Long-read sequencing technologies have revolutionized microbial genomics by providing greater depth, resolution, and completeness of genomic data. Among these, PacBio HiFi sequencing stands out as a single, comprehensive technology that offers highly accurate long reads while preserving critical epigenetic information, such as DNA methylation patterns. This high accuracy, combined with long-read capabilities, makes it a powerful and cost-effective tool for microbial genomics that enables researchers to generate high-confidence genome assemblies that were previously challenging with short-read technologies. Its single-technology approach ensures high accuracy, data completeness, and methylation detection, enabling high-quality whole-genome sequencing (WGS) of microbial isolates. HiFi sequencing delivers reference-grade assemblies with closed chromosomes and plasmids, reducing the need for additional scaffolding or polishing. For microbiome profiling, HiFi full-length amplicon sequencing (e.g., 16S, ITS, 18S) offers superior taxonomic resolution at the species and strain level by sequencing entire genes. This improves classification accuracy and enables precise microbial identification. Additionally, HiFi shotgun metagenomic sequencing enhances functional insights and taxonomic profiling, reducing misclassification errors while enabling a deeper understanding of metagenomes. HiFi reads also improve metagenome-assembled genome (MAG) recovery, generating more complete and single-contig MAGs, even at lower coverage. This is particularly valuable for studying hard-to-culture or low-abundance microbes. By providing high accuracy, completeness, and epigenetic insights, PacBio HiFi sequencing advances microbial genomics research, from isolate genome assembly to complex metagenomes. Its ability to generate high-quality, contiguous sequences with epigenetic information makes it a cost-effective and scalable solution for researchers studying microbial diversity, evolution, and function in a variety of environments.