Avocado (Persea americana) is the major fruit cultivated in southern Florida counties with a value exceeding 20 million dollars annually. While production in other regions is dominated by the Hass cultivar, south Florida is unique in production of the increasingly popular, green-skinned varieties. Recently, the avocado industry in South Florida has been devastated by laurel wilt (LW), an insect-disease complex spread by Raffaelea lauricola (Rf), a fungal symbiont of redbay ambrosia beetle (Xyleborus glabratus Eichhoff). Current management practices including prophylactic fungicide injections, tree rejuvenation and ambrosia beetle population reduction are costly and onerous . Unfortunately, no mature avocado trees tolerant to LW are available to growers and genetic mechanism of LW tolerance observed in some avocado seedlings is unknown. In this study, a chromosomal genome of avocado cv. ‘Simmonds’, a ‘West Indian’ (Lowland) ecotype was assembled from Pacific Biosciences HiFi reads. The genome assembly contained 451 scaffolds spanning 98.89% of the avocado genome, a N50 of 82.34MB and a BUSCO score of 95%. This assembly served as a reference genome to generate 9198 genome wide single nucleotide polymorphisms (SNPs) using genotyping by sequencing (GBS) reads of a germplasm collection comprising 80 accessions of three avocado ecotypes (Mexican, Guatemalan and West Indian) and 18 novel hybrids exhibiting seedling tolerance to LW. Phylogentic analyses revealed three major clusters with majority of LW tolerant seedlings clustering amongst Hass derived hybrids as well as cultivars belonging to Mexican and Guatemalan ecotypes such as 'Winter Mexican', and 'Ettinger'. This work provides genomic resources for characterization of genetic tolerance of LW in avocado germplasm collections and is a significant step in developing LW tolerant hybrids to support local avocado industry.
