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Gapdh primer

Manufactured by Sangon
Sourced in China

GAPDH primers are a set of short DNA sequences used in molecular biology techniques, such as reverse transcription-polymerase chain reaction (RT-PCR), to amplify and detect the expression of the GAPDH gene. GAPDH (Glyceraldehyde 3-phosphate dehydrogenase) is a housekeeping gene commonly used as a reference gene for gene expression studies.

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14 protocols using gapdh primer

1

Comprehensive RT-PCR Assay Protocol

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All RT-PCR processes were performed as previously described [28 (link), 29 (link)]. The siRNA and specific miRNA, CXCL5, CXCL9, CXCL10, Ki-67, U6, and GAPDH primers were synthesized by Sangon Biotech (Shanghai, China), as listed in Supplementary Table 3.
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2

ITSN1-S mRNA Expression Quantification

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Total RNA was isolated from cells using Trizol reagent (Invitrogen, Carlsbad, CA, USA) according to the manufacturer’s instructions. cDNA was generated by the RTase M-MLV (Takara, Shiga-ken, Japan) as described in the manufacturer’s protocol. Quantification of ITSN1-S mRNA level was done by RT-qPCR using SYBR Green PCR Master Mix (TaKaRa, Shiga-ken, Japan), and the expression of GAPDH was used as the internal control. ITSN1-S primers used were shown in Supplementary Table S5. GAPDH primers were obtained from Sangon Biotech (B661104, Shanghai, China). Fold changes were calculated using the ΔΔCt method in Microsoft Excel.
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3

Quantitative RT-PCR Analysis of miRNA and mRNA

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To prepare qRT-PCR samples, total RNA was purified with RNA-Quick Purification Kit (Yishan Biotechnology, Shanghai, China) and submitted to reverse transcription with Bulge-Loop miRNA qRT-PCR Starter Kit (RiboBio) or HiScript III RT SuperMix (Vazyme, Nanjing, Jiangsu, China). qRT-PCR utilized ChamQ SYBR qPCR Master Mix (Vazyme) on a StepOne Real-Time PCR System (Applied Biosystems, Foster City, CA, USA). A miR-195-5p Bulge-loop™ miRNA qRT-PCR Primer Set was from RiboBio. Crebl2 primers (sense 5′-TGGATGACAGCAAGGTGGTC-3′ and antisense 5′-GGACACCAACTCCTCCAAGT −3′) and GAPDH primers (sense 5′-ACAGCAACAGGGTGGTGGAC-3′ and antisense 5′-TTTGAGGGTGCAGCGAACTT-3′) were from Sangon Biotech (Sangon Biotech, Shanghai, China). The comparative 2–ΔΔCt method was utilized for the analysis of data, normalized to U6 or GAPDH expression.
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4

Quantitative Analysis of hsa_circ_0021001

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qRT-PCR experiment was performed using GoTaq qPCR Master Mix kit and Mx3005P real-time PCR operating system. According to the procedures of the kit, 25 μL reaction systems consisted of 5 μL cDNA products, 5.5 μL DEPC water, 1 μL upstream primers, 1 μL downstream primers, and 12.5 μL qPCR mixtures. Hsa_circ_0021001 primers and GAPDH primers were synthesized by Shanghai Sangon biotechnology Inc. The primer sequences of hsa_circ_0021001 were as follows: 5′-GAAACTCGAGCCGCGCTGCGATATGTG-3′ (upstream); 5′-CACAGCCAGCAAAGTTACTCGCTTTAAA-3′ (downstream). GAPDH was used as an internal standard. The primer sequences of GAPDH were as follows: 5′-CCCGATAACACAAGTGCAGC-3′ (upstream); 5′-CCCGATAACACAAGTGCAGC -3′ (downstream). The relative expression of hsa_circ_0021001 was calculated using 2−ΔΔCt. All data were expressed as mean ± SD of three independent experiments. The experiments were performed by blind method.
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5

Quantifying lncRNA Expression Levels

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Total RNA was isolated from cultured cells using miRNeasy Mini Kit (Qiagen, Germany) and converted into complementary DNA using 5× All-In-One RT MasterMix (abm, Canada). qRT-PCR was performed in triplicate for each sample using BrightGreen 2× qPCR MasterMix (abm, Canada) and a LightCycler 96 Real-Time PCR detection system (Roche, USA) according to the manufacturer’s instructions. For qRT-PCR, KCNQ1OT1 primers (Sangon Biotech, China) were: 5’-TGCAGAAGACAGGACACTGG-3’ (sense) and 5’-CTTTGGTGGGAAAGGACAGA-3’ (antisense); SNHG1 primers (Sangon Biotech, China) were: 5’-GCCAGCACCTTCTCTCTAAAGC-3’ (sense) and 5’- GTCCTCCAAGACAGATTCCATTTT-3’ (antisense); GAPDH primers (Sangon Biotech, China) were: 5’-GCATCCTGGGCTACACTG-3’ (sense) and 5’-TGGTCGTTGAGGGCAAT-3’ (antisense). The 2-△△Ct method was used to calculate the relative gene expression levels of KCNQ1OT1 and SNHG1, which were normalized to the corresponding GAPDH mRNA levels.
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6

Quantitative Real-Time PCR Analysis

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Total RNA was extracted from the samples in each group using RNA extraction reagents (Nanjing Novizan Medical Technology Co., Ltd.), following the manufacturer's instructions. RNA was quantified using a spectrophotometer and then reverse transcribed into cDNA using PrimeScript™ RT Master Mix kit (cat. no. RR036A, Takara Biotechnology Co., Ltd.). qPCR was performed using PrimeSTAR® Max DNA Polymerase (Takara Biotechnology Co., Ltd.) on an RT-PCR system (Agilent Technologies, Inc.). The samples were amplified using the following thermocycling conditions: Initial denaturation at 95°C for 30 sec; followed by 40 cycles of denaturation at 95°C for 5 sec, annealing at 55°C for 30 sec and elongation at 72°C for 30 sec; and a final extension at 72°C for 10 min. The relative mRNA expression levels of the target genes were calculated as the fold change of the control using the 2−ΔΔCq method (25 (link)). GAPDH primers, obtained from Sangon Biotech (Shanghai) Co., Ltd., were used as the internal reference. The forward and reverse primers used are listed in Table I.
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7

Gene Expression Analysis of Extracellular Matrix Markers

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The cells were seeded at 1 × 105 cells/well into 6-well plates, and the medium was changed as described above. After 7 days, RNA was extracted by using TRIzol (Ambion, Austin, TX, USA) and a small total RNA extraction kit (Tianmobio, Beijing, China). HiScript Ⅱ Q RT SuperMix (Vazyme, Nanjing, China) and ChamQ Universal SYBR qPCR Master Mix (Vazyme) were used for reverse transcription PCR and real-time qPCR. All steps were performed according to the manufacturer's instructions. The sequences of the primers used are listed in Table 1. Endogenous reference gene (GAPDH) primers were purchased from Sangon Biotech (Shanghai, China), which also synthesized the other primers. Reverse transcription PCR was performed using Biometra TOne (Analytik Jena, Jena, Germany). Real-time qPCR was performed using an Applied Biosystems QuantStudio instrument (Thermo Fisher Scientific). Relative quantification was calculated using 2-ΔΔCt.

Primer sequences.

Table 1
Gene namePrimer sequence (5′ -3′)Product size (bp)Transcript ID
SPP1F CTCCATTGACTCGAACGACTCR CAGGTCTGCGAAACTTCTTAGAT230NM_001,251,830
POSTNF CTCATAGTCGTATCAGGGGTCGR ACACAGTCGTTTTCTGTCCAC138NM_001,135,935
COL-ⅠF GAGGGCCAAGACGAAGACATCR CAGATCACGTCATCGCACAAC140NM_000088
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8

Quantification of Gene Expression in Left Ventricle Samples

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Total RNA was extracted from left ventricle tissue samples using TRIzol reagent, according to the manufacturer's instructions. The concentration and purity of isolated RNA was subsequently detected. cDNA was generated from 1 µg total RNA using a high-capacity cDNA reverse transcription kit (4368814; Thermo Fisher Scientific, Inc.) following the manufacturer's instructions. Reverse transcription was performed as follows: 25°C for 10 min, 37°C for 2 h, 85°C for 5 min and stored at 4°C. GAPDH primers were purchased from Sangon Biotech Co., Ltd. (Shanghai, China) and all other primers were synthesized and purified by Sangon Biotech Co., Ltd., as listed in Table I. cDNA was quantified using a QuantiFast SYBR Green PCR kit and qPCR was performed using a 7500 Fast Real-Time PCR System (Applied Biosystems; Thermo Fisher Scientific, Inc.). Briefly, the amplification was performed with an initial step at 95°C for 5 min, followed by 40 cycles of denaturation at 95°C for 10 sec, annealing at 60°C for 30 sec and extension at 60°C for 30 sec for each target gene. All amplification reactions for each sample were performed in triplicate and the results were expressed as the ratio of target genes to GAPDH mRNA using the 2−ΔΔCq method (24 (link)).
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9

Quantification of Renal Gene Expression

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The RNA extracted from the kidney and the cells via Trizol reagent (Invitrogen, California, USA) was used to reverse transcribe to cDNA with the help of a Reverse transcription Kit (Promega, USA), which was in turn augmented by RT-PCR using Power SYBR Green PCR Master Mix (Bio•Rad, USA) and GAPDH primers (Sangon Biotech, Shanghai, China). The forward and reverse primer for the detected RNA sequence were as follows: TNF-α: 5'-CCCTCCTGGCCAACGGCATG-3' and 5'-TCGGGGCAGCCTTGTCCCTT-3'; the TLR2 (MQP030650), TLR4 (MQP032465), MCP-1 (MQP027672), IL-1β (MQP027422), iNOS (MQP029793). Primers were bought from GeneCopoeia, USA. Finally, the relative expression of genes was analyzed by using 2_∆∆Ct.
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10

Quantifying GPR18 and TRPV1 Expression

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Using TRIzol reagent (9108, Takara, Japan), total RNA was extracted from the bladder and L6-S1 DRG. After determining the RNA concentration and purity by using a spectrophotometer (Micro Drop, Bio-DL, USA), the RNA was reverse transcribed into cDNA using reverse transcription reagent (RR047A, Takara, Japan). Finally, real-time PCR analysis was performed on a real-time PCR instrument (4376600, Thermo Fisher, USA) using fluorescent reagent (208054, QIAGEN, Germany). The primer sequences were as follows: GPR18: 5ʹ-CATCTCAGCAACCCTCCAAC-3ʹ and 5ʹ-CCATGGTACGTAGAAACTCCTG-3ʹ; TRPV1: 5ʹ-CTCCAAGGCACTTGCTCCAT-3ʹ and 5ʹ-GTGGCTTGCAGTTAGGGTCT-3ʹ. A GAPDH primer was purchased from Sangon Biotech (B661204, China).
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