Single-nucleotide mosaicism in citrus: Estimations of somatic mutation rates and total number of variants
Most of the hundreds of citrus varieties are derived from spontaneous mutations. We characterized the dynamics of single-nucleotide mosaicism in a 36-yr-old clementine (Citrus ×clementina hort. ex Tanaka) tree, a commercial citrus whose vegetative behavior is known in detail. Whole-genome sequencing...
| Autores principales: | , , , |
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| Formato: | article |
| Lenguaje: | Inglés |
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Wiley
2021
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| Acceso en línea: | http://hdl.handle.net/20.500.11939/7803 https://acsess.onlinelibrary.wiley.com/doi/10.1002/tpg2.20162 |
| _version_ | 1855032674219982848 |
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| author | Pérez-Román, Estela Borredá, Carles López-García, Antonio Talón, Manuel |
| author_browse | Borredá, Carles López-García, Antonio Pérez-Román, Estela Talón, Manuel |
| author_facet | Pérez-Román, Estela Borredá, Carles López-García, Antonio Talón, Manuel |
| author_sort | Pérez-Román, Estela |
| collection | ReDivia |
| description | Most of the hundreds of citrus varieties are derived from spontaneous mutations. We characterized the dynamics of single-nucleotide mosaicism in a 36-yr-old clementine (Citrus ×clementina hort. ex Tanaka) tree, a commercial citrus whose vegetative behavior is known in detail. Whole-genome sequencing identified 73 reliable somatic mutations, 48% of which were transitions from G/C to A/T, suggesting ultraviolet (UV) exposure as mutagen. The mutations accumulated in sectorized areas of the tree in a nested hierarchy determined by the branching pattern, although some variants detected in the basal parts were also found in the new growth and were fixed in some branches and leaves of much younger age. The estimate of mutation rates in our tree was 4.4 × 10−10 bp−1 yr−1, a rate in the range reported in other perennials. Assuming a perfect configuration and taking advantage of previous counts on the number of total leaves of typical clementine trees, these mutation determinations allowed to estimate for the first time the total number of variants present in a standard adult tree (1,500–5,000) and the somatic mutations generated in a typical leaf flush (0.92–1.19). From an evolutionary standpoint, the sectoral distribution of somatic mutations and the habit of periodic foliar renewal of long-lived plants appear to increase genetic heterogeneity and, therefore, the adaptive role of somatic mutations reducing the mutational load and providing fitness benefits. |
| format | article |
| id | ReDivia7803 |
| institution | Instituto Valenciano de Investigaciones Agrarias (IVIA) |
| language | Inglés |
| publishDate | 2021 |
| publishDateRange | 2021 |
| publishDateSort | 2021 |
| publisher | Wiley |
| publisherStr | Wiley |
| record_format | dspace |
| spelling | ReDivia78032025-04-25T14:48:35Z Single-nucleotide mosaicism in citrus: Estimations of somatic mutation rates and total number of variants Pérez-Román, Estela Borredá, Carles López-García, Antonio Talón, Manuel Genetic mosaicism Single-nucleotide polymorphism Mutation rate Clementine trees F30 Plant genetics and breeding U30 Research methods Citrus Somatic mutation Chromosomes DNA replication Variants Genomes Most of the hundreds of citrus varieties are derived from spontaneous mutations. We characterized the dynamics of single-nucleotide mosaicism in a 36-yr-old clementine (Citrus ×clementina hort. ex Tanaka) tree, a commercial citrus whose vegetative behavior is known in detail. Whole-genome sequencing identified 73 reliable somatic mutations, 48% of which were transitions from G/C to A/T, suggesting ultraviolet (UV) exposure as mutagen. The mutations accumulated in sectorized areas of the tree in a nested hierarchy determined by the branching pattern, although some variants detected in the basal parts were also found in the new growth and were fixed in some branches and leaves of much younger age. The estimate of mutation rates in our tree was 4.4 × 10−10 bp−1 yr−1, a rate in the range reported in other perennials. Assuming a perfect configuration and taking advantage of previous counts on the number of total leaves of typical clementine trees, these mutation determinations allowed to estimate for the first time the total number of variants present in a standard adult tree (1,500–5,000) and the somatic mutations generated in a typical leaf flush (0.92–1.19). From an evolutionary standpoint, the sectoral distribution of somatic mutations and the habit of periodic foliar renewal of long-lived plants appear to increase genetic heterogeneity and, therefore, the adaptive role of somatic mutations reducing the mutational load and providing fitness benefits. 2021-12-01T15:14:18Z 2021-12-01T15:14:18Z 2021 article publishedVersion Perez‐Roman, E., Borreda, C., Lopez‐García Usach, A. & Talon, M. (2021). Single‐nucleotide mosaicism in citrus: Estimations of somatic mutation rates and total number of variants. The Plant Genome, published on-line in 19 November 2021, e20162 1940-3372 (online ISSN) http://hdl.handle.net/20.500.11939/7803 10.1002/tpg2.20162 https://acsess.onlinelibrary.wiley.com/doi/10.1002/tpg2.20162 en info:eu-repo/grantAgreement/AEI/Programa Estatal de I+D+i Orientada a los Retos de la Sociedad/RTI2018- 097790-R-100/ES/DESARROLLO Y OBTENCION DE NUEVAS VARIEDADES DE CITRICOS MEDIANTE LA APLICACION DE HERRAMIENTAS GENOMICAS DE MEJORA BASADAS EN LOS METODOS DE SECUENCIACION DE NUEVA GENERACION info:eu-repo/grantAgreement/ERDF/POCV 2014-2020/51915 info:eu-repo/grantAgreement/ERDF/PCV 2021-2027/52002 Ministerio de Ciencia, Innovación yUniversidades, Grant/AwardNumber:RTI2018- 097790-R-100. GeneralitatValenciana, InstitutoValenciano de InvestigacionesAgrarias, Grant/AwardNumbers: 51915, 52002. Atribución-NoComercial-SinDerivadas 3.0 España http://creativecommons.org/licenses/by-nc-nd/3.0/es/ openAccess Wiley electronico |
| spellingShingle | Genetic mosaicism Single-nucleotide polymorphism Mutation rate Clementine trees F30 Plant genetics and breeding U30 Research methods Citrus Somatic mutation Chromosomes DNA replication Variants Genomes Pérez-Román, Estela Borredá, Carles López-García, Antonio Talón, Manuel Single-nucleotide mosaicism in citrus: Estimations of somatic mutation rates and total number of variants |
| title | Single-nucleotide mosaicism in citrus: Estimations of somatic mutation rates and total number of variants |
| title_full | Single-nucleotide mosaicism in citrus: Estimations of somatic mutation rates and total number of variants |
| title_fullStr | Single-nucleotide mosaicism in citrus: Estimations of somatic mutation rates and total number of variants |
| title_full_unstemmed | Single-nucleotide mosaicism in citrus: Estimations of somatic mutation rates and total number of variants |
| title_short | Single-nucleotide mosaicism in citrus: Estimations of somatic mutation rates and total number of variants |
| title_sort | single nucleotide mosaicism in citrus estimations of somatic mutation rates and total number of variants |
| topic | Genetic mosaicism Single-nucleotide polymorphism Mutation rate Clementine trees F30 Plant genetics and breeding U30 Research methods Citrus Somatic mutation Chromosomes DNA replication Variants Genomes |
| url | http://hdl.handle.net/20.500.11939/7803 https://acsess.onlinelibrary.wiley.com/doi/10.1002/tpg2.20162 |
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