Prunus dulcis Nonpareil Genome v1.0 Assembly & Annotation
D'Amico-Willman KM, Ouma WZ, Meulia T, Sideli GM, Gradziel TM, Fresnedo-Ramírez J. Whole-genome sequence and methylome profiling of the almond (Prunus dulcis [Mill.] D.A.Webb) cultivar 'Nonpareil'. G3 (Bethesda). 2022 May 6;12(5):jkac065. doi: 10.1093/g3journal/jkac065. (GDR | Journal)
This work was supported through the Ohio State University CFAES-SEEDS program grant 2019-125, the Almond Board of California Grant HORT35, the Translational Plant Sciences Graduate Fellowship, the Cancer Center Support Grant (CCSG) P30CA016058, the AFRI-EWD Predoctoral Fellowship 2019-67011-29558 from the USDA National Institute of Food and Agriculture.
Homology of the Prunus dulcis Nonpareil Genome v1.0 proteins was determined by pairwise sequence comparison using the blastp algorithm against various protein databases. An expectation value cutoff less than 1e-9 was used for the NCBI nr (Release 2021-09) and 1e-6 for the Arabidoposis proteins (Araport11), UniProtKB/SwissProt (Release 2021-09), and UniProtKB/TrEMBL (Release 2021-09) databases. The best hit reports are available for download in Excel format.
The Prunus dulcis Nonpareil Nonpareil Genome v1.0 assembly file is available in FASTA format.
The Prunus dulcis Nonpareil v1.0 genome gene prediction file is available in GFF3 format.
Functional annotation for the Prunus dulcis Nonpareil Genome v1.0 are available for download below. The Prunus dulcis Nonpareil Genome v1.0 proteins were analyzed using InterProScan in order to assign InterPro domains and Gene Ontology (GO) terms. Pathways analysis was performed using the KEGG Automatic Annotation Server (KAAS).
Transcript alignments were performed by the GDR Team of Main Bioinformatics Lab at WSU. The alignment tool 'BLAT' was used to map transcripts to the Prunus dulcis Nonpareil genome assembly. Alignments with an alignment length of 97% and 97% identify were preserved. The available files are in GFF3 format.