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Sybr master mix

Manufactured by Vazyme
Sourced in China, United States

SYBR Master Mix is a ready-to-use solution for quantitative real-time PCR (qPCR) analysis. It contains SYBR Green I dye, DNA polymerase, and necessary reagents for efficient amplification and detection of target sequences.

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26 protocols using sybr master mix

1

HSC Isolation and Gene Expression

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BM cells were incubated with lineage beads, and then cells binding the paramagnetic beads were removed with a magnetic field. Lin− cells were stained with LSK as described above, and LSK+ cells (Lin−Sca1+c-kit+ cells) were sorted using a FACStarPlus cell sorter (Becton Dickinson, Franklin Lake, NJ, USA). Then, total RNA and cDNA were obtained from 10,000 sorted HSCs using a Single Cell Sequence Specific Amplification Kit (Vazyme Biotech, Nanjing, China) following the manufacturer’s protocol. The PCR primers for p16, p53, p21, p38, and GAPDH were obtained from Sangon Biotech (Shanghai, China). The cDNA samples were mixed with primers and SYBR Master Mix (Vazyme Biotech, China) in a total volume of 20 mL. All samples were analyzed in triplicate using a CFX96TM Real-Time System (Bio-Rad, Hercules, CA, USA). The threshold cycle (CT) values for each reaction were determined and averaged using TaqMan SDS analysis software (Applied Biosystems 2.1). Changes in gene expression were calculated by the comparative CT method (fold changes = 2−ΔΔCT).
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2

Quantification of circRNA and miRNA Expression

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Total RNA was collected by utilizing TRIzol reagent (Invitrogen). For RNase R treatment, a part of RNA was treated by RNase R (Epicentre Technologies, Madison, WI, USA) to manifest the stability of circRNA. Subsequently, the complementary DNA was obtained by reverse transcription kit (Vazyme, Nanjing, China). The RNA expression was evaluated through utilizing SYBR Master Mix (Vazyme) and analyzed by applying 2−ΔΔCt method, and the GAPDH, β-actin and U6 were utilized for normalization. The primers are displayed in Table 1.

The sequences of primers used in qRT-PCR

NamePrimers for PCR (5′–3′)
hsa_circ_0005615
 ForwardCACCCTTTACCTGGAGCAAA
 ReverseTGGTAAGCAAAGTGGTGTGG
IGF1R
 ForwardATGTCCAGGCCAAAACAGGAT
 ReverseCATTCCCCAGCCTGCTGTTA
miR-331-3p
 ForwardGTATGAGGCCCCTGGGCCTATC
 ReverseCTCAACTGGTGTCGTGGAG
GAPDH
 ForwardGGAGCGAGATCCCTCCAAAAT
 ReverseGGCTGTTGTCATACTTCTCATGG
U6
 ForwardCGCTTCACGAATTTGCGTGTCAT
 ReverseGCTTCGGCAGCACATATACTAAAAT
β-actin
 ForwardTGGATCAGCAAGCAGGAGTA
 ReverseTCGGCCACATTGTGAACTTT
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3

Comprehensive RNA Extraction and qRT-PCR Analysis

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Total RNA was isolated from ES-2, Hey, OVCAR-3, SK-OV-3, IOSE80, and A2780 cell lines and tissues using TRI reagent (Invitrogen, CA, USA). We used a DNA reverse transcription kit and followed the manufacturer's instructions to perform reverse transcription (Vazyme, Nanjing, China). qRT–PCR was carried out utilizing SYBR Master Mix (Vazyme). The primers were manufactured by Sangon Biotech (Shanghai, China). The sequences of the qRT–PCR primers utilized in this work are included in Additional file 1: Table S1.
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4

Transcriptome Analysis of Arabidopsis and Eucalyptus

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Total RNA of Arabidopsis and Eucalyptus was extracted using the Plant Total RNA Extraction Kit (Omega, Shanghai, China). The quantity and quality of RNA was verified by using gel electrophoresis and a Nanodrop 2000c ultraviolet spectrophotometer (Eppendorf, Framingham, MA, USA). The purified RNA was reverse transcribed into cDNA using the HiScript III 1st Strand cDNA Synthesis Kit (+gDNA wiper) (Vazyme, Nanjing, China). The quality of the cDNA was verified by amplification of the reference genes ACT2 and PP2A from Arabidopsis and Eucalyptus using PCR. The relative gene expression level was quantified by qPCR using SYBR Master Mix (Vazyme, Nanjing, China) according to the manufacturer’s protocol on a LightCycler 96 system (Roche, Basel, Switzerland). PCR conditions were set as follows: 95 °C for 5 min, followed by 40 cycles of 95 °C for 15 s and 60 °C for 1 min. After amplification, a melting curve was obtained to confirm the presence of a simple amplicon. The relative gene expression level to the reference genes Arabidopsis ACT2 or Eucalyptus PP2A-1 and PP2A-3 [75 (link)] was calculated based on the 2−ΔΔCt method. The qPCR experiments were conducted in triplicate. Information on the primers is listed in Table S1.
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5

Bacterial Total RNA Extraction and RT-qPCR Analysis

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The total RNA of treated bacterial cells was extracted using the OMEGA Total RNA Kit I (Omega, China). Reverse transcription was conducted with 1 μg of total RNA using the GoldenstarRT cDNA Synthesis Mix (TsingKe Biotech, China). The reverse transcription quantitative polymerase chain reaction (RT-qPCR) was performed using the SYBR Master Mix (Vazyme, China). The primers used for RT-qPCR were provided in table S4. The gene expressions were presented as relative expression using the 2–ΔΔCt method (Livak method) as elucidated previously (71 (link)).
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6

Lentiviral Gene Expression Analysis

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To compare gene expression of cells which were transfected by lentiviruses, total RNA was extracted from the cells by FastPure® Cell/Tissue Total RNA Isolation Kit V2 (Vazyme, Nanjing, China) and reverse-transcribed to cDNA (RR036A, Takara Bio, Shiga, Japan). The mRNA expression was evaluated using SYBR Mastermix (Q712-02, Vazyme, Nanjing, China) on QuantStudio7 qRT-PCR System (Applied Biosystems) and normalized against the endogenous GAPDH RNA control. The primers were listed as follows: FGFR1 (forward: 5’-ACGCAGGATGGTCCCTT-3’, reverse: 5’-GTTGTGGCTGGGGTTGTAG-3’) and GAPDH (forward: 5’GGACCTGACCTGCCGTCTAG-3’, reverse: 5’-GTAGCCCAGGATGCCCTTGA-3’).
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7

Quantifying Arabidopsis Guvermectin Response

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Two-week-old Arabidopsis thaliana leaves were sprayed with 50 mg L−1 guvermectin (GV) once, and the whole plant was ground with liquid nitrogen at 0, 1, 3, 5, and 7 d after GV treatment, then total RNA was extracted using TRIzol reagent [74 (link)]. Meanwhile, the plants sprayed with 0 mg L−1 GV were used as a control at each point. For qRT-PCR, 1 μg total RNA per sample was treated with the PrimeScript™ RT reagent Kit with gDNA Eraser (RR047A, Takara, San Jose, CA, USA). qRT-PCR was performed with SYBR Master Mix (Q711-03, Vazyme, Nanjing, China) on the Bio-Rad iQ5 optical system software (Bio-Rad, Hercules, CA, USA). UBQ5 was used as the internal control gene for expression level normalization. The transcript level of each gene was calculated using the double ΔCt method [34 (link)]. Data analysis was conducted in GraphPad Prism 8. The primers were summarized in Table S3.
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8

Real-Time PCR Detection of P. aeruginosa

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Real-time PCR detection (Thermo Fischer, United States) system was used to detect P. aeruginosa in water or LB swab sample. The qPCR reaction mixtures contained 10 µL of SYBR Master Mix (Vazyme, China), 0.8 µL of each primer (5 µM), 2 µL of DNA template, and 6.4 µL of nuclease-free water. Program settings: 95 °C for 60 s, 40 cycles of 95 °C for 10 s and 60 °C for 30 s.
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9

Extraction and Quantification of RNA

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The total RNAs were extracted using OMEGA Total RNA Kit I (Omega, China). Reverse transcription was performed on 1 µg total RNA using GoldenstarRT6cDNA Synthesis Mix (TsingKe Biotech. China). The qRT‐PCR was performed with SYBR Master Mix (Vazyme, China). The primers used for RT‐qPCR were listed in Table S3 (Supporting Information). Relative expression values were obtained by the 2–ΔΔCt method as elucidated previously.[61]
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10

Quantitative RT-PCR analysis of sANK1 in prostate cancer

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qRT‐PCR was performed as described previously [18 (link)]. Briefly, the total RNA was extracted from adjacent normal tissue and prostate cancer by TRIzol reagent and reverse transcribed to cDNA using PrimeScript RT Master Mix (TaKaRa Biotech, Nojihigashi,Japan). Meanwhile, SYBR Master Mix (Vazyme, Nanjing, China) was used for qRT–PCR on the QuantStudio™ 6 Flex System (PE Applied Biosystems, Foster City, CA). The relative expression of mRNA was normalized to ACTB by the 2ΔCtΔCt method. The forward primer sequence of sANK1 was F 5′GGAGACCATCTCCACCAGG 3′, and the reverse primer sequence was R 5′ CCACCTTGCGAATGATCTTCT 3′. The forward primer sequence of ACTB was F 5′ CATGTACGTTGCTATCCAGGC3′, and the reverse primer sequence was R 5′ CTCCTTAATGTCACGCACGAT 3′.
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