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Vaginal microbiota sampling techniques

ABSTRACT: Comparison of vaginal microbiota sampling techniques: cytobrush versus swab

PROVIDER: PRJEB19346 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	ERR1821000_1.fastq.gz	Fastqsanger.gz
	ERR1821000_2.fastq.gz	Fastqsanger.gz
	ERR1821010_1.fastq.gz	Fastqsanger.gz
	ERR1821010_2.fastq.gz	Fastqsanger.gz
	ERR1821020_1.fastq.gz	Fastqsanger.gz

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Comparison of vaginal microbiota sampling techniques: cytobrush versus swab.

Project description:Evidence suggests the vaginal microbiota (VM) may influence risk of persistent Human Papillomavirus (HPV) infection and cervical carcinogenesis. Established cytology biobanks, typically collected with a cytobrush, constitute a unique resource to study such associations longitudinally. It is plausible that compared to rayon swabs; the most commonly used sampling devices, cytobrushes may disrupt biofilms leading to variation in VM composition. Cervico-vaginal samples were collected with cytobrush and rayon swabs from 30 women with high-grade cervical precancer. Quantitative PCR was used to compare bacterial load and Illumina MiSeq sequencing of the V1-V3 regions of the 16S rRNA gene used to compare VM composition. Cytobrushes collected a higher total bacterial load. Relative abundance of bacterial species was highly comparable between sampling devices (R2?=?0.993). However, in women with a Lactobacillus-depleted, high-diversity VM, significantly less correlation in relative species abundance was observed between devices when compared to those with a Lactobacillus species-dominant VM (p?=?0.0049). Cytobrush and swab sampling provide a comparable VM composition. In a small proportion of cases the cytobrush was able to detect underlying high-diversity community structure, not realized with swab sampling. This study highlights the need to consider sampling devices as potential confounders when comparing multiple studies and datasets.

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