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This volume discusses the oral microbiome, and oral and systemic health. The chapters in this book cover topics such as analytical techniques for identifying and measuring oral bacteria; strategies for controlling common sources of variability in oral microbiome methods for viral bacterial and fungal analysis; ways to study oral DNA and RNA samples to identify molecular pathways to disease; approaches to functional assays for oral bacteriophage, antibiotic purging of systemic bacteria; and metaproteomic analysis of various oral samples. Written in the highly successful Methods in Molecular Biology series format, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step, readily reproducible laboratory protocols, and tips on troubleshooting and avoiding known pitfalls.
Cutting-edge and practical, The Oral Microbiome: Methods and Protocols is a valuable resource for any scientist or researcher looking to further study this exciting and developing field.
List of contents
Increasing Reproducibility in Oral Microbiome Research.- Oral Sampling Techniques.- Functional Metagenomic Screening for Antimicrobial Resistance in the Oral Microbiome.- Isolation and Functional Characterization of Fusobacterium nucleatum Bacteriophage.- Comparison of Microbiome in Stimulated Saliva in Edentulous and Dentate Subjects.- Host DNA Depletion in Saliva Samples for Improved Shotgun Metagenomics.- A Standardized Approach for Shotgun Metagenomic Analysis of Ancient Dental Calculus.- Whole-Genome Sequencing of Pathogens in Saliva: A Target-Enrichment Approach for SARS-CoV-2.- Assessing the Relationship Between Nitrate-Reducing Capacity of the Oral Microbiome and Systemic Outcomes.- Identification of Oral Bacterial Biosynthetic Gene Clusters Associated with Caries.- Usage of Metatranscriptomics to Understand Oral Disease.- Noninvasive Acquisition of Oral Mucosal Epithelial miRNA and Bacteria DNA/RNA from a Single Site.- Bottom-Up Community Proteome Analysis of Saliva Samples and Tongue Swabs by Data-Dependent Acquisition Nano LC-MS/MS Mass Spectrometry.- Strain Level Profiling of Oral Microbiota with Targeted Sequencing.- Profiling the Human Oral Mycobiome in Tissue and Saliva Using ITS2 DNA Metabarcoding Compared to a Fungal Specific Database.- Measuring Effects of Dietary Fiber on the Murine Oral Microbiome with Enrichment of 16S rDNA Prior to Amplicon Synthesis.- Antibiotic Conditioning and Single Gavage Allows Stable Engraftment of Human Microbiota in Mice.
