One of the most complex microbial communities of the human body resides in the oral cavity where hundreds of bacterial species as well as fungi, archaea, and viruses have been detected. Attached to the various surfaces of the mouth, the resident microbes prevent colonization by pathogens and orchestrate the maintenance of oral and systemic health.
From the collection of samples to microbial DNA extraction and sequencing, the analysis of the oral microbiome can be challenging, and the correct strategy is key: The human mouth contains various microbial micro-habitats; each micro-habitat harbors a distinct microbial composition.
When considering studying the oral microbiota, the sample collection can be done from each of the various niches. This requires different collection methods such as the collection with swabs, brushes (especially for tissue sites), or the collection of whole saliva – which is considered a fingerprint of the oral microbiome.
Our experts at Clinical Microbiomics have profound experience with sample collection to data generation for helping you to find the right strategy for your study. We offer Illumina-based 16S rDNA amplicon sequencing and shotgun metagenomics of oral microbiome samples. 16S rDNA amplicon sequencing will give you a detailed understanding of the taxonomical composition of the microbiome (genus/species resolution), where with shotgun metagenomics improved taxonomical (species/strain) and functional resolution (genes) is possible.