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7 protocols using sybr green premix pro taq hs qpcr kit

1

RNA Extraction and qPCR Analysis

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Total RNA was isolated using Trizol reagent (Invitrogen, USA), following the manufacturer’ s instructions. The quantity and purity of the total RNA was measured using with the Nanodrop® ND1000 (Thermo Fisher) and the Agilent Bioanalyzer. The total RNA was reverse transcribed into cDNA using the Script cDNA synthesis kit (AG11728) according to the manufacturer’ s protocol. Quantitative PCR reaction was run on a CFX96 Touch Real-Time PCR Detection Instrument (BioRad, USA), using SYBR® Green Premix Pro Taq HS qPCR Kit(ROX Plus)(AG11718). Primer pairs are shown in Supplementary Table 3. Values were normalized to GAPDH via the 2-ΔΔCt method.
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2

Evaluating RNA Quality for RT-PCR and qPCR

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To evaluate the quality and purity of total RNA, the NanoDrop 2000 (Thermo Fisher) was utilized, and the ratio of A260/A280 was 1.8–2.0, which qualified for RT-PCR and qPCR. RT was conducted using the One-Step cDNA Synthesis SuperMix (TransGen Biotech, China) and the MiniAmp Thermal Cycler (Thermo Fisher) to convert the total RNA into cDNA. The PCR reaction was performed as follows: 95°C for 5 min; denaturation at 95°C for 30 s, annealing at 52°C–60°C for 30 s, and elongation at 72°C for 45. The PCR products were incubated at 72°C for 7 min. The primers of genes, including ACTB, GPR125, GFRA1, UCHL1, MAGEA4, CD90, SV40, VASA, RET, PLZF, and GPx3, were designed and were listed in Supplementary Table S3. The 2% agarose gels were used to separate the PCR products through electrophoresis, and PCR products with ethidium bromide could be visualized by Image Analysis System ChampGel 5,000 (Sage Creation, China).
The qPCR was conducted with cDNA as previously described using the SYBR Green Premix Pro Taq HS qPCR Kit on a CFX Connect Real-Time System (Bio-Rad, United States). The data were analyzed through the ΔΔCt method, and the reference gene was ACTB. The primers of the real-time PCR were listed in Supplementary Table S4.
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3

Gene Expression Analysis of IPEC-J2 Cells

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IPEC-J2 cells were grouped and treated as described above. After the above treatments, total RNA was extracted from cells using the RNAex pro reagent. The quality and concentration of the total RNA were measured with an Implen nanophotometer (Munich, Germany). Then, cDNA was synthesized using an Evo M-MLV mix kit with gDNA clean. Subsequently, real-time PCR was performed on a CFX96 Touch™ Real-Time PCR Detection System (Bio-Rad, USA) according to the SYBR® green premix pro Taq HS qPCR kit. The primers for target genes and a housekeeping gene (β-actin) are listed in Table 1. The relative mRNA abundance of the selected genes was normalized to β-actin expression and was then calculated using the 2ΔΔCt method.
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4

Quantitative Gene Expression Analysis

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RSC96 was washed with cold PBS after treatment. RNAiso Plus was applied to extract total RNA and the detective values of OD260/280 were used to quantify total RNA. Evo M-MLV RT Kit with gDNA Clean for qPCR was used to reverse transcription according to the manufacturer’s protocol. Amplification was performed in the CFX Connect Real-Time PCR Detection System (BIO-RAD, Hercules, CA, United States) following the protocol of SYBR® Green Premix Pro Taq HS qPCR Kit. The reaction procedure was as follows: one cycle at 95°C for 30 s for predenaturation and 40 cycles at 95°C for 5 s and at 60°C for 30 s for reaction. The primer GAPDH (B661204) was purchased from Sangon Biotech. Co., Ltd. (Shanghai, China) and the primers of TNF-α IL-6 and IL-1β were also designed by them which were listed in Table 1. The 2−ΔΔCT method was used to analyze expression levels of TNF-α IL-6 and IL-1β. Each sample was measured three times and averaged.
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5

ALA Treatment Impacts Gene Expression

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PCRRAW264.7 cells were inoculated at a concentration of 4 ×105 per well and cultured in DMEM at 37 °C and 5% CO2 for 24 h, followed by treatment of the different concentrations of ALA (50 μM, 100 μM, 200 μM) in OCM for 24 h in the same culture conditions. After centrifugation, the cells were collected. RNA-easy Isolation Reagen was used to extract total RNA from each group of cells, and Trizol reagent was used to extract total RNA from each group of tibiae. Then, 2 μg of RNA was extracted for cDNA synthesis using the iScript cDNA synthesis kit.RT-qPCR was performed using the SYBR® Green Premix Pro Taq HS qPCR kit and detected using the CFX96 Touch Real-Time PCR Detection System (BIO-RAD, Hercules, CA, USA) (95 °C for 30 s, 95 °C for 5 s, 60 °C for 5 s, for 40 cycles). β-actin were used as the internal standard to determine the relative values of RAW264.7 cells mRNA expression (the primer sequences are presented in detail in Table 1), while housekeeping gene Gapdh of rat cells were used as the internal standard (the primer sequences are presented in detail in Table 2). The results were obtained by the 2−ΔΔCt method.
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6

PtSMXL Gene Expression Analysis in Poplar

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PtSMXL gene expression profiles were analyzed in roots, young leaves, mature leaves, young stems, mature stems, and dormant axillary buds of 84 K poplar. In addition, the response of PtSMXL genes to GR24 was studied in seedlings treated with six concentrations (0, 2, 5, 10, 15, or 20 μM) of GR24, and PtSMXL expression profiles during axillary bud growth were examined in axillary buds at six different stages after the begins of axillary bud growth (0, 1, 3, 5, 7, and 10 days). The more detailed description of materials is presented in the Plant materials section. Total RNA was isolated from each sample using a SteadyPure Plant RNA Extraction Kit AG21019 (Accurate Biotechnology [Hunan] Co., Ltd) and then quality-checked on a NanoDrop One UV spectrophotometer (Thermo Scientific, USA). First-strand cDNA synthesis was carried out with DNA-free RNA using Evo M-MLV Plus 1st Strand cDNA Synthesis Kit AG11615 (AG). Real-time quantitative PCR (qRT-PCR) was performed using a SYBR Green Premix Pro Taq HS qPCR Kit AG11701 (AG) on a CFX-96 real-time PCR detection system (Bio-Rad, USA). Each experiment consisted of three independent biological replicates, with three technical replicates per sample. The β-actin gene was used as an internal control. Relative expression levels of each target gene were analyzed the 2-∆∆CT method [41 (link)]. Sequences of all primers used are listed in Table S6.
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7

Quantitative Analysis of LKB1 Expression in Zebrafish Embryos

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Total RNAs of approximately 40 zebrafish embryos at 48 h post fertilization (hpf) were extracted as previously described76 (link),77 (link), and were then reverse transcribed (TaKaRa, PrimeScriptTM RT-PCR kit DRR014A) to obtain cDNAs for use as Quantitative Real-time PCR (qPCR) templates. The qPCR assays were performed (Accurate Biology, SYBR Green Premix Pro Taq HS qPCR Kit) using a CFX96 real-time system (Bio-Rad), and the expression level of β-actin in zebrafish embryos was used as an internal control. The primer sequences used were as follows:
LKB1 Forward: GTGAAGGAGATGCTGGACTCGG
LKB1 Reverse: CAGCACGTCCACCAGCTGAATG
ACTIN Forward: GTACCCTGGCATTGCTGAC
ACTIN Reverse: CTGCTTGCTGATCCACATCTG
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