Long read sequencing is changing genomics as we know it. The possibilities and economics of new technologies will drive a second genomic revolution in non-model organisms. Tasks such as the assembly of ultra-high quality genomes that use to take years, millions of dollars and whole teams of people can now be completed by just a few personal in under a year and for under $100K worth of consumables. But the possibilities don’t end there. Here we discuss the current and future state of applied long read sequencing, and its potential to provide real world impacts for agriculture. We also discuss the lessons and pitfalls of using long read technologies, and the implications for the current status quo of agricultural genomics.