Tomato (Solanum lycopersicum) is the most important vegetable crop globally. As a model plant for genetic and genomic research, it has been studied extensively, particularly in the understanding of fruit development and biotic and abiotic resistance mechanisms. The first tomato genome of the cultivar Heinz 1706 was released over a decade ago (Tomato Genome,  2012), and the latest improved version SL5.0 was assembled using Pacific Biosciences HiFi sequencing data (Zhou et al., 2022), but it is still incomplete with 31 gaps and 21 missing telomeres as well as lack of information about 45S ribosomal RNA genes (rDNAs). Recently, the advancement of ultra-long Oxford Nanopore (ONT) sequencing technology has enabled the assembly of many telomere-to-telomere (T2T) plant genomes. It is crucial to provide a T2T tomato reference genome for genomic and evolutionary studies.