Whole genome assembly in a Japanese strawberry cultivar, 'Reikou', and comparison with wild Fragaria genomes
Cultivated strawberry (Fragaria × ananassa) is an allo-octoploid species, which chromosome number is 2n=8x=56. In this study, we report a chromosome-scale strawberry genome assembly of a Japanese cultivar. Genomes of diploid Fragaria species were re-sequenced and compared with the most similar chromosome-scale scaffolds to investigate possible progenitor of each subgenomes. The Illumina short reads derived from paired-end, mate pair and 10X Genomics libraries were obtained from a Japanese cultivar, 'Reikou'. The scafffolds assembled using Denovo MAGIC 3.0 consisted of 32,715 sequences with a total length of 1.4 Gb and N50 length of 3.9 Mb. The scaffolds were aligned onto the 'Reikou' S1 linkage maps with IStraw90 Axiom SaNP array and ddRAD-Seq for pseudomolecule construction.
Shirasawa, K., Chung, C., Boncan, D., Hirakawa, H., Maeda, F., Wada, T., Chan, T.F. and Isobe, S. (2021). Whole genome assembly in a Japanese strawberry cultivar, 'Reikou', and comparison with wild Fragaria genomes. Acta Hortic. 1309, 175-180
strawberry, Fragaria species, whole genome, de novo assembly