Data from: Application of subtracted gDNA microarray-assisted Bulked Segregant Analysis for rapid discovery of molecular markers associated with day-neutrality in strawberry (Fragaria x ananassa)

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To selectively capture flowering associated sequences specific to strawberry, genomic DNA subtraction was performed between a pool of five strawberry genotypes and nine non-angiosperm species using Suppression Subtractive Hybridisation (SSH) technique. A total of 287 subtracted fragments were used to construct a strawberry-specific Subtracted Diversity Array (SDA). Validation of the array revealed a high subtraction efficiency (99%), indicating that the subtracted fragments are strawberry-specific. To investigate the ability of SDA for marker-trait association, three segregating populations: (1) DN ‘01-061-311’ x SD ‘Juliette’, (2) DN ‘01-061-311’ x DN ‘05-069-63’ and (3) DN ‘01-061-311’ x DN ‘05-069-194’ were chosen for BSA based on flowering habits of parental genotypes. The DNA of the individuals derived from the F1 populations were pooled into four bulks: strong day-neutral (DN1), intermediate day-neutral (DN2), weak day-neutral (DN3) and short day (SD) according to flowering strength. Each DNA bulk was hybridised separately onto the SDA. All hybridisations were performed with six technical replicates and two biological replicates to ensure microarray reproducibility, resulting in 12 data points per feature.