Microbial sequencing methods
Advancing our understanding of the microbial world through discovery-based research entails comprehensive analysis of microbial genomes, their interactions, communities, and environments in which they live.
See what is possible
Single Molecule, Real-Time (SMRT) sequencing on the PacBio systems provides a deeper understanding of microbes and microbial communities by giving scientists the ability to:
- Resolve complete microbial genomes and detail their mobile elements
- Characterize epigenetic modifications and their impact on critical bacterial traits
- Investigate viral pathogenicity, evolution, and selection
- Understand microbial communities
Solutions Guide
A new standard in pathogen genomics
Detect, track, and characterize pathogens to a new standard of completeness and precision. PacBio® solutions offer exceptional accuracy and long read lengths to support a wide range of pathogen surveillance applications.
Application brief
MICROBIAL WHOLE GENOME SEQUENCING — BEST PRACTICES
- Generate closed chromosomes and plasmids from even the most repeat-dense and GC-rich genomes easily, affordably, and at high throughput
- Identify ever-evolving genes associated with toxicity, virulence, and antimicrobial resistance
- Precisely identify strains, serotypes, and plasmids to track pathogen outbreaks in human, plant, and animal species, through food systems, hospitals, and communities
- Comprehensively characterize microbes to facilitate scientific breakthroughs and discovery
Spotlight
MINING STREPTOMYCES FOR ANTIMICROBIAL GOLD
The genome of a novel Streptomyces anulatus strain isolated from a Chinese medicinal herb was sequenced with PacBio and fully assembled to reveal 52 putative biosynthetic gene clusters, including numerous with significant differences from known clusters. Growth under diverse conditions produced two novel compounds, with more potential yet to be unlocked.
Liu, et. al. (2022). Exploration of diverse secondary metabolites from Streptomyces sp. YINM00001, using genome mining and one strain many compounds approach. Front Microbiol.
Blog
Obtain more species and MAGs from HiFi shotgun metagenomics data with updated pipelines
Microbial and metagenomics enthusiasts rejoice: newly optimized bioinformatics pipelines are enabling scientists to detect even more species and assemble more single contig metagenomes using HiFi sequencing than ever before – with up to 9-fold increases in some cases.
Due to the continuous advances, improved results, and cost-effectiveness of PacBio HiFi long-read sequencing, it is an increasingly popular tool for metagenomic analysis of complex microbial communities.
Spotlight
ADVANCING CLINICAL RESEARCH WITH BETTER VIRAL GENOMES
Despite its importance as a clinical target, only 4 herpes simplex virus type 2 strains have complete genomes due to dense repeats and ~70% GC content. Here, scientists report the complete de novo assembly and annotation of an additional strain commonly used in research, HSV-2 strain G.
Chang, W. et. al. (2022). Complete genome sequence of herpes simplex virus 2 strain G. Viruses 14(3), 536; https://doi.org/10.3390/v14030536.
Blog
Cost-effective microbiome and metagenomic HiFi sequencing with PacBio service providers
Full-length 16S and shotgun metagenome HiFi sequencing with certified PacBio service providers can deliver remarkably affordable microbiome and metagenomic data with explanatory power that is second to none.
