The structure of the tetraploid sour cherry ‘Schattenmorelle’ (Prunus cerasus L.) genome reveals insights into its segmental allopolyploid nature
Sour cherry (Prunus cerasus L.) is an important allotetraploid cherry species that evolved in the Caspian Sea and Black Sea regions from a hybridization of the tetraploid ground cherry (Prunus fruticosa Pall.) and an unreduced pollen of the diploid sweet cherry (P. avium L.) ancestor. Details of whe...
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| Format: | Article |
| Language: | English |
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Frontiers Media S.A.
2023-12-01
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| Series: | Frontiers in Plant Science |
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| Online Access: | https://www.frontiersin.org/articles/10.3389/fpls.2023.1284478/full |
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| author | Thomas W. Wöhner Ofere F. Emeriewen Alexander H. J. Wittenberg Koen Nijbroek Rui Peng Wang Evert-Jan Blom Harrie Schneiders Jens Keilwagen Thomas Berner Katharina J. Hoff Lars Gabriel Hannah Thierfeldt Omar Almolla Lorenzo Barchi Mirko Schuster Janne Lempe Andreas Peil Henryk Flachowsky |
| author_facet | Thomas W. Wöhner Ofere F. Emeriewen Alexander H. J. Wittenberg Koen Nijbroek Rui Peng Wang Evert-Jan Blom Harrie Schneiders Jens Keilwagen Thomas Berner Katharina J. Hoff Lars Gabriel Hannah Thierfeldt Omar Almolla Lorenzo Barchi Mirko Schuster Janne Lempe Andreas Peil Henryk Flachowsky |
| author_sort | Thomas W. Wöhner |
| collection | DOAJ |
| description | Sour cherry (Prunus cerasus L.) is an important allotetraploid cherry species that evolved in the Caspian Sea and Black Sea regions from a hybridization of the tetraploid ground cherry (Prunus fruticosa Pall.) and an unreduced pollen of the diploid sweet cherry (P. avium L.) ancestor. Details of when and where the evolution of this species occurred are unclear, as well as the effect of hybridization on the genome structure. To gain insight, the genome of the sour cherry cultivar ‘Schattenmorelle’ was sequenced using Illumina NovaSeqTM and Oxford Nanopore long-read technologies, resulting in a ~629-Mbp pseudomolecule reference genome. The genome could be separated into two subgenomes, with subgenome PceS_a originating from P. avium and subgenome PceS_f originating from P. fruticosa. The genome also showed size reduction compared to ancestral species and traces of homoeologous sequence exchanges throughout. Comparative analysis confirmed that the genome of sour cherry is segmental allotetraploid and evolved very recently in the past. |
| first_indexed | 2024-03-09T08:40:41Z |
| format | Article |
| id | doaj.art-378a69a117dc4adf8331fa14091ea0e5 |
| institution | Directory Open Access Journal |
| issn | 1664-462X |
| language | English |
| last_indexed | 2024-03-09T08:40:41Z |
| publishDate | 2023-12-01 |
| publisher | Frontiers Media S.A. |
| record_format | Article |
| series | Frontiers in Plant Science |
| spelling | doaj.art-378a69a117dc4adf8331fa14091ea0e52023-12-02T16:55:19ZengFrontiers Media S.A.Frontiers in Plant Science1664-462X2023-12-011410.3389/fpls.2023.12844781284478The structure of the tetraploid sour cherry ‘Schattenmorelle’ (Prunus cerasus L.) genome reveals insights into its segmental allopolyploid natureThomas W. Wöhner0Ofere F. Emeriewen1Alexander H. J. Wittenberg2Koen Nijbroek3Rui Peng Wang4Evert-Jan Blom5Harrie Schneiders6Jens Keilwagen7Thomas Berner8Katharina J. Hoff9Lars Gabriel10Hannah Thierfeldt11Omar Almolla12Lorenzo Barchi13Mirko Schuster14Janne Lempe15Andreas Peil16Henryk Flachowsky17Institute for Breeding Research on Fruit Crops, Julius Kühn Institute (JKI) – Federal Research Centre for Cultivated Plants, Dresden, Saxony, GermanyInstitute for Breeding Research on Fruit Crops, Julius Kühn Institute (JKI) – Federal Research Centre for Cultivated Plants, Dresden, Saxony, GermanyKeyGene N.V., Wageningen, NetherlandsKeyGene N.V., Wageningen, NetherlandsKeyGene N.V., Wageningen, NetherlandsKeyGene N.V., Wageningen, NetherlandsKeyGene N.V., Wageningen, NetherlandsInstitute for Biosafety in Plant Biotechnology, Julius Kühn Institute (JKI) – Federal Research Centre for Cultivated Plants, Quedlinburg, Saxony-Anhalt, GermanyInstitute for Biosafety in Plant Biotechnology, Julius Kühn Institute (JKI) – Federal Research Centre for Cultivated Plants, Quedlinburg, Saxony-Anhalt, GermanyInstitute of Mathematics and Computer Science, University of Greifswald, Greifswald, Mecklenburg-Western Pomerania, GermanyInstitute of Mathematics and Computer Science, University of Greifswald, Greifswald, Mecklenburg-Western Pomerania, GermanyInstitute of Mathematics and Computer Science, University of Greifswald, Greifswald, Mecklenburg-Western Pomerania, GermanyDipartimento di Scienze Agrarie, Forestali e Alimentari (DISAFA) – Plant Genetics, University of Turin, Grugliasco, ItalyDipartimento di Scienze Agrarie, Forestali e Alimentari (DISAFA) – Plant Genetics, University of Turin, Grugliasco, ItalyInstitute for Breeding Research on Fruit Crops, Julius Kühn Institute (JKI) – Federal Research Centre for Cultivated Plants, Dresden, Saxony, GermanyInstitute for Breeding Research on Fruit Crops, Julius Kühn Institute (JKI) – Federal Research Centre for Cultivated Plants, Dresden, Saxony, GermanyInstitute for Breeding Research on Fruit Crops, Julius Kühn Institute (JKI) – Federal Research Centre for Cultivated Plants, Dresden, Saxony, GermanyInstitute for Breeding Research on Fruit Crops, Julius Kühn Institute (JKI) – Federal Research Centre for Cultivated Plants, Dresden, Saxony, GermanySour cherry (Prunus cerasus L.) is an important allotetraploid cherry species that evolved in the Caspian Sea and Black Sea regions from a hybridization of the tetraploid ground cherry (Prunus fruticosa Pall.) and an unreduced pollen of the diploid sweet cherry (P. avium L.) ancestor. Details of when and where the evolution of this species occurred are unclear, as well as the effect of hybridization on the genome structure. To gain insight, the genome of the sour cherry cultivar ‘Schattenmorelle’ was sequenced using Illumina NovaSeqTM and Oxford Nanopore long-read technologies, resulting in a ~629-Mbp pseudomolecule reference genome. The genome could be separated into two subgenomes, with subgenome PceS_a originating from P. avium and subgenome PceS_f originating from P. fruticosa. The genome also showed size reduction compared to ancestral species and traces of homoeologous sequence exchanges throughout. Comparative analysis confirmed that the genome of sour cherry is segmental allotetraploid and evolved very recently in the past.https://www.frontiersin.org/articles/10.3389/fpls.2023.1284478/fullgenome assemblyP. cerasussour cherrysegmental tetraploidthird generation sequencingOxford Nanopore |
| spellingShingle | Thomas W. Wöhner Ofere F. Emeriewen Alexander H. J. Wittenberg Koen Nijbroek Rui Peng Wang Evert-Jan Blom Harrie Schneiders Jens Keilwagen Thomas Berner Katharina J. Hoff Lars Gabriel Hannah Thierfeldt Omar Almolla Lorenzo Barchi Mirko Schuster Janne Lempe Andreas Peil Henryk Flachowsky The structure of the tetraploid sour cherry ‘Schattenmorelle’ (Prunus cerasus L.) genome reveals insights into its segmental allopolyploid nature Frontiers in Plant Science genome assembly P. cerasus sour cherry segmental tetraploid third generation sequencing Oxford Nanopore |
| title | The structure of the tetraploid sour cherry ‘Schattenmorelle’ (Prunus cerasus L.) genome reveals insights into its segmental allopolyploid nature |
| title_full | The structure of the tetraploid sour cherry ‘Schattenmorelle’ (Prunus cerasus L.) genome reveals insights into its segmental allopolyploid nature |
| title_fullStr | The structure of the tetraploid sour cherry ‘Schattenmorelle’ (Prunus cerasus L.) genome reveals insights into its segmental allopolyploid nature |
| title_full_unstemmed | The structure of the tetraploid sour cherry ‘Schattenmorelle’ (Prunus cerasus L.) genome reveals insights into its segmental allopolyploid nature |
| title_short | The structure of the tetraploid sour cherry ‘Schattenmorelle’ (Prunus cerasus L.) genome reveals insights into its segmental allopolyploid nature |
| title_sort | structure of the tetraploid sour cherry schattenmorelle prunus cerasus l genome reveals insights into its segmental allopolyploid nature |
| topic | genome assembly P. cerasus sour cherry segmental tetraploid third generation sequencing Oxford Nanopore |
| url | https://www.frontiersin.org/articles/10.3389/fpls.2023.1284478/full |
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