Assessing Changes in the Vaginal Bacterial Community Leading up to Incident Bacterial Vaginosis Using Shotgun Metagenomics Sequencing of Selected Longitudinal Samples.
Location
Medical Education Building, LSUHSC-NO
Presentation Date
10-10-2019 10:00 AM
End Date
10-10-2019 12:00 PM
Description
Understanding changes in the vaginal bacterial community that occur preceding incident bacterial vaginosis (iBV) is an important precursor to developing effective approaches for prevention and treatment of iBV. In a prior study, African American women who have sex with women were prospectively enrolled and followed for 90 days using self-collected vaginal swabs to detect iBV. 16S rRNA sequencing was used to identify key bacteria that change in relative abundance leading up to iBV. It was found that Gardnerella vaginalis, Prevotella bivia, Atopobium vaginae, and Megasphaera type I increased leading up to iBV. In order to obtain a deeper understand of the mechanisms that take place leading up to iBV, 24 selected samples from this study have undergone shotgun metagenomic sequencing. Six time points leading up to iBV were chosen from each of four subjects that developed iBV. These subjects and time points were chosen based on importance of changes identified from their 16S rRNA sequencing analysis. The primary goal of this project will be to install and utilize several existing tools for shotgun metagenomics sequencing data to analyze these 24 samples and compare the findings with the results obtained from 16S sequencing. The wealth of information provided by the shotgun metagenomic sequencing will complement and enhance the existing 16S rRNA sequencing analysis. A further, overarching goal of this project will be to establish a method for using 16S rRNA sequencing as an initial surveying tool to selectively identify important samples to subject to more expensive shotgun metagenomics sequencing. Currently, we have produced preliminary data and figures that demonstrate the wealth of knowledge obtained through shotgun metagenomics sequencing and how it expands the information previously analyzed in the initial 16S rRNA sequencing.
Recommended Citation
Elnaggar, Jacob H., "Assessing Changes in the Vaginal Bacterial Community Leading up to Incident Bacterial Vaginosis Using Shotgun Metagenomics Sequencing of Selected Longitudinal Samples." (2019). Medical Student Research Poster Symposium. 13.
https://digitalscholar.lsuhsc.edu/sommrd/2019/posters/13
Assessing Changes in the Vaginal Bacterial Community Leading up to Incident Bacterial Vaginosis Using Shotgun Metagenomics Sequencing of Selected Longitudinal Samples.
Medical Education Building, LSUHSC-NO
Understanding changes in the vaginal bacterial community that occur preceding incident bacterial vaginosis (iBV) is an important precursor to developing effective approaches for prevention and treatment of iBV. In a prior study, African American women who have sex with women were prospectively enrolled and followed for 90 days using self-collected vaginal swabs to detect iBV. 16S rRNA sequencing was used to identify key bacteria that change in relative abundance leading up to iBV. It was found that Gardnerella vaginalis, Prevotella bivia, Atopobium vaginae, and Megasphaera type I increased leading up to iBV. In order to obtain a deeper understand of the mechanisms that take place leading up to iBV, 24 selected samples from this study have undergone shotgun metagenomic sequencing. Six time points leading up to iBV were chosen from each of four subjects that developed iBV. These subjects and time points were chosen based on importance of changes identified from their 16S rRNA sequencing analysis. The primary goal of this project will be to install and utilize several existing tools for shotgun metagenomics sequencing data to analyze these 24 samples and compare the findings with the results obtained from 16S sequencing. The wealth of information provided by the shotgun metagenomic sequencing will complement and enhance the existing 16S rRNA sequencing analysis. A further, overarching goal of this project will be to establish a method for using 16S rRNA sequencing as an initial surveying tool to selectively identify important samples to subject to more expensive shotgun metagenomics sequencing. Currently, we have produced preliminary data and figures that demonstrate the wealth of knowledge obtained through shotgun metagenomics sequencing and how it expands the information previously analyzed in the initial 16S rRNA sequencing.
Comments
Mentor: Christopher Taylor, PhD (Department of Microbiology, Immunology & Parasitology)