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Power sybr green chemistry

Manufactured by Takara Bio
Sourced in Japan

Power SYBR green chemistry is a reagent used for real-time PCR (Polymerase Chain Reaction) analysis. It provides a fluorescent signal that enables the quantification of DNA amplification during the PCR process.

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5 protocols using power sybr green chemistry

1

Quantifying Cytokinin-Induced Gene Expression

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Arabidopsis seedlings were immediately frozen in liquid nitrogen, and stored at-80 °C. RNA was isolated using Trizol (Sangon) and reverse-transcribed using a reverse transcription kit (DRR047A) (Takara, http://www.takara-bio.com/). Quantitative RT-PCR was performed in a Bio-Rad CFX96 Real-time System (Bio-Rad, http://www.bio-rad.com) using Power SYBR green chemistry (DRR081A) (Takara). Primer sequences used are listed in S2 Appendix.
For CK-induced type-A ARR expression, seeds were germinated on MS plates and grown for 7 days. Treatments were carried out by incubating seedlings in liquid 1/2 MS culture medium containing 1% sucrose and supplemented with 10 μM tZ for 30 min [45 (link)].
For CK-induced GFC1 expression, we treated seedlings with 1 μM tZ for 30 min.
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2

Mutant and Wild-type Total RNA Isolation and qRT-PCR Analysis

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Total RNA of mutant or wild type was isolated using RNA kit (Tiangen, Beijing,
China) following manufacturer’s instructions. The concentration and quality of
RNA were verified by absorption 260/280 nm ratio between 1.8 and 2.0 using
Nanodrop2000 spectrophotometer (Thermo Scientific, USA). RNA quality was checked
on a Bioanalyzer 2100 (Agilent, Santa Clara, CA, USA) and RNA integrity number
(PRIN) values were greater than 8.6 for mutant and wild type.
Total RNA from 23-19 wild type and eibi1 mutant were treated
with DNase and reverse-transcribed using a reverse transcription kit (RR047A)
(Takara Biomedical Technology, Beijing, China). Quantitative RT-PCR was
performed in an Agilent Stratagene MX3000P (Agilent) using Power SYBR green
chemistry (RR820A) (Takara). All qRT-PCR reactions were performed in triplicate
following the reaction conditions: 95 °C for 10 min followed by 40 cycles of 95
°C for 10 s and 60 °C for 31 s, and the results were analyzed with the relative
quantification system based on the 2-ΔΔCt method. Actin primers were
5’-AAGTACAGTGTCTGGATTGGAGGG-3’ (sense) and 5’-TCGCAACTTAGAAGCACTTCCG-3’
(antisense).
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3

Quantifying Cytokinin and Auxin Response

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Arabidopsis seedlings were immediately frozen in liquid nitrogen, and stored at −80 °C. RNA was isolated using Trizol (Sangon) and reverse-transcribed using a reverse transcription kit (DRR047A) (Takara, http://www.takara-bio.com/). Quantitative RT-PCR was performed using a Bio-Rad CFX96TM Real-time System (Bio-Rad, http://www.bio-rad.com) and Power SYBR green chemistry (DRR081A) (Takara), with primers listed in Supplementary Appendix S1.
CK- and auxin-inducible gene expression was analyzed in 7-day-old seedlings grown on MS medium, as previously described20 (link), using treatments consisting of exposure to 10 μM tZ for 30 min51 (link) or 20 μM IAA for 1.5 h52 (link) in liquid MS medium. There were four independent biological replicates per treatment.
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4

Validation of Transcriptomic Data by RT-PCR

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To validate the transcriptomic data, seven DEGs were chosen for RT-PCR analysis according to the method of Zhang et al.35 (link) with slight modifications. Total RNA was extracted with Trizol reagent (Invitrogen) from control and YFY plant tissues. RNA samples were treated with RNase-free DNase I (TaKaRa, Tokyo, Japan) to remove genomic DNA. RNA (10 µg) was used for reverse transcription with a PrimeScript RT reagent kit (Perfect Real Time, TaKaRa) according to the manufacturer’s instructions, and cDNA was used for RT-PCR analysis with specific primers. Quantitative RT-PCR was performed using an Applied Biosystems 7500 real-time PCR system with Power SYBR green chemistry (TaKaRa). Actin was quantified as an internal control and the 2−ΔΔCt method was used to analyze the differential expression36 (link). The mean of three biological replicates, for which three technical replicates were averaged, was presented. Genes were considered to be differentially expressed if (1) fold change ≥ 1.5 or ≤ 0.6 and (2) P value from post hoc ANOVA test ≤ 0.05.
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5

Validating Protein Expression via RT-PCR

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To validate the protein data, nine genes were chosen for RT-PCR analysis. The total RNA was isolated with TRIzol reagent (Invitrogen) according to the manufacturer’s instructions and then treated with recombinant DNase I (RNase-free, TaKaRa, Tokyo, Japan). Ten micrograms of RNA was used to synthesize the cDNA with the PrimeScript RT Reagent Kit (TaKaRa, Tokyo, Japan), and the cDNAs were used for RT-PCR analysis with specific primers (Supplementary Table 1). Quantitative RT-PCR was performed using the Applied Biosystems 7500 Real-Time PCR System using Power SYBR Green chemistry (TaKaRa, Tokyo, Japan). 18S was quantified as an internal control, and the 2–ΔΔCt method was used to analyze differential expression (Livak and Schmittgen, 2001 (link)). The mean of three biological replicates, for which three technical replicates were averaged, was presented. Genes were considered to be differentially expressed if the fold change was ≥1.5 or ≤0.67, and the p-value was tested by ANOVA with the post hoc Tukey test (p < 0.05).
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