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5 protocols using sepasol r rna 1 super g

1

Quantitative Gene Expression Analysis

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RNA was extracted from EAT and 3T3-L1 adipocytes using Sepasol (R)-RNA I Super G (Nacalai Tesque Inc., Kyoto, Japan). Absorbance of the extracted samples was measured at 260 and 280 nm using a branch photometer (Hitachi Ltd., Tokyo, Japan) to determine the RNA concentration. We performed reverse transcription to synthesize cDNA using Rever Tra Ace qPCR RT Master Mix and gDNA Remover (TOYOBO CO., LTD., Osaka, Japan). Then, real-time PCR was performed using THUNDERBIRD Next SYBR qPCR Mix (TOYOBO LTD., Osaka, Japan) and was used to determine the relative expression levels of each gene. For real-time PCR, we used specific primers synthesized by Thermo Fisher Scientific (Massachusetts, USA) (Table S2). RNA amplification was performed using a Thermal Cycler Dice (Takara Bio Co. Ltd., Shiga, Japan) based on the following protocol: 95°C for 30 s, 95°C for 5 s, and 60°C for 30 s. The relative expression levels of mRNA were determined using GAPDH as a reference housekeeping gene. The ratio of each transcript was calculated using the 2−ΔΔCt method (63 (link), 64 (link)).
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2

Quantitative Analysis of Embryonic Transcripts

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Total RNAs were extracted from 30 early embryos at two cells, four to eight cells, and late-blastocyst stages respectively after in vitro fertilization using the RNeasy micro RNA isolation kit (Qiagen) and from whole or parts of embryo with TRIzol (Thermo Fisher Scientific) or Sepasol(R)-RNA I Super G (Nacalai Tesque, Japan). RNA was reverse transcribed using ReverTra Ace (TOYOBO, Japan). Quantitative real-time PCR was performed using KOD SYBR qPCR Mix (TOYOBO). Primers for the analysis are the following sequences (for qRT-PCR of Sf3b4: 5 0 -CCAATCCCGTGGTTTCATC-3 0 and 5 0 -GAGGTGGAAA AGAGCCAGGA-3 0 , for RT-PCR of Sf3b4: 5 0 -TGGTCAAC ACCCACATGCCC-3 0 and 5 0 -TTGCCTGTGTCAGGGTC CCG-3 0 , for RT-PCR of Sf3b4_ps: 5 0 -TGGTCAACACCC ACATGCCA-3 0 and 5 0 -TTGCCTGTGTCAGGGTCCCA-3 0 . As for primers for RT-PCR analysis, a Sf3b4_ps-specific nucleotide was designed as the 3 0 -end of each primer, which was capable of distinguishing the Sf3b4 from Sf3b4_ps. Gapdh was used as a reference gene for normalization. Gene expression was quantified with the ΔCT method.
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3

Quantitative PCR Analysis of B16 and Clone M3 Cells

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Total RNA was extracted from B16 and Clone M3 cells. The extraction was performed using Sepasol (R)-RNA I Super G (Nacalai Tesque, Inc.) and reverse-transcribed to cDNA with ReverTra Ace qPCR-RT Master Mix (Toyobo Life Science) according to the manufacturer's protocol. Quantitative PCR analysis was performed using SYBR Green (Roche Applied Science) on a Step One Plus Real-Time PCR System (Applied Biosystems, Thermo Fisher Scientific, Inc.) under the following cycling conditions: 95°C, 10 min, followed by 40 cycles at 95°C for 15 sec and 60°C for 30 sec with a final incubation at 95°C for 5 sec. The relative standard curve method was used to determine the relative expression of target genes (34 ). All expression data were normalized to the expression of β-actin. The genes and corresponding primer sequences are listed in Table SI.
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4

Gene Expression Analysis of Adipose Tissues

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The RNA of mesenteric fat, epididymal fat, and brown fat was extracted by Sepasol(R)-RNA I Super G (Nacalai Tesque, JAPAN) kit, measured at different absorbance values of 260, 280, and 320 nm, and then the concentration was calculated according to the absorbance value. Next, the RNA was transcribed into cDNA when configuring to 0.6 ug/ul. Specific primers were designed based on the sequence obtained from the literature and screened them through primer-BLAST website (Table 1), and then synthesized from Thermo Fisher Scientific (Waltham, MA, USA). Finally, THUNDERBIRD SYBR qPCR Mix was used to amplify the target gene (TOYOBO, Tokyo, Japan), and then all the prepared samples were kept into Thermal Cycler Dice (Takara Bio Inc. Japan). The cycle settings were as follows: 95°C, 30 s, 1 cycle; 95°C, 5 s, 60°C, 30 s, 40 cycles; 95°C, 15 s, 60°C, 30 s, 1 cycle, and the results were analyzed by 2−ΔΔCt method.
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5

Quantitative Analysis of Gene Expression

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Total RNA was isolated using Sepasol(R)‐RNA I Super G (Nacalai Tesque, Japan) from liver tissue, and the absorbance was measured at 260, 280, and 320 nm using a spectrophotometer. cDNA was synthesized with Rever Tra Ace qPCR RT Master Mix with gDNA Remover (TOYOBO, Japan), in accordance with the manufacturer's protocol, and used for the amplification of target genes in real‐time PCR with the THUNDERBIRD SYBR qPCR Mix (TOYOBO, Japan). The specific primers were synthesized by Thermo Fisher Scientific (USA) (Table 2). The amplification was performed as follows in a Thermal Cycler Dice (TAKARA BIO INC., Japan): 1 cycle at 95°C for 30 s, and 40 cycles at 95°C for 5 s and 60°C for 30 s. We determined the fold differences in gene expression levels using the 2−ΔΔCT method. The ratio of mRNA expression levels was normalized to the house keeping gene glyceraldehyde‐3‐phosphate dehydrogenase (GAPDH) (Kudo et al., 2020 (link); Li et al., 2015 (link)). We show a comparison of gene expression by L‐Cit administration when the gene expression level in the control group is 100%. The notation of these data was taken from the published paper (Amengual et al.,l., 2018 (link)).
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