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Gelgreen nucleic acid stain

Manufactured by Avantor
Sourced in Italy

GelGreen Nucleic Acid Stain is a fluorescent dye used for the detection of nucleic acids, such as DNA and RNA, in agarose gels. It is designed to emit a green fluorescence signal upon binding to nucleic acid molecules. The dye can be used in various applications, including gel electrophoresis, nucleic acid quantification, and imaging.

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4 protocols using gelgreen nucleic acid stain

1

Oligonucleotide Characterization and Preparation for Biological Assays

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All the reagents and solvents were of the highest commercially available quality and were used as received. Acrylamide, GelGreen Nucleic Acid Stain, Bromophenol blue (BPB), Gel Loading Buffer 4X, 6X Orange DNA Loading Dye and Tris-Borate-EDTA (TBE) 10X were purchased from VWR. Ammonium persulfate (APS) and tetramethylethylenediamine (TEMED) were purchased from Sigma Aldrich. All the oligonucleotides here studied (Table 1) were purchased from biomers.net GmbH (Ulm, Germany), as HPLC-purified oligomers:

V7t1 (5′TGTGGGGGTGGACGGGCCGGGTAGA3′);

bisV7t1T7 (5′V7t13′TTTTTTT5′V7t13′);

bisV7t1HEG2 (5′V7t13′C24H51O20P35′V7t13′);

bisV7t1TEG2D (5′V7t13′C25H53N2O24P53′V7t15′).

Evidence of the oligonucleotide identity and purity was obtained by MALDI-TOF mass spectrometry and HPLC data, provided by the commercial suppliers. The purity of these oligonucleotides was further confirmed by denaturing 20% PAGE analysis.
The 24-mer sequence (5′TCACACACACACACACACACACTT3′), used as negative oligonucleotide control in the MTT assays, was obtained as reported in previous works [63 (link),64 (link)].
Recombinant human VEGF165 (GenScript) was purchased from TwinHelix srl (Milan, Italy) and prepared according to the manufacturer’s instructions.
Bovine serum albumin (BSA) was purchased from Thermo Scientific™ (Waltham, MA, USA).
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2

Polyacrylamide Gel Electrophoresis Protocol

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Acrylamide/bis-acrylamide (19:1) 40% solution, glycerol, formamide, urea, and GelGreen nucleic acid stain were purchased from VWR (Milan, Italy). Ammonium persulfate (APS) and tetramethylethylenediamine (TEMED) were purchased from Sigma-Aldrich (Merck Life Science, Milan, Italy). Fetal bovine serum (FBS) was provided by Euroclone (Milan, Italy).
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3

Cyclic NU172 Oligonucleotide Synthesis

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All the reagents and solvents were of the highest commercially available quality and were used as received. Nuclease-free water, acrylamide/bis-acrylamide (19:1) 40% solution, GelGreen Nucleic Acid Stain, 6X Orange DNA Loading Dye and Tris-Borate-EDTA (TBE) 10X were purchased from VWR. Formamide, urea, ammonium persulfate (APS) and tetramethylethylenediamine (TEMED) were purchased from Sigma Aldrich. Fetal Bovine Serum (FBS) was provided by Euroclone.
Among the oligonucleotides here studied, unmodified NU172 and NU were purchased from biomers.net GmbH (Germany) as HPLC-purified oligomers. Their quality was checked by HPLC and MALDI-TOF MS by the commercial suppliers. The cyclic NU172 analogues were synthesized and purified as described below. The purity of all the oligonucleotides was further confirmed by denaturing 20% PAGE analysis.
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4

Fluorescently-labeled Oligonucleotides for Research

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The oligonucleotides R1.2, i.e. d(CACTGGGTGGGGTTAGCGGG CGATTTAGGGATCTTGAGTGGT), R1.3 i.e. d(CACTGGGTGGGGTTAGCGGG CGATTTAGGGATCTT), tel26 d[(TTAGGG)4TT], T35 and T42 oligonucleotides were purchased from Biomers (Germany). The oligomers identity and purity were proved by MALDI-TOF mass spectrometry and high performance liquid chromatography (HPLC) data, provided by the commercial supplier. The 3’-fluorescein-labeled aptamers were chemically synthesized by using FAM-labeled thymidine phosphoramidites as first monomers at the 3′-end using standard solid phase phosphoramidite chemistry, as previously reported.17 (link) Gel Green® Nucleic Acid Stain was purchased from VWR.
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