What is the best serum or PBMC to isolate rna?5 answersThe best source for isolating RNA, particularly for detecting hepatitis C virus (HCV), appears to be whole blood and PBMCs. Studies have shown that RNA isolation from whole blood using a cationic surfactant yields suitable templates for HCV detection, with stable RNA even after 7 days at room temperature. Additionally, PBMC-derived RNA has been successfully used for sensitive detection of specific responses, such as CD8+ T cell peptide epitopes, even with limited cell numbers. Furthermore, research comparing PBMC-derived and serum-derived HCV variants suggests that PBMC-derived RNA shows a higher conservation in certain HCV binding regions, indicating the selection of more stable HCV variants in PBMCs. Therefore, whole blood and PBMCs are promising sources for RNA isolation in the context of HCV detection and immune response studies.
How to isolate RNA from MEF cells using the trizol method?4 answersTo isolate RNA from MEF cells using the Trizol method, follow these steps: First, use Trizol to solubilize the cells and release the nucleic acids, obtaining a split product. Next, add an organic extracting solvent to the split product and centrifuge to separate the RNA aqueous phase, DNA flocculent layer, and organic phase. Then, precipitate and wash the RNA aqueous phase and DNA flocculent layer, using 1,2-propanediol as a DNA precipitation agent. This method effectively avoids issues of low yield and poor purity in simultaneous DNA and RNA extraction. Additionally, consider the optimized in-house protocol using magnetic silica beads for RNA isolation, which provides high-quality RNA free of genomic DNA contamination at a fraction of the cost of commercial kits.
What are the advantages and disadvantages of using Trizol for RNA extraction from blood?5 answersTrizol is a commonly used method for RNA extraction from blood, but it has both advantages and disadvantages. One advantage is its simplicity and economic feasibility, making it a popular choice for purification of RNA. However, there are some drawbacks to using Trizol. One disadvantage is the low quality of extracted RNA due to contaminants from the residue of phenol and guanidinium thiocyanate from the reagents. This can affect downstream applications and the accuracy of results. Despite attempts to optimize the method, there may be no significant improvement in the purity ratio A260/A280. However, there can be a significant improvement in RNA yield and purity ratio A260/A230, indicating better quality RNA. Overall, while Trizol is a simple and cost-effective method for RNA extraction from blood, researchers should be aware of the potential limitations and consider alternative methods if higher quality RNA is required.
Can trizol be used for RNA isolation from small sample?4 answersTRIzol reagent can be used for RNA isolation from small samples. The method of selectively extracting small RNAs from a cell using the conventional AGPC RNA extraction method modified with TRIzol reagent has been developed. This modified method provides a simple process to selectively extract concentrated small RNAs without the need for additional concentration steps, reducing costs. Additionally, the method provides small RNA extraction efficiency comparable to commercial kits and can be beneficially utilized in various analysis researches such as NGS and microRNA research. Another study also demonstrated the efficiency of TRIzol reagent in isolating small RNAs, showing that small RNAs can be enriched and recovered from the supernatants using a combination of LiCl and ethanol. Therefore, TRIzol reagent is a suitable option for RNA isolation from small samples.
How to isolate DNA from water samples?5 answersDNA extraction from water samples can be achieved using various methods. One method is electrochemical cell lysis (ECL), which involves the local generation of hydroxide at a cathode surface. Another method is the modified DNeasy PowerWater Kit® protocol, which utilizes enzymatic, chemical, and mechanical lysis strategies to enhance DNA recovery. Additionally, the 50-50-50 buffer-chloroform/phenol method can be used for DNA extraction from water and soil samples. For environmental DNA (eDNA) studies, glass-microfiber syringe filtration and ethanol precipitation are two collection methods that can be used by citizen scientists. Target capture approaches can also be employed for eDNA-based population studies, allowing for the retrieval of complete mitochondrial genomes and thousands of nuclear loci from aquatic eDNA samples.
How DNA extraction is carried out?5 answersDNA extraction is carried out using various methods. One method involves the use of a DNA extraction instrument that consists of an upper shell, a lower shell, a buffer solution storage chamber, a bottom plate, a sliding plug, a transmission shaft, and rolling wheels. This instrument is designed to be convenient to use and portable, making it suitable for extracting sample DNA in different outdoor weather environments. Another method involves suspending a sample in a TE buffer solution, performing cell lysis and DNA release, and using aminated magnetic nano-particles to adsorb the DNA. This method allows for rapid and sensitive detection of DNA and is applicable to multiple detection samples. Yet another method involves shearing fresh material, freezing and grinding it to obtain a low temperature powder, adding SDS and protease K, mixing the materials, and carrying out centrifuging, extraction, and dissolving. This method allows for rapid and highly-efficient extraction of DNA with high quality.