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bioRxiv · 10.1101/2023.01.18.524616

Genome assembly of the hybrid grapevine Vitis Chambourcin

Patel, S.·Harris, Z. N.·Londo, J.·Miller, A.·Fennell, A.
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Abstract

Background Chambourcin is a French-American interspecific hybrid grape variety grown in the eastern and midwestern United States and used for making wine. Currently, there are few genomic resources available for hybrid grapevines like Chambourcin. ResultsWe assembled the genome of Chambourcin using PacBio HiFi long-read sequencing, Bionano optical map sequencing and Illumina short read sequencing. We produced an assembly for Chambourcin with 26 scaffolds with an N50 length of 23.3 Mb and an estimated BUSCO completeness of 97.9%. 33,791 gene models were predicted, of which 81% (27,075) were functionally annotated using Gene Ontology and KEGG pathway analysis. We identified 16,056 common orthologs between Chambourcin gene models, V. vinifera PN40024 12X.v2, VCOST.v3, Shine Muscat (Vitis labruscana x V. vinifera) and V. riparia Gloire. A total of 1,606 plant transcription factors representing 58 different gene families were identified in Chambourcin. Finally, we identified 304,571 simple sequence repeats (SSRs), repeating units of 1-6 base pairs in length in the Chambourcin genome assembly. ConclusionsWe present the genome assembly, genome annotation, protein sequences and coding sequences reported for Chambourcin. The Chambourcin genome assembly provides a valuable resource for genome comparisons, functional genomic analysis and genome-assisted breeding research.

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Patel, S., Harris, Z. N., Londo, J., Miller, A., Fennell, A.. 2023-01-20. Genome assembly of the hybrid grapevine Vitis Chambourcin. https://doi.org/10.1101/2023.01.18.524616

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