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An improved Solanum verrucosum genome provides insight into potato centromeres and epigenetic regulation

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Title: An improved Solanum verrucosum genome provides insight into potato centromeres and epigenetic regulation
Authors: Smith, Moray, Kaur, Amanpreet, Singh, Vikrant, Jones, John T, Hein, Ingo
Source: Smith, M, Kaur, A, Singh, V, Jones, J T & Hein, I 2026, 'An improved Solanum verrucosum genome provides insight into potato centromeres and epigenetic regulation', G3: Genes, Genomes, Genetics, vol. 16, no. 6. https://doi.org/10.1093/g3journal/jkag089
Publication Year: 2026
Collection: Discovery - University of Dundee Online Publications
Subject Terms: Solanum verrucosum, centromere, disease resistance, genome assembly, methylation, self-compatibility, /dk/atira/pure/subjectarea/asjc/1300/1312, name=Molecular Biology, /dk/atira/pure/subjectarea/asjc/1300/1311, name=Genetics, /dk/atira/pure/subjectarea/asjc/2700/2716, name=Genetics(clinical)
Description: Solanum verrucosum is a wild diploid potato species notable for carrying the uncharacterized Rpi-ver1 gene conferring resistance to Phytophthora infestans, possessing unusually structured centromeres, and exhibiting the rare trait of self-compatibility, the genetic basis of which remains unknown. Here, we present a high-quality genome assembly and annotation of S. verrucosum accession CPC54. A comprehensive inventory of resistance genes is provided, and candidate genes for Rpi-ver1 are identified through remapping approaches. The sequence and epigenetic landscape of centromeres are resolved, revealing a mosaic of repeatless and repetitive domains. These centromeres consist of tandem arrays of kilobase-sized repeats, some of which show signatures of transposable element origin. Specific subfamilies of CRM and Tekay elements appear to have adapted to centromeric regions. The basis of self-compatibility in S. verrucosum is investigated with respect to the S-RNase gene, which is found to be present and intact but expressed at very low levels. Notably, upstream insertions of transposable elements are present that may interfere with its expression.
Document Type: article in journal/newspaper
File Description: application/pdf
Language: English
ISSN: 2160-1836
Relation: info:eu-repo/semantics/altIdentifier/pmid/41934284; info:eu-repo/semantics/altIdentifier/pissn/2160-1836
DOI: 10.1093/g3journal/jkag089
Availability: https://discovery.dundee.ac.uk/en/publications/3609c92b-315e-4103-8537-d277aca2ebf4
https://doi.org/10.1093/g3journal/jkag089
https://discovery.dundee.ac.uk/ws/files/172801250/jkag089.pdf
Rights: info:eu-repo/semantics/openAccess ; http://creativecommons.org/licenses/by/4.0/
Accession Number: edsbas.C4DF108E
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  Data: An improved Solanum verrucosum genome provides insight into potato centromeres and epigenetic regulation
– Name: Author
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  Data: <searchLink fieldCode="AR" term="%22Smith%2C+Moray%22">Smith, Moray</searchLink><br /><searchLink fieldCode="AR" term="%22Kaur%2C+Amanpreet%22">Kaur, Amanpreet</searchLink><br /><searchLink fieldCode="AR" term="%22Singh%2C+Vikrant%22">Singh, Vikrant</searchLink><br /><searchLink fieldCode="AR" term="%22Jones%2C+John+T%22">Jones, John T</searchLink><br /><searchLink fieldCode="AR" term="%22Hein%2C+Ingo%22">Hein, Ingo</searchLink>
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  Data: Smith, M, Kaur, A, Singh, V, Jones, J T & Hein, I 2026, 'An improved Solanum verrucosum genome provides insight into potato centromeres and epigenetic regulation', G3: Genes, Genomes, Genetics, vol. 16, no. 6. https://doi.org/10.1093/g3journal/jkag089
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  Label: Publication Year
  Group: Date
  Data: 2026
– Name: Subset
  Label: Collection
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  Data: Discovery - University of Dundee Online Publications
– Name: Subject
  Label: Subject Terms
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  Data: <searchLink fieldCode="DE" term="%22Solanum+verrucosum%22">Solanum verrucosum</searchLink><br /><searchLink fieldCode="DE" term="%22centromere%22">centromere</searchLink><br /><searchLink fieldCode="DE" term="%22disease+resistance%22">disease resistance</searchLink><br /><searchLink fieldCode="DE" term="%22genome+assembly%22">genome assembly</searchLink><br /><searchLink fieldCode="DE" term="%22methylation%22">methylation</searchLink><br /><searchLink fieldCode="DE" term="%22self-compatibility%22">self-compatibility</searchLink><br /><searchLink fieldCode="DE" term="%22%2Fdk%2Fatira%2Fpure%2Fsubjectarea%2Fasjc%2F1300%2F1312%22">/dk/atira/pure/subjectarea/asjc/1300/1312</searchLink><br /><searchLink fieldCode="DE" term="%22name=Molecular+Biology%22">name=Molecular Biology</searchLink><br /><searchLink fieldCode="DE" term="%22%2Fdk%2Fatira%2Fpure%2Fsubjectarea%2Fasjc%2F1300%2F1311%22">/dk/atira/pure/subjectarea/asjc/1300/1311</searchLink><br /><searchLink fieldCode="DE" term="%22name=Genetics%22">name=Genetics</searchLink><br /><searchLink fieldCode="DE" term="%22%2Fdk%2Fatira%2Fpure%2Fsubjectarea%2Fasjc%2F2700%2F2716%22">/dk/atira/pure/subjectarea/asjc/2700/2716</searchLink><br /><searchLink fieldCode="DE" term="%22name=Genetics%28clinical%29%22">name=Genetics(clinical)</searchLink>
– Name: Abstract
  Label: Description
  Group: Ab
  Data: Solanum verrucosum is a wild diploid potato species notable for carrying the uncharacterized Rpi-ver1 gene conferring resistance to Phytophthora infestans, possessing unusually structured centromeres, and exhibiting the rare trait of self-compatibility, the genetic basis of which remains unknown. Here, we present a high-quality genome assembly and annotation of S. verrucosum accession CPC54. A comprehensive inventory of resistance genes is provided, and candidate genes for Rpi-ver1 are identified through remapping approaches. The sequence and epigenetic landscape of centromeres are resolved, revealing a mosaic of repeatless and repetitive domains. These centromeres consist of tandem arrays of kilobase-sized repeats, some of which show signatures of transposable element origin. Specific subfamilies of CRM and Tekay elements appear to have adapted to centromeric regions. The basis of self-compatibility in S. verrucosum is investigated with respect to the S-RNase gene, which is found to be present and intact but expressed at very low levels. Notably, upstream insertions of transposable elements are present that may interfere with its expression.
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  Data: 10.1093/g3journal/jkag089
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  Data: https://discovery.dundee.ac.uk/en/publications/3609c92b-315e-4103-8537-d277aca2ebf4<br />https://doi.org/10.1093/g3journal/jkag089<br />https://discovery.dundee.ac.uk/ws/files/172801250/jkag089.pdf
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  Data: info:eu-repo/semantics/openAccess ; http://creativecommons.org/licenses/by/4.0/
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        Value: 10.1093/g3journal/jkag089
    Languages:
      – Text: English
    Subjects:
      – SubjectFull: Solanum verrucosum
        Type: general
      – SubjectFull: centromere
        Type: general
      – SubjectFull: disease resistance
        Type: general
      – SubjectFull: genome assembly
        Type: general
      – SubjectFull: methylation
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      – SubjectFull: self-compatibility
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      – TitleFull: An improved Solanum verrucosum genome provides insight into potato centromeres and epigenetic regulation
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            NameFull: Smith, Moray
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              Y: 2026
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            – TitleFull: Smith, M, Kaur, A, Singh, V, Jones, J T & Hein, I 2026, 'An improved Solanum verrucosum genome provides insight into potato centromeres and epigenetic regulation', G3: Genes, Genomes, Genetics, vol. 16, no. 6. https://doi.org/10.1093/g3journal/jkag089
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