Phenol chloroform extraction of nucleic acids was performed with approx. 0.5 g of sample material according to Töwe et al. (2011) (link) or without added material for extraction blanks, which served as extraction control (four processed controls). For homogenization, Lysing Matrix Tubes E (MP Biomedicals, USA) and the Precellys24 Instrument (Bertin Technologies, France) were used. The purity of the extract was checked by measuring the ratios of adsorption of 260 nm/280 nm and 260 nm/230 nm as given by NanoDrop® ND-1000 spectrophotometer (Thermo Fisher Scientific, USA). Yields of extracted DNA were quantified using Quant-IT™ Picogreen® dsDNA Assay Kit (Thermo Fisher Scientific, USA). The DNA concentration of the four extraction controls was below detection limit, and thus, DNA contamination during the extraction could be excluded.
Lysing matrix tubes e
Manufactured by MP Biomedicals
Sourced in United States
The Lysing Matrix Tubes E are designed for efficient cell lysis and sample homogenization. They contain a proprietary mixture of ceramic and silica beads that facilitate the mechanical disruption of various sample types, including tissues, cells, and microorganisms. The tubes are suitable for use with a variety of homogenization instruments, such as bead beaters or tissue grinders, to ensure thorough sample preparation prior to further processing or analysis.
Automatically generated - may contain errors
4 protocols using lysing matrix tubes e
1
Phenol Chloroform Extraction of Nucleic Acids
2
Phenol Chloroform Extraction of Nucleic Acids
Check if the same lab product or an alternative is used in the 5 most similar protocols
+ Expand
Phenol chloroform extraction of nucleic acids was performed with approx. 0.5 g of sample material according to Töwe et al. (2011) (link) or without added material for extraction blanks, which served as extraction control (four processed controls). For homogenization, Lysing Matrix Tubes E (MP Biomedicals, USA) and the Precellys24 Instrument (Bertin Technologies, France) were used. The purity of the extract was checked by measuring the ratios of adsorption of 260 nm/280 nm and 260 nm/230 nm as given by NanoDrop® ND-1000 spectrophotometer (Thermo Fisher Scientific, USA). Yields of extracted DNA were quantified using Quant-IT™ Picogreen® dsDNA Assay Kit (Thermo Fisher Scientific, USA). The DNA concentration of the four extraction controls was below detection limit, and thus, DNA contamination during the extraction could be excluded.
3
Harvesting and Preserving Plant Roots
Check if the same lab product or an alternative is used in the 5 most similar protocols
+ Expand
Rosettes of all plants were cut and their FW was measured. Four representative FlowPots were chosen from each box, and their roots were harvested for microbiome analysis in the following way. Roots were washed four times in sterile MQ water, dried shortly on a paper filter, and flash frozen in Lysing E matrix tubes (MP Biomedicals) in liquid nitrogen. Samples were stored in −80 °C until further processing. Experiment was repeated at least three times independently, giving a total of up to 12 replicates per treatment.
4
Root and Soil Sampling Protocol
Check if the same lab product or an alternative is used in the 5 most similar protocols
+ Expand
Rosettes of all plants (maximum of 5) were cut and their FW measured. Roots were washed in sterile MQ water three times, then once in detergent (1%Tris-EDTA [TE] + 0.1% Triton X-100), once in 70% ethanol, once in 3% bleach, and again three times in sterile MQ water, following the fractionation protocol described before (39 (link)). Afterward, the roots were dried shortly on the paper filter and frozen in Lysing E matrix tubes (MP Biomedicals) in liquid nitrogen. Soil samples were taken from unplanted pots: First, a top 2-cm layer of soil was removed, and ∼1 g soil was taken from the middle of the pot into Lysing E matrix tube and immediately frozen in liquid nitrogen. Samples were stored in −80 °C until further processing.
About PubCompare
Our mission is to provide scientists with the largest repository of trustworthy protocols and intelligent analytical tools, thereby offering them extensive information to design robust protocols aimed at minimizing the risk of failures.
We believe that the most crucial aspect is to grant scientists access to a wide range of reliable sources and new useful tools that surpass human capabilities.
However, we trust in allowing scientists to determine how to construct their own protocols based on this information, as they are the experts in their field.
Ready to get started?
Sign up for free.
Registration takes 20 seconds.
Available from any computer
No download required
Revolutionizing how scientists
search and build protocols!