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Effect of DNA extraction methods

ABSTRACT: Effect of DNA extraction methods on the determination of the structure of microbial communities in the phosphogypsum waste heap soil

PROVIDER: PRJEB12454 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	ERR1223810_1.fastq.gz	Fastqsanger.gz
	ERR1223810_2.fastq.gz	Fastqsanger.gz
	ERR1223820_1.fastq.gz	Fastqsanger.gz
	ERR1223820_2.fastq.gz	Fastqsanger.gz
	ERR1223830_1.fastq.gz	Fastqsanger.gz

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DNA extraction methods comparison

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The effects from DNA extraction methods on the evaluation of microbial diversity associated with human colonic tissue

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Methods for the concentration and extraction of viruses

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Project description:Human stool samples were collected, microbial cells were harvested and subjected to protein extraction using different protocols for metaproteomics analyses. The protein extraction methods differ from the usage of different lysis buffer (SDS, urea and commercially available B-Per reagent), bead beating, ultrasonication and heating. The impacts of different protein extraction methods on metaproteomics results were evaluated with multiple criteria including protein yields, peptide identifications, taxonomic compositions and functional compositions.

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Examination and comparison of the RNA extraction methods using mouse serum

Project description:Serum miRNAs are considered useful as non-invasive biomarkers for various diseases, but the optimal method for extracting RNA from serum is currently unknown. In this study, several RNA extraction kits were used to determine which kit is the optimal method. RNA was extracted from the serum of 8-week-old C57BL/6NJcl male mice according to the protocol of each RNA extraction kit. The yield of extracted RNA samples was calculated and electrophoretic patterns were evaluated by Agilent bioanalyzer. Expression patterns of the extracted RNA samples were confirmed by Agilent mouse miRNA microarray. The results showed significant differences in RNA yields in the miRNeasy serum/plasma advanced kit, and mirVana™ PARIS™ RNA and Native Protein Purification Kit compared to almost all other samples. Furthermore, two peaks were identified in the miRNeasy serum/plasma advanced kit using small RNA kit of Agilent bioanalyzer, one at 20-40 nucleotides (nt) and the other around 40-100 nt whereas the other reagents had a single peak. In addition, a high correlation was observed between the two RNA extraction kits in microarray. These results suggest that the above two kits are suitable for miRNA extraction from mouse serum.

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