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Tris edta buffer te

Manufactured by Merck Group
Sourced in United States, Poland, United Kingdom

Tris-EDTA buffer (TE) is a commonly used buffer solution in molecular biology and biochemistry. It consists of a mixture of Tris base and EDTA (ethylenediaminetetraacetic acid) in aqueous solution. The primary function of TE buffer is to maintain a stable pH environment and chelate divalent cations, such as magnesium and calcium, which can interfere with various enzymatic reactions and nucleic acid manipulations.

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4 protocols using tris edta buffer te

1

Dual-Labeled Oligonucleotides for Probe Hybridization

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A unique set of 18 dual-labeled oligonucleotides and fluorescent probe was designed (Table 1). FLAP sequences (green color) were attached to the oligonucleotide sequence (blue color) at both ends and they are constituted the hybridization sites for probe (orange color) attachment (Fig. 1).
Next steps were performed based on the protocol described in the publication of Rensen (Rensen et al. 2022) . Tris-EDTA buffer (TE) (SigmaAldrich USA), pH = 8 was added to the synthesized oligonucleotides and the fluorescent probe (which were delivered in the form of a lyophilisate) in a volume specified for each sequence by the company (Genomed, Poznan, Poland) in order to obtain a solution with a concentration of 100µM. The fluorescent probe (100 µM) was frozen at -20 °C until the hybridization process was carried out. Each oligonucleotide was diluted in a separate tube to a concentration of 20 µM (20 µl of oligonucleotide was mixed with 80 µl of TE). 10 µl of each oligonucleotide (20 µM) of positive polarity was added to one test tube, and 10 µl of each oligonucleotide (20 µM) of negative polarity was added to the other. As in the case of the fluorescent probe, the oligonucleotides were stored at -20 °C until the hybridization process was carried out.
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2

DNA-Functionalized Surface Characterization

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Sodium acetate (NaAc; p.a., POCH, Poland), magnesium acetate (Mg(Ac)2; p.a., POCH, Poland), potassium persulfate (VWR Chemicals), potassium hydroxide (POCH, Poland), trisodium phosphate (Chempur, Poland), 1× PBS buffer (pH 7.4; Sigma), absolute ethanol (99.8%; POCH, Poland), EDTA (Sigma), tris–EDTA buffer (TE; Sigma), tris(2-carboxyethyl)phosphine hydrochloride (TCEP; Sigma), 2-amino-2-(hydroxymethyl)propane-1,3-diol (Tris; Sigma), 6-mercaptohexan-1-ol (MCH; Sigma) were all of high purity, and were used as received. For all the experiments, we used distilled and deionized water with a conductivity of 0.056 μS cm−1 produced by the Hydrolab system. The following oligonucleotides, purchased from MWG-Operon (Eurofins), were used:
• Capture DNA (5′ → 3′): thiol-C6-GCCTTCACAGGGTCCTTTATGT.
• Complementary target DNA (5′ → 3′): ACATAAAGGACCCTGTGAAGGC.
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3

Rapid Bacterial DNA Extraction

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DNA was extracted from single colony from sub-cultures incubated anaerobically for 48 h on CBA. A few (4e5) colonies were suspended in TE (Tris-EDTA) buffer (Sigma-Aldrich Co., Ltd., Gillingham, United Kingdom) and heated at 100 C for 10 min. Debris was removed by centrifugation at 13,500 rpm for 2 min, and the supernatant was removed for use. DNA was stored at À20 C.
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4

Ruminal Content Extraction and Preservation

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Ruminal content was collected via the cannula on day 14 or each experimental period before feeding animals (i.e. 7:00 AM). Ten grams of the solid fraction of ruminal content were mixed with 10 ml of Tris-Borate-EDTA buffer (pH 7.0; Sigma Aldrich; add city and country please), shaken vigorously for 3 minutes (vortex; reference of the equipment) and ltered on 100-micron mesh tissue. The ltrate was centrifuged at 13,0000 RCF for 13 minutes at 4°C. The supernatant was discarded, and the remaining pellet was suspended in 0.8 ml of TE Tris-EDTA buffer (10X, pH 8.0; Sigma Aldrich; add city and country please). The suspended content was centrifuged at 15,000 RCF for 11 min at 4°C, the supernatant was discarded, and the precipitate was stored at -20°C.
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