A panel of 160 Musa and 130 Citrus accessions will be re-sequenced to reveal their phylogenomic structure and experimentally establish gene sequence haplotypes from network of related accessions. To characterize large structural variations in 35 of the bananas and 25 of the citrus accessions, additional sequencing will be performed using Large insert paired-end sequencing and/or long read sequence technologies. To analyse the impact of admixed structures on inheritance in haploid and diploid gametes, to infer chromosome haplotype sequence and ultimately develop WGA studies, we will genotype (GBS) 60 (3300 hybrids) and 14 (1800 hybrids) segregant progenies of banana and citrus, respectively.