid potato by using selfed progenies of the cross S. tuberosum x S. chacoense. Euphytica 214, 121 (2018). [cited by applicant]
Miki, et al. 1993. Methods in Plant Molecular Biology and Biotechnology, Chapter 6, Procedures for Introducing Foreign DNA into Plants. [cited by applicant]
Miki, et al. Selectable marker genes in transgenic plants: applications, alternatives and biosafety. Journal of Biotechnology, vol. 107, Issue 3, pp. 193-232, 2004. [cited by applicant]
Myers, et al. Optimal alignments in linear space. Comput Appl Biosci. 4(1):11-17, 1988. [cited by applicant]
Nakade, et al. Cas9, Cpf1 and C2c1/2/3—What's next? Bioengineered, vol. 8, Issue 3, pp. 265-273, 2017. [cited by applicant]
Needleman, et al. A general method applicable to the search for similarities in the amino acid sequence of two proteins. J Mol Biol. 48(3):443-53, 1970. [cited by applicant]
Nettancourt, et al. Incompatibility in angiosperms. Folia geobot. phytotax. 13, 370 (1978). [cited by applicant]
Niks, et al. Breeding Crops with resistance to diseases and pests. Wageningen Academic Publishers 2011. [cited by applicant]
O'Brien, et al. Molecular analysis of the stylar-expressed Solanum chacoense small asparagine-rich protein family related to the HT modifier of gametophytic self-incompatibility in Nicotiana. The Plant Journal, vol. 32,… [cited by applicant]
Okamura, et al. Regulation of plant gene expression: General principles. The Biochemistry of Plants 15: 1-82. 1989. [cited by applicant]
Olsder, et al. Genetics of self-compatibility in dihaploids of [cited by applicant]
Park, et al. Characterization and high-resolution mapping of a late blight resistance locus similar to R2 in potato. Theor Appl Genet 111, 591-597 (2005). [cited by applicant]
Pearson, et al. Improved tools for biological sequence comparison. Proc Natl Acad Sci USA. 85(8):2444-8, 1988. [cited by applicant]
Pel, et al. Mapping and Cloning of Late Blight Resistance Genes from Solanum venturii Using an Interspecific Candidate Gene Approach. Mol Plant Microbe Interact. 22(5):601-15, 2009. [cited by applicant]
Phumichai, et al. Toward the development of highly homozygous diploid potato lines using the self-compatibility controlling Sli gene. Genome. 48(6): 977-984, 2005. [cited by applicant]
Phumichai, et al. Cryptic improvement for fertility by continuous selfing of diploid potatoes using Sli gene. Euphytica 149, 251-258 (2006). [cited by applicant]
Phumichai, et al. Expression of S-locus inhibitor gene (Sli) in various diploid potatoes. Euphytica 148, 227-234 (2006). [cited by applicant]
Sharma, et al. Construction of Reference Chromosome-Scale Pseudomolecules for Potato: Integrating the Potato Genome with Genetic and Physical Maps. G3 Genes|Genomes|Genetics, vol. 3, Issue 11, pp. 2031-2047, 2013. [cited by applicant]
Smith, et al. Comparison of biosequences. Adv. Appl. Math, vol. 2, pp. 482-489, 1981. [cited by applicant]
Song, et al. Gene RB cloned from Solanum bulbocastanum confers broad spectrum resistance to potato late blight. PNAS, vol. 100, No. 16, pp. 9128-9133, 2003. [cited by applicant]
Stefanowicz, et al. Plant F-box Proteins—Judges between Life and Death. Critical Reviews in Plant Sciences, vol. 34, Issue 6, pp. 523-552, 2015. [cited by applicant]
Tavazza, et al. Genetic transformation of potato ( [cited by applicant]
Uitdewilligen, et al. A Next-Generation Sequencing Method for Genotyping-by-Sequencing of Highly Heterozygous Autotetraploid Potato. PLOS One 8(5): e62355. 2013. [cited by applicant]
Van Berloo, et al. An Online Potato Pedigree Database Resource. Potato Res. 50, 45-57 (2007). [cited by applicant]
Van Der Vossen, et al. An ancient R gene from the wild potato species [cited by applicant]
Van Der Vossen, et al. The Rpi-blb2 gene from Solanum bulbocastanum is an Mi-1 gene homolog conferring broad-spectrum late blight resistance in potato. The Plant Journal, vol. 44, Issue 2, pp. 208-222, 2005. [cited by applicant]
Van Ooijen, et al. Accuracy of mapping quantitative trait loci in autogamous species. Theoret. Appl. Genetics 84, 803-811 (1992). [cited by applicant]
Verzaux, et al. High Resolution Mapping of a Novel Late Blight Resistance Gene Rpi-avl1, from the Wild Bolivian Species [cited by applicant]
Vos, et al. Development and analysis of a 20K Snp array for potato ( [cited by applicant]
Vries, et al. The potential of hybrid potato for East-Africa. Open Agriculture, vol. 1, Issue 1, pp. 151-156, 2016. [cited by applicant]
UniProt Accession No. M1BEMO_SOLTU, dated April, 3, 2013. [cited by applicant]
Su, et al. Introgression of Genes for Resistance against Phytophtora infestans in Diploid Potato, American Journal of Potato Research 97:33-42, 2020. [cited by applicant]
Taylor, Routes to genetic gain in potato, Nature Plants 4: 631-632, 2018. [cited by applicant]
Ye et al., Generation of self-compatible diploid potato by knockout of S-RNase, Nature Plants 4:651-654, 2018. [cited by applicant]
Lindhout, et al. Towards F1 Hybrid Seed Potato Breeding, Journal of the European Association for Potato Research, 54:301-312, 2011. [cited by applicant]