دورية أكاديمية
The genomic diversification of grapevine clones
| العنوان: | The genomic diversification of grapevine clones |
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| المؤلفون: | Amanda M. Vondras, Andrea Minio, Barbara Blanco-Ulate, Rosa Figueroa-Balderas, Michael A. Penn, Yongfeng Zhou, Danelle Seymour, Zirou Ye, Dingren Liang, Lucero K. Espinoza, Michael M. Anderson, M. Andrew Walker, Brandon Gaut, Dario Cantu |
| المصدر: | BMC Genomics, Vol 20, Iss 1, Pp 1-19 (2019) |
| بيانات النشر: | BMC, 2019. |
| سنة النشر: | 2019 |
| المجموعة: | LCC:Biotechnology LCC:Genetics |
| مصطلحات موضوعية: | Clonal propagation, DNA methylation, Genome diversification, Somatic mutations, Structural variation, Transposable elements, Biotechnology, TP248.13-248.65, Genetics, QH426-470 |
| الوصف: | Abstract Background Vegetatively propagated clones accumulate somatic mutations. The purpose of this study was to better appreciate clone diversity and involved defining the nature of somatic mutations throughout the genome. Fifteen Zinfandel winegrape clone genomes were sequenced and compared to one another using a highly contiguous genome reference produced from one of the clones, Zinfandel 03. Results Though most heterozygous variants were shared, somatic mutations accumulated in individual and subsets of clones. Overall, heterozygous mutations were most frequent in intergenic space and more frequent in introns than exons. A significantly larger percentage of CpG, CHG, and CHH sites in repetitive intergenic space experienced transition mutations than in genic and non-repetitive intergenic spaces, likely because of higher levels of methylation in the region and because methylated cytosines often spontaneously deaminate. Of the minority of mutations that occurred in exons, larger proportions of these were putatively deleterious when they occurred in relatively few clones. Conclusions These data support three major conclusions. First, repetitive intergenic space is a major driver of clone genome diversification. Second, clones accumulate putatively deleterious mutations. Third, the data suggest selection against deleterious variants in coding regions or some mechanism by which mutations are less frequent in coding than noncoding regions of the genome. |
| نوع الوثيقة: | article |
| وصف الملف: | electronic resource |
| اللغة: | English |
| تدمد: | 1471-2164 |
| Relation: | https://doaj.org/toc/1471-2164 |
| DOI: | 10.1186/s12864-019-6211-2 |
| URL الوصول: | https://doaj.org/article/b4a2221db29b4912a6e9b1de04d21f38 |
| رقم الأكسشن: | edsdoj.b4a2221db29b4912a6e9b1de04d21f38 |
| قاعدة البيانات: | Directory of Open Access Journals |
Find this article in full text from Springer Verlag. 
Full Text Finder | تدمد: | 14712164 |
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| DOI: | 10.1186/s12864-019-6211-2 |