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Abi prism steponeplus sequence detection system

Manufactured by Thermo Fisher Scientific
Sourced in Japan, United States

The ABI Prism StepOnePlus Sequence Detection System is a real-time PCR (qPCR) instrument designed for gene expression analysis, genotyping, and other nucleic acid quantification applications. It utilizes fluorescence-based detection technology to measure and analyze gene expression levels and DNA sequences in real-time.

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5 protocols using abi prism steponeplus sequence detection system

1

RNA Extraction and RT-qPCR for Notch Genes

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Total RNA from cultured cells was extracted using the TRIzol method (Invitrogen) and was reverse-transcribed by PrimeScript RT reagent Kit With gDNA Eraser (TaKaRa, Tokyo, Japan) according to manufacturer’s instruction. Briefly, real-time PCR was performed for forty cycles to amplify N2ICD/Notch-related genes (denaturation at 95°C for 5 s, annealing and extension at 60°C for 34 s) in triplicate using PrimeScript II Reverse Transcriptase (TaKaRa, Tokyo, Japan) detected y an ABI PRISM Stepone Plus Sequence Detection System (Applied Biosystems 7500, Foster City, CA, United States) following the manufacturer’s instructions. To test gene expression, relative quantitation of target gene expression was determined by ΔΔCt (threshold cycle) method. ΔCt is the difference between Ct of target mRNA and Ct of internal control for each group. The primers for real-time PCR were listed in Supplementary Table 2.
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2

Quantifying Cx40 Expression in bEnd.3 Cells

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Total RNA from bEnd.3 cells was obtained using the NucleoSpin kit (Macherey-Naegel). Reverse transcription was performed using the Quantitect Reverse Transcription kit (Qiagen) and quantitative PCR was performed with the ABI Prism StepOnePlus Sequence Detection System (Applied Biosystems) using the TaqMan Fast Universal master mix (Applied Biosystem). Mouse Cx40 (Mm00433619_S1; Thermofisher Scientific) and GAPDH (Mm99999915_G1; Thermofisher Scientific) were used as Taqman probes. Cx40 expression was normalized to GAPDH expression.
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3

Quantifying Murine Cell Gene Expression

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Total RNA from mouse BMDMs, aortic ECs or lymph node ECs was obtained using the NucleoSpin kit (Macherey-Naegel). Reverse transcription was performed using the Quantitect Reverse Transcription kit (Qiagen) and real-time RT-PCR was performed with the ABI Prism StepOnePlus Sequence Detection System (Applied Biosystems) using the TaqMan Fast Universal master mix (Applied Biosystem). Mouse Panx1 or glyceraldehyde-3-phosphate dehydrogenase (GAPDH) primers and probes were purchased from Applied Biosystems. Gene expression was normalized to GAPDH expression.
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4

Quantifying Stress-Related Gene Expression

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The hippocampus and PVN were collected from frozen brain slices (2 mm thick), and then stored at −80°C until assay. Total RNA was extracted from the PVN and hippocampus using Trizol reagent (Invitrogen, Carlsbad, CA, USA) according to the manufacturer's instructions. One μg RNA was used for reverse transcription (TaKaRa, Shiga, Japan). The primer sequences were: rat glyceraldehyde-3-phosphate dehydrogenase (GAPDH; NM_017008.4) sense: 5′-TCCCTCAAGATTGTCAGCAA-3′, and antisense: 5′-AGATCCACAACGGATACATT-3′; rat corticotropin-releasing hormone (CRH; NM_031019.1) sense: 5′-CAGAACAACAGTGCGGGCTCA-3′, and antisense: 5′-AAGGCAGACAGGGCGACAGAG-3′; rat MR (NM_013131.1) sense: 5′-TGTCTCAGACCTTGGAGCGTT-3′, and antisense: 5′-TGTTCGGAATAGCACCGGAA-3′; rat GR (AB115420.1) sense: 5′-ACAGCTCACCCCTACCTTGGT-3′, and antisense: 5′-CTTGACGCCCACCTAACATGT-3′. RT-PCR was performed using a Light Cycler Fast Start DNA Master SYBR Green I kit and ABI Prism Step One Plus Sequence Detection System (Applied Biosystems, Foster City, CA, USA) and relative expression of genes was determined using the 2-ΔΔCt method by normalization against GAPDH expression. The relative levels of CRH, MR and GR mRNA were expressed as percent of control value.
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5

Quantitative RT-PCR Analysis of Pannexins

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Total RNA was extracted from murine, human, rat tissues, and cell
lines using the NucleoSpin RNA kit (Macherey-Nagel). The reverse transcription
was realized using the Quantitect Reverse Transcription kit (Qiagen).
Real-time quantitative PCR was performed using TaqMan Fast Universal
master mix (Applied Biosystem) and the ABI Prism StepOnePlus Sequence
Detection System (Applied Biosystems). Mouse, human, and rat Panx1,
Panx2, and Panx3, human vascular cell adhesion molecule-1 (VCAM-1),
intercellular adhesion molecule-1 (ICAM-1), as well as human and mouse
ribosomal 18S and rat glyceraldehyde-3-phosphate dehydrogenase (GAPDH)
probes and primers, were obtained from Applied Biosystems. Gene expression
was normalized to corresponding GAPDH or 18S expression. Triplicates
were performed for each independent experiment.
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