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Sybr green premix ex taq 2 kit

Manufactured by Takara Bio
Sourced in Japan, China, United States

The SYBR Green Premix Ex Taq II kit is a ready-to-use solution for real-time PCR amplification and detection. It contains SYBR Green I dye, Ex Taq DNA polymerase, and necessary reaction components.

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23 protocols using sybr green premix ex taq 2 kit

1

Quantification of Lipogenic and Lipolytic Genes

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Total RNA of hepatic cell lines was extracted with TRIzol reagent (15596-026, Invitrogen) and reverse transcribed to cDNA using Prime RT reagent kit (RR047A, Takara). qPCR analysis was performed with SYBR Green Premix Ex Taq II kit (Takara, RR820A) and ABI ViiATM 7 Real-Time PCR System. The sequences of primers used were as followings: ACLY 5′-GAC​TTC​GGC​AGA​GAC​AGG​TAG-3′ (sense) and 5′-TCA​GGA​GTG​ACC​CGA​GCA​TA-3′ (antisense), FASN 5′-GGA​TCA​CAG​GGA​CAA​CCT​GG-3′ (sense) and 5′-GCT​GTG​GTC​CCA​CTT​GAT​GA-3′ (antisense), ACC 5′-GCC​TCT​CAG​CTG​GTC​AGA​TTC-3′ (sense), and 5′-CTG​GTT​CAG​CTC​CAG​AGG​TT-3′ (antisense), SCD1 5′-AGC​AGG​TAA​ATT​GTC​GGG​GG-3′ (sense), and 5′-ACT​TTT​TAC​CCC​GAG​CCA​GG-3′ (antisense), ATGL 5′-TGA​GAG​GGG​AGG​TTT​CCA​CA-3′ (sense), and 5′-CAG​CAG​GCC​ATG​AAA​AAC​GG-3′ (antisense), HSL 5′-AAC​CCA​AGA​GGA​AGT​GCC​AT-3′ (sense), and 5′-GCT​CTA​GCG​GGG​TTA​TAG​GC-3′ (antisense).
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2

Quantification of miR-629 and mRNA

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Total RNA from cells was extracted by using the TRIzol reagent (Invitrogen) according to the manufacturer's protocol. For the quantification of miR‐629, cDNA was synthesized by the One Step Prime script miRNA cDNA synthesis kit (Qiagen, Valencia), and real‐time PCR was performed using the miRNA‐specific TaqMan MiRNA Assay Kit (Applied Biosystems, Foster City, USA) on an ABI7900 system (Applied Biosystems). For the mRNA detection, mRNA was reversely transcribed into cDNA using PrimeScript RT reagent kit (Takara, Dalian, China), and real‐time PCR was performed using SYBR Green Premix Ex Taq II kit (Takara) on an ABI7900 system (Applied Biosystems). U6 and GAPDH were used as internal controls for miRNA and mRNA expression, respectively, and the relative expression of respective genes was calculated by 2−ΔΔCt method.
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3

Quantitative Analysis of Inflammation Markers

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Total RNA was extracted using the RNA-Quick Purification Kit (Shanghai Yishan Biotechnology Co., Ltd, Shanghai, China) and converted into cDNA using PrimeScript RT Master Mix (TaKaRa, Dalian, Liaoning, China). Quantitative RT–PCR was carried out using the SYBR Green Premix Ex Taq II kit (TaKaRa). The primers used were as follows:
human IL-6 forward: 5′-ACTCACCTCTTCAGAACGAATTG-3′;
human IL-6 reverse: 5′-CCATCTTTGGAAGGTTCAGGTTG-3′;
human CCL2 forward: 5′-CCATGGACCACCTGGACAAGCA-3′;
human CCL2 reverse: 5′-GGTGTCTGGGGAAAGCTAGGGG-3′;
human CXCL1 forward: 5′-AGGGAATTCACCCCAAGAAC-3′;
human CXCL1 reverse: 5′-TAACTATGGGGGATGCAGGA-3′;
human CXCL10 forward: 5′-GTGGCATTCAAGGAGTACCTC-3′;
human CXCL10 reverse: 5′-TGATGGCCTTCGATTCTGGATT-3′;
human GAPDH forward: 5′-GCACCGTCAAGGCTGAGAAC-3′;
human GAPDH reverse: 5′-TGGTGAAGACGCCAGTGGA-3′;
mouse IFNγ forward: 5′-GCCACGGCACAGTCATTGA-3′;
mouse IFNγ reverse: 5′-TGCTGATGGCCTGATTGTCTT-3′;
mouse TNFα forward: 5′-CAGGCGGTGCCTATGTCTC-3′;
mouse TNFα reverse: 5′-CGATCACCCCGAAGTTCAGTAG-3′;
mouse GAPDH forward: 5′-TGACCTCAACTACATGGTCTACA-3′;
mouse GAPDH reverse: 5′-CTTCCCATTCTCGGCCTTG-3′;
All values were normalized by GAPDH expression. The 2−ΔΔCT method was used to analyse the mRNA expression of target genes.
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4

Curcumin Modulates miR-30a-5p and PCLAF in PC-3 and DU145 Cells

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PC-3 and DU145 cells treated with 30 µmol/l curcumin for 24 h were collected. Total cellular RNA was extracted using TRIzol® reagent (Invitrogen; Thermo Fisher Scientific, Inc.). RNA concentration and purity were measured on the NanoDrop 2000 (NanoDrop Technologies; Thermo Fisher Scientific, Inc.) using 1 µl of RNA. After the concentration and purity of RNA were determined, total RNA was reverse transcribed into cDNA using a RevertAid First Strand cDNA Synthesis Kit (1 h at 37˚C; Thermo Fisher Scientific, Inc.). RT-qPCR was conducted using a CFX96 quantitative PCR system (Bio-Rad Laboratories, Inc.) with an SYBR® Green Premix Ex Taq II kit (Takara Biotechnology Co., Ltd.) in accordance with the manufacturer's instructions. The following temperature protocol was used for reverse transcription: 37˚C For 2 min, 23˚C for 10 min, 55˚C for 10 min and 85˚C for 10 min. U6 was identified as the internal reference for miR-30a-5p, and β-actin was used as the internal reference for PCLAF. The levels of miR-30a-5p and PCLAF mRNA expression were calculated using the 2-ΔΔCq method (16 (link)). The primer sequences were shown in Table I.
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5

Quantitative Transcriptome Analysis of TRIM Genes

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Total RNA was extracted using TRIzol reagent (Invitrogen, 15596–026). The cDNA synthesis was performed using PrimeScript RT reagent kit with gDNA Eraser (Takara, RR047A). Q-PCR experiments were conducted using SYBR Green Premix Ex Taq II kit (Takara, RR820A) and RT-PCR System-Applied Bio-system. The relative amount of mRNA expression of target genes was calculated by the comparative Ct method using GAPDH as a control. All Q-PCR reactions were performed in triplicate. Data was acquired using ABI ViiATM 7 Real-Time PCR System instrument. All primers for the 72 TRIM genes were validated using universal cDNA standards (BD Clontech). Quantification was performed by ΔCt method, with 18S or actin used for normalization. mRNA with cycle times ≥ 34 were determined to be undetected. Normalized mRNA levels are expressed as arbitrary units by transformed the cycle times using 2ΔCt. The data were opposed to log2 and organized in a heat map using MEV software (Dana-Farber Cancer Institute, http://www.tm4.org/mev.html).
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6

Quantitative Real-Time PCR Analysis of PsPIPs

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Total RNA extraction, concentration and integrity were determined as described above. First strand cDNA was synthesized using primeScript RT regent Kit (TakaRa, TAKARA Biotechnology Co. Ltd, Dalian, China) following manufacturer’s instructions, including a special step for genomic DNA elimination. Quantitative PCR analysis was conducted on an ABI 7500 Real-Time system using a SYBR Green Premix Ex-Taq™II Kit (TakaRa, TAKARA Biotechnology Co. Ltd, Dalian, China) with PsPIP gene specific primers (Additional file 3: Table S2). The reaction mixture had a final volume of 20 µL, containing 10 µL 2× SYBR Premix Ex Taq™II, 0.4 µM of each primer, 0.4 µL 50× ROX Reference Dye II and 2 µL of tenfold dilution cDNA. The PCR conditions were: 30 s at 95 °C for pre-denaturation; 40 cycles of 5 s at 95 °C, 34 s at 60 °C. The melt-curve analysis was conducted using the method recommended by the manufacturer. The results were normalized by the geometric mean of the expression of three reference genes, i.e., elongation factor 1-alpha (EF1α, X96555), 18 s ribosomal RNA (18 s, X52575) and beta-tubulin 3 (TUB, X54846). The relative expression of PsPIPs was calculated using the 2−ΔΔCt method (Pfaffl 2001 (link); Schmittgen and Livak 2008 (link)).
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7

Quantitative Analysis of Gene Expression

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Total RNA was extracted by TRIzol reagent (Invitrogen, 15,596–026). The cDNA was synthesized using PrimeScript RT reagent kit (Takara, RR047A). Q-PCR experiments were performed with a SYBR Green Premix Ex Taq II kit (Takara, RR820A), then we used the RT-PCR System-Applied Bio-system to detect mRNA expression of target genes using GAPDH as a control. The comparative Ct method was used to calculate the relative amount of mRNA expression of target genes. All Q-PCR data were obtained using an ABI ViiATM 7 Real-Time PCR System.
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8

Retinal Gene Expression Analysis

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Takara RNAiso Plus reagent (D9109, Takara, Japan) was used to extract total RNA from retinal tissue. By spectrophotometry (Nanodrop 2000; Thermo Scientific, Waltham, MA, USA), total RNA concentration was determined. Using a PrimeScript RT Master Mix Kit (RR037A; Takara, Shiga, Japan), cDNA was synthesized from total RNA. Real-time PCR was performed on an Applied Biosystems 7500 Real-Time PCR System (Applied Biosystems, Foster City, CA, USA) using a SYBR Green premix EX Taq II kit (RR820A; Takara). Genes were normalized to the β-actin value. The expression level of pde6b gene was calculated by the 2−ΔΔCt method. The primer sequences were: β-actin (F) GCT GTG CTA TGT TGC TCT AG and (R) CCA AGA AGG AAG GCT GGA; pde6b (F) CAG CAT GAA CAT GTG ATC CA and (R) TCG TGT GGT CTC TAA GGA TAA G.
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9

Quantifying Virulence Factors in Staphylococcus

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RT-qPCR of icaA, cidA, agrA, sarA hla, and sea genes were performed with minor modifications as described previously [17 (link),21 (link)]. All the primers used in the study are listed in Table 1. Briefly, the bacterial suspension was treated with the non-inhibitory concentration of shikonin and 0.1% DMSO (negative control). RT-qPCR was performed using a 20 µL reaction mixture according to the SYBR Green Premix Ex Taq II kit (Takara, Kusatsu City, Japan) instructions. RT-qPCR reaction conditions: pre-denaturation at 95 °C for 30 s, 40 cycles of denaturation at 95 °C for 5 s, and extension at 56 °C for 40 s. The transcription level of the 16S rRNA gene was used as an internal reference, and the transcription levels of different genes in different samples were calculated according to the 2−ΔΔCt method.
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10

Quantifying Pancreatic Gene Expression

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Total RNA was extracted from pancreas tissue using the Takara RNAiso Plus reagent (D9109, Takara, Japan). The concentration of total RNA was determined by spectrophotometry (Nanodrop 2000; Thermo Scientific, Waltham, MA, USA). Reverse transcription for cDNA was synthesized from total RNA using a PrimeScript RT Master Mix Kit (RR037A; Takara, Shiga, Japan). The real-time PCR was carried out on an Applied Biosystems 7500 Real-Time PCR System (Applied Biosystems, Foster City, CA, USA) with an SYBR Green premix EX Taq II kit (RR820A; Takara). The results for each specific gene were normalized to the ribosome 18s RNA gene. The expression level of each gene was calculated by the 2−ΔΔCt method (Livak & Schmittgen, 2001 (link)). The primer sequences used in this study were:18sRNA (F) GAC TCA ACA CGG GAA ACC TCA CC and (R) ACC AGA CAA ATC GCT CCA CCA AC; Ins1 (F) GGA CCC GCA AGT GCC ACA AC and (R) TGA TCC ACA ATG CCA CGC TTC TG; Gcg(F) ACC GTT TAC ATC GTG GCT GGA TTG and (R) TCT GGC GTT CTC CTC CGT GTC.
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