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Real time pcr detection system

Manufactured by Takara Bio
Sourced in United States, Japan

The Real-time PCR detection system is a laboratory instrument designed for the amplification and detection of nucleic acid sequences in real-time. It utilizes fluorescent dyes or probes to monitor the progress of the PCR reaction, allowing for the quantification of target DNA or RNA molecules.

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16 protocols using real time pcr detection system

1

Quantifying Inflammation-Related Gene Expression

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To detect and validate the expression of differentially expressed genes related to inflammation and IBD, we carried out an RT-PCR using the real-time PCR detection system (Takara Bio, Madison, WI, USA)79 (link). Final mixture (12.5 μL) for RT-PCR consisted of 1 × SYBR Premix Ex Taq Mix (Takara), 0.4 μM of each forward and reverse primers and 1 μL of cDNA. Primers were designed using PRIMER3, and their sequences are as detailed in Supplementary Table 6b. Relative mRNA expressions were normalized to 60S acidic ribosomal protein P1 (Rplp1) in the colon and peptidyl-prolyl cis-trans isomerase (Ppia) in the liver. Gene expression data are presented as the fold change of normalized mRNA amounts of each sample compared to those from the DSS group.
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2

Quantifying Gene Expression in LUSC

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Total RNA was extracted from LUSC and paracancer tissues using the TRIzol Reagent (Invitrogen, USA). Then, the cDNA was reverse-transcribed using a PrimeScriptTM RT kit with gDNA Eraser (TaKaRa, China). According to the manufacturer’s instructions, qRT-PCR was performed using TB Green® Premix Ex Taq™ II (Takara, Japan) on a CFX96 Real-Time PCR Detection System. GAPDH was used as an internal reference gene. The reaction mixture for qRT-PCR was prepared as follows: 8.5 μL of sterile purified water, 12.5 μL of TB Green Premix Ex Taq II (Tli RNaseH Plus) (2X), 1 μL of PCR forward primer (10 μM), 1 μL of qRT-PCR reverse primer (10 μM), and 2 μL cDNA template (< 100 ng) were mixed. The reaction conditions for qRT-PCR were as follows: initial denaturation at 95 °C for 30 s, followed by 40 cycles of 95 °C for 5 s and 60 °C for 30 s for denaturation and annealing/elongation, respectively. The 2−ΔΔCT method was used to measure relative expression.
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3

Quantitative Real-Time PCR Analysis of Gene Expression

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Total RNA was extracted from PBMCs using TRIzol® reagent (Invitrogen; Thermo Fisher Scientific, Inc.). cDNA was synthesized by a reverse-transcription reaction with the PrimeScript RT Reagent kit (Takara Biotechnology). The specific cDNA fragments were amplified using a Real-time PCR Detection System and Power SYBR-Green (Takara Biotechnology) with relevant primers. The results were expressed as a relative expression to the β-actin gene. The relative expression level of each target gene was analyzed using the 2-ΔΔCq method and normalized to β-actin. The PCR primer sequences are presented in Supplement 2.
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4

Gene Expression Analysis of Skin Tissues

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Total RNA was extracted from the skin tissues using TRIzol reagent (Invitrogen, Karlsruhe, Germany) according to the manufacturer’s protocol. The total RNA (1 μg) was reverse transcribed at 37°C using PrimeScript RT Enzyme (Takara, Shiga, Japan). Real-time RT-PCR was performed using a real-time PCR detection system (Takara Bio, Madison, WI, USA), and expression of the following genes was detected in the AA (-), AA (+), and AJ groups: tyrosinase (Tyr), tyrosinase related protein-1 (Tyrp1), dopachrome tautomerase (Dct), Tnf-α, endothelin 1 (Edn1), and cyclin D1 (Ccnd1). The final mixture for RT-PCR consisted of 1× SYBR Premix Ex Taq Mix (Takara), 0.4 μM of primers (forward and reverse), and cDNA. The primer sequences are provided in Table 1. The PCR amplification consisted of 40 cycles (95°C for 5 s and 60°C for 30 s) after an initial denaturation step (95°C for 10 s). The mRNA expression levels were evaluated relative to the level of ribosomal protein, large, P1 (Rplp1), and the mRNA levels of the AA (+) group were designated as 1.0.
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5

Real-Time qPCR for Gene Expression Analysis

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Total RNA was extracted from tissues using Trizol reagent (Takara, Tokyo, Japan) according to the manufacturer’s instruction. One microgram RNA was reverse-, and the cDNA product was used for RT-qPCR performed using the SYBR premix Ex Taq (Takara) on a Real-Time PCR Detection System with the following cycling program: 95°C for 10 min, 95°C for 15 sec for 40 cycles, and 60°C for 1 min. GAPDH was parallelly tested as an internal reference. The primers were as followed:

GAPDH, forward, 5′-ATGGGGAAGGTGAAGGTCG-3′,

reverse, 5′-GGGGTCATTGATGGCAACAATA-3′; LOXL2, forward, 5′-ACATGTACCGCCATGACAT GACT-3′,

reverse, 5′-TGAAGGAACCACCTATGTGGCAGT-3′.

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6

Quantitative PCR Analysis of Gene Expression

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Quantitative reverse transcription (qRT)-polymerase chain reaction (PCR) was performed for samples collected from all animals in both groups (control, n = 8; RA, n = 9). Briefly, purified total RNA (0.5 μg) was reverse transcribed using the PrimeScript RT Reagent kit (TaKaRa, Shiga, Japan) and the synthesized cDNA was amplified on a Rotor-Gene 6000 instrument (Corbett Research, Sydney, Australia) using TB Green Premix EX Taq II (TaKaRa). Primers (Supplementary Table S1) were designed using the PRIMER3 web application. SYBR green EX (TaKaRa) was used on a real-time PCR detection system (TaKaRa). Relative mRNA amounts were normalized to glyceraldehyde-3-phosphate dehydrogenase (Gapdh) mRNA and expressed as fold changes.
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7

Quantitative RT-PCR analysis of CENPK and PTEN

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Total RNA was extracted from cells using TRIzol (Life Technologies, CA, USA). Two micrograms of total RNA from each test was reverse‐transcribed using M‐MLV‐RTase (Promega, Madison, WI, USA), according to the manufacturer's guidelines. qreverse transcriptase‐polymerase chain reaction (qRT‐PCR) was performed in a Bio‐Rad Real‐Time PCR detection system utilizing the SYBR premix ex taq (Takara Bio, Dalian, China). The primers used were as follows: CENPK forward, 5'‐AGTACCTTGGGCGAGTTTCTA‐3’ and reverse, 5'‐AGGCAATTCCATTACGCAGCA‐3’; PTEN forward, 5'‐TTTGAAGACCATAACCCACCAC‐3’ and reverse, 5'‐ATTACACCAGTTCGTCCCTTTC‐3’; and GAPDH forward, 5'‐GGAAGCTTGTCATCAATGGAAATC‐3’ and reverse, 5'‐TGATGACCCTTTTGGCTCCC‐3'. Relative expression levels were calculated using the 2−ΔΔCt method.
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8

SMPD1 Gene Expression in Hippocampus

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The SMPD1 gene expression was determined using the real-time PCR. Six weeks after weight monitoring, animals (10 in each group) were decerebrated and the hippocampus was removed for real-time PCR. The total RNA was extracted from the hippocampus using TRIzol reagent (Invitrogen, Carlsbad, CA). To analyze the expression levels of SMPD1 messenger RNA, RNA from each mice was reversely transcribed into complementary DNA using the reverse transcription system (Takara, Shiga, Japan). The sequences of the primer pairs used for SMPD1 were: forward, 5′-ACCTTAACCCTGGCTACCGA-3′ and reverse, 5′-GTTGGCCTGGGTCAGATTCA-3′. The primer pairs used for β-actin were: forward, 5′-CTGAGAGGGAAATCGTGCGT-3′, and reverse, 5′-CCACAGGATTCCATACCCAAGA-3′. The analysis was performed using a real-time PCR detection system (Takara). The reaction were performed at 95°C for 30 seconds, followed by 45 cycles of denaturation at 95°C for 5 seconds, annealing at 53°C for 30 seconds, and extension at 72°C for 30 seconds.
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9

Real-Time PCR Analysis of FOLR2 Expression

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Real-time PCR was performed using Takara SYBR® Premix Ex Taq II (Tli RNaseH Plus) (2×) on a CFX96 Real-Time PCR Detection System. The reaction volume was 25 μL, containing 12.5 μL of Takara SYBR® Premix Ex Taq II (Tli RNaseH Plus) (2×), 1 μL of each primer and 2 μL of the cDNA template. Amplification conditions were as follows: 95°C for 30 s, followed by 40 cycles of 95°C for 5 s, 64°C (55°C for GAPDH) for 30 s. SYBR® Green PCR mix and primers that were specific to our target gene were used to efficiently amplify the target region. The primers used were as follows: GAPDH sense: 5′-GCACCACCAACTGCTTAGCAC-3′; GAPDH antisense: 5′-TCTTCTGGGTGGCAGTGATG-3′; FOLR2 sense: 5′-ACTTCTGCTGCTTCTGGTCT-3′; FOLR2 antisense: 5′-GTCATGCAGCTTGTCCTCAG-3′.
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10

Quantifying Gene Expression Using qRT-PCR

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Total RNA was extracted from the whole skin samples using TRIzol® reagent (Invitrogen; Thermo Fisher Scientific, Inc.). cDNA was synthesized by a reverse-transcriptase reaction with a PrimeScript RT Reagent kit (Takara Biotechnology). The specific cDNA fragments were amplified using a Real-time PCR Detection System and Power SYBR-Green (Takara Biotechnology) with the relevant primers. The data are expressed as the relative expression to the GAPDH gene. The relative expression level of each target gene was analyzed using the 2−ΔΔCq method and normalized to GAPDH (25 (link)). The PCR primer sequences are presented in Table SI.
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