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Metatrancriptome of human oral biofilms

ABSTRACT: Next Generation Sequencing approaches such as Illumnia HiSeq2000 and 454 were used to study diversity and gene expression profiles in human oral biofilms.

PROVIDER: PRJEB4673 | ENA |

REPOSITORIES: ENA

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			Action	DRS
		Other
	ERR348407.fastq.gz	Fastqsanger.gz
	ERR348408.fastq.gz	Fastqsanger.gz
	ERR348409.fastq.gz	Fastqsanger.gz
	ERR348410.fastq.gz	Fastqsanger.gz

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Evidence for proline utilisation by oral bacterial biofilms grown in saliva

Project description:Within the mouth bacteria are starved of saccharides as their main nutrient source between meals and it is unclear what drives their metabolism. Previously oral in vitro biofilms grown in saliva have shown proteolytic degradation of salivary proteins and increased extracellular proline. Although arginine and glucose have been shown before to have an effect on oral biofilm growth and activity, there is limited evidence for proline. Nuclear magnetic resonance (NMR) spectroscopy was used to identify extracellular metabolites produced by bacteria in oral biofilms grown on hydroxyapatite discs. Biofilms were inoculated with whole mouth saliva and then grown for 7 days using sterilised whole mouth saliva supplemented with proline, arginine and glucose as a growth-medium. Overall proline had a beneficial effect on biofilm growth – with significantly fewer dead bacteria present by biomass and surface area of the biofilms (p <0.05). Where arginine and glucose significantly increased and decreased pH, respectively, the pH of proline supplemented biofilms remained neutral at pH 7.3-7.5. SDS-polyacrylamide gel electrophoresis of the spent saliva from proline and arginine supplemented biofilms showed inhibition of salivary protein degradation of immature biofilms. NMR analysis of the spent saliva revealed that proline supplemented biofilms were metabolically similar to unsupplemented biofilms, but these biofilms actively metabolised proline to 5-aminopentanoate, butyrate and propionate, and actively utilised glycine. This study shows that in a nutrient limited environment, proline has a beneficial effect on in vitro oral biofilms grown from a saliva inoculum.

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Metatranscriptomes of human oral peri-implant biofilms

Project description:Metatranscriptomes of human oral peri-implant biofilms

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Real-time quantitative PCR analysis of human gingiva epithelial cells exposed to microbial biofilms

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Project description:Next generation sequencing was perfomed to identify differentially expressed micro-RNA in HNSCC tissues, normal oral epithelial tissues and CAFs.

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Project description:Oral in vitro biofilms were established from human saliva and grown as described in Edlund et al. 2013 (Microbiome, doi:10.1186/2049-2618-1-25). Replicate samples were collected for small molecule- and metatranscriptome analyses at pH 7 (prior to glucose amendment), pH 4.2 (6 hrs after glucose amendment) and pH 5.2 (9 hrs after glucose amendment). Other information: 16S 454-sequencing analyses exist for these communities as well as metagenomics data analyses.

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GNPS oral in vitro biofilms

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Circulating miRNAs in the regulation of epithelial mesenchymal transition and their potential role as possible diagnostic biomarkers in areca nut associated oral submucous fibrosis in South Indian population

Project description:Expression of miRNA analysis in human lecukocytes was analysed using Next-generation sequencing (NGS) method in Oral Submucosis Firbrosis condition.

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2020-05-10 | GSE129981 | GEO

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Project description:Biofilms Raw sequence reads

| PRJNA1034779 | ENA