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Cervicovaginal virome and bacteriome

ABSTRACT: Cervicovaginal virome and bacteriome in HIV infected women in northern South Africa

PROVIDER: PRJNA1051502 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR27196935.fastq.gz	Fastqsanger.gz
	SRR27242600.fastq.gz	Fastqsanger.gz
	SRR27242501.fastq.gz	Fastqsanger.gz
	SRR27242601.fastq.gz	Fastqsanger.gz
	SRR27242701.fastq.gz	Fastqsanger.gz

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Role of cervicovaginal microbiota in genital inflammation

Project description:We performed gene expression analysis using the SCRB-Seq method from cervical and peripheral blood antigen presenting cells that were collected from women with different cervicovaginal bacterial community types.

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Project description:Cervicovaginal bacteria impact HIV acquisition in young African women

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Cervicovaginal dysbiosis is associated with significant changes in the cervicovaginal proteome related to immune activation and increased cell death

Project description:Cervicovaginal microbiome dysbiosis is associated with increased prevalence and incidence of sexually transmitted infections including HIV. We compared the cervicovaginal proteome as characterised by mass-spectrometry of four groups of African female sex workers (total N=50) grouped by microbiome composition as characterised by 16S rDNA microarray. Group 1 had a Lactobacillus crispatus-dominated microbiome, group 2 a L. iners-dominated microbiome, and groups 3 and 4 had a microbiome containing multiple genera of anaerobic bacteria, with group 3 representing transition to or from dysbiosis and group 4 full dysbiosis. 82 human proteins were differentially abundant among the groups, either showing an increasing or decreasing trend from microbiome groups 1 to 4. Proteins that increased included proteasome subunits and other proteins involved in catabolic metabolism, actin organising proteins and proteins involved in the immune response. Proteins that decreased included antiproteases, keratins, and cornified envelope proteins. We also compared the abundance of pre-defined proteins of interest among microbiome groups: markers of cell type, inflammation, and cell death, and mucins. The dysbiotic groups had increased abundance of proteins unique to lymphocytes and macrophages, pro-inflammatory cytokines, cell death markers, and MUC5B. We conclude that the cervicovaginal human proteome is associated with the cervicovaginal microbiome in a dose-response manner. The changes are likely caused by a pro-inflammatory influx of immune cells and an increase of cell death in dysbiosis. Dysbiosis-associated immune activation, breaches in epithelial integrity, altered mucin balance, and altered protease-antiprotease balance may all contribute to the increased risk of HIV transmission when cervicovaginal dysbiosis is present.

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Project description:Characterization of the cervicovaginal microbiome in a cohort of Afro-Caribbean women

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Project description:Characterization of the cervicovaginal microbiome in a cohort of Afro-Caribbean women

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The effects of host-microbe interactions on the epigenetic signatures of cervicovaginal epithelial cells [ATAC-Seq]

Project description:To identify chromatin alterations by host-microbe interactions in cervicovaginal epithelial cells we performed ATAC-sequencing. We identified regions of chromatin that were altered in cervicovaginal epithelial cells after exposure to L. crispatus supernatant.

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Genes linked to cervicovaginal integrity are dysregulated in DMPA but not COC contraception users

Project description:Injectable depot medroxyprogesterone acetate (DMPA) is one of the most popular contraception methods in areas of high HIV seroprevalence. Evidence is accumulating that use of DMPA might be associated with an increased risk of acquiring HIV-1; however, mechanisms of this association are not completely understood. We conducted a comparative whole genome transcriptome profiling of human ectocervical tissues before and after use of two hormonal contraception methods: injectable DMPA and not linked to increased risk of HIV acquisition combined oral contraceptive (COC). Microarray analysis identified 235 ectocervical genes altered in the DMPA users. The most striking effect of DMPA, but not COC, was a strong dysregulation of genes strategically involved in the maintenance of epithelial barrier function; the alterations were most likely due to the DMPA-induced estrogen deficiency. We also demonstrated inter-individual heterogeneity in gene expression profiles of the DMPA users that clustered into distinct groups. The differential response may explain divergence in reports on effects of DMPA use. We propose that impairment of the cervicovaginal epithelial integrity in response to DMPA administration is the major mechanism underlying a potential increased risk of HIV-1 acquisition in DMPA users.

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The effects of host-microbe interactions on the transcriptomic signatures of cervicovaginal epithelial cells [RNA-seq]

Project description:To elucidate the molecular pathways altered by host-microbe interactions in cervicovaginal epithelial cells we performed whole genome RNA-sequencing. We identified genes and functional pathways that were altered in cervicovaginal epithelial cells after exposure to G. vaginalis or L. crispatus or their supernatant.

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Project description:Cervicovaginal microbiome and virome in discordant HIV shedding

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