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Depc water

Manufactured by Takara Bio
Sourced in China

DEPC water, also known as diethyl pyrocarbonate-treated water, is a type of laboratory-grade water that is used to inactivate RNase enzymes. It is a commonly used reagent in molecular biology and other life science applications that involve working with RNA. DEPC water is prepared by treating regular water with DEPC, a chemical that binds and inactivates RNase enzymes, ensuring the integrity of RNA samples during experiments and procedures.

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3 protocols using depc water

1

Quantifying PPARγ mRNA Expression by RT-PCR

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The mRNA expression of PPARγ was measured by RT-PCR analysis. The primer was purchased from Sangon Biotech Co., Ltd (Shanghai, China). Total RNA was extracted from the cultured cells using Trizol reagent and quantified using a Nano Photometer (Thermo Scientific, MA, USA). PrimeScript™ RT Master Mix (Takara, Beijing, China) was used to reverse-transcribe 400 ng of RNA into cDNA. The RT-PCR system consisted of 10 μL TB Green Premix Ex Taq II (Takara, Beijing, China), 0.8 μL upstream and downstream primers, 0.4 μL ROX Reference Dye II (Takara, Beijing, China), 2 μL template cDNA, and 6 μL DEPC water (Takara, Beijing, China). The reaction conditions were 95 °C for 30 s, 40 cycles of 95 °C for 5 s and 60 °C for 30 s. The expression level of the PPARγ gene was calculated by the 2−△△Ct method using the housekeeping gene 18S rRNA as the reference. The primer sequences are listed in Table 1.

Primer sequences used for RT-PCR analysis

Forward primer (5′–3′)Reverse primer (5′–3′)
PPARγGTGAAGGGCAAGCCACTCTGAGAGAGGGTCCCATTTCCGA
18S rRNACAGCCACCCGAGATTGAGCATAGTAGCGACGGGCGGTGTG
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2

RNA Extraction and qPCR Protocol for Cellular Analysis

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According to the manufacturer's instructions, total RNA was extracted from cells and tissues using RNAiso (Takara, Kusatsu, Japan). Briefly, the cells in 6 well plates were lysed in 500 μL RNAiso on ice and then mixed with 200 μL chloroform(Baishi, Guangzhou, Guangdong, China). After incubating for 10 min on ice, the mixture was centrifuged at 12000 rpm for 15 min, and the chloroform was collected. Next, 500 μL isopropanol (Baishi) was added to the mixture and incubated for 10 minutes. After centrifugation at 12000 rpm for 10 min, the RNAs were placed at the bottom of the tubes. Then, the RNA precipitate was washed with 75% ethyl alcohol (Baishi) and diluted in diethyl pyrocarbonate (DEPC) water (Takara).
As instructed, quantifications of specific RNA were used SYBR® Green I (Accurate Biotechnology, Changsha, Hunan, China). Briefly, 5 μL SYBR Green, 3 μL DEPC water, 1 μl primers and 1 μl cDNA were prepared for each sample, and the qPCR protocol was run using a LightCycler® 480 II (Roche, Basel, Switzerland). The fold change was calculated using the relative quantification method (2−ΔΔCt). The qPCR primers used are listed in Supplementary Table S2.
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3

Quantitative Analysis of Inflammatory Markers in Rat Brain

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Rat brain tissue or microglia were treated with Trizol; the tissues were separated thoroughly with a homogenizer, and the mRNA was extracted using chloroform and isoamyl alcohol. The RNA sediment was dissolved in DEPC water (Takara, Shanghai, China), quantified using a spectrophotometer, and reverse transcribed into cDNA by using Prime Script reagent kits (Takara, Shanghai, China). PCR was performed using SYBR Green PCR kits (Takara, Shanghai, China) by a Step One Real-Time PCR System. Relative RNA Expression was normalized to β-actin and calculated.18 (link) The primers used in the study are listed as follows: β-actin (5ʹ-TTCGCCATGGATGACGATATC-3ʹ and 5ʹ- TAGGAGTCCTTCTGACCCATAC-3ʹ), Cox-2 (5ʹ-TTCCAGTATCAGAACCGCATTGCC-3ʹ and 5ʹ-CCGTGTTCAAGGAGGATGGAGTTG-3ʹ), IL-β (5ʹ-ATCTCACAGCAGCATCTCGACAAG-3ʹ and 5ʹ-CACACTAGCAGGTCGTCATCATCC-3ʹ), P2X7R (5ʹ-CCACTCTGCTGCCTTGTCGTTAC-3ʹ and 5ʹ-CTGGTATGCGGTTAGATGCGATGG-3ʹ), and TNF-α (5ʹ-GCATGATCCGAGATGTGGAACTGG-3ʹ).
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