Gelred

Manufactured by Biotium

Sourced in United States, United Kingdom, Germany, Canada, Belgium, Switzerland, France, Italy, Australia, China, Spain

GelRed is a nucleic acid stain used for detecting DNA and RNA in agarose gels. It is a sensitive and stable dye that binds to nucleic acids and emits fluorescence when exposed to UV or blue light.

Automatically generated - may contain errors

Lab products found in correlation

Close spelling variants of this product

GelRed Nucleic Acid Gel Stain (213 citations) GelRed nucleic acid stain (97 citations) GelRed stain (25 citations) GelRed Nucleic Acid (10 citations) GelRed DNA stain (7 citations) GelRed nucleic acid dye (7 citations) GelRed solution (5 citations) GelRed nucleic acid staining (5 citations) GelRed fluorescent dye (4 citations) GelRed Acid Gel Stain (4 citations)

1 111 protocols using gelred

Targeted DNA Amplification and Analysis

Check if the same lab product or an alternative is used in the 5 most similar protocols

Genomic DNA was isolated using QuickExtract (Epicentre) according to the manufacturer’s instructions. The loci-of-interest were then amplified using Q5 High-Fidelity DNA Polymerase (New England Biolabs) and the following PCR parameters: 98 °C for 30s, 98 °C for 10s, 63–65 °C for 30s, 72 °C for 20s (repeat from step 2 for 34 more cycles), and 72 °C for 2 min. Sequences of the primers used are provided in Additional file 1: Table S7. Subsequently, the PCR products were purified using the GeneJET Gel Extraction Kit (Thermo Scientific).
For the T7E1 assay, 200 ng PCR products was incubated at 95 °C for 5 min in 1× NEBuffer 2 and then slowly cooled at a rate of − 0.1 °C/second. After annealing, 5 U T7 endonuclease I (New England Biolabs) was added to each sample and the reactions were incubated at 37 °C for 50 min. The T7E1-digested products were separated on a 2.5% agarose gel stained with GelRed (Biotium) and the gel bands were quantified using ImageJ. For the RFLP analysis, 200 ng PCR products were digested overnight with either XbaI or HindIII-HF (New England Biolabs) in CutSmart buffer. The reactions were separated on a 2% agarose gel stained with GelRed (Biotium) and the gel bands were quantified using ImageJ.

Wang Y., Liu K.I., Sutrisnoh N.A., Srinivasan H., Zhang J., Li J., Zhang F., Lalith C.R., Xing H., Shanmugam R., Foo J.N., Yeo H.T., Ooi K.H., Bleckwehl T., Par Y.Y., Lee S.M., Ismail N.N., Sanwari N.A., Lee S.T., Lew J, & Tan M.H. (2018). Systematic evaluation of CRISPR-Cas systems reveals design principles for genome editing in human cells. Genome Biology, 19, 62.

+ Open protocol

+ Expand

Genotyping of Zebrafish Mutants and Transgenics

Check if the same lab product or an alternative is used in the 5 most similar protocols

Individual embryos and adult fin tissue were lysed in 50 ul 1X ThermoPol
Buffer (NEB) at 95°C for 10 minutes, digested at 55°C for
1–4 hours using 25–50 ug Proteinase K (Thermo Fisher), followed by
Proteinase K inactivation at 95°C for 10 minutes. 1 ul of DNA extract was
used as template in a standard 25 ul PCR with Taq polymerase according to
manufacturer’s protocol (NEB). To molecularly identify
pnrc2^oz22 carriers after PCR
amplification, samples were digested with 20 units NsiI-HF (NEB) to distinguish
cleavable wild-type from un-cleavable mutant amplicons. Reaction products were
analyzed on a 2% agarose gel stained with Gel Red (Biotium). To identify
carriers of the heat shock inducible reporter transgenes, embryos were either
screened post-heat shock (pHS) for Venus fluorescence or molecularly identified
by PCR amplification of Venus coding sequence. Genotyping was
performed with 1 ul of DNA extract as template in a standard 25 ul reaction with
Taq polymerase according to manufacturer’s protocol (NEB). Primers were
designed to amplify presence of Venus coding sequence (Table S2) and reaction
products were analyzed on a 2% agarose gel stained with Gel Red (Biotium).

Tietz K.T., Gallagher T.L., Mannings M.C., Morrow Z.T., Derr N.L, & Amacher S.L. (2020). Pumilio response and AU-rich elements drive rapid decay of Pnrc2-regulated cyclic gene transcripts. Developmental biology, 462(2), 129-140.

+ Open protocol

+ Expand

Characterizing Virus-Like Particle Structures

Check if the same lab product or an alternative is used in the 5 most similar protocols

CPMV, UV-, and Form-CPMV (10 μg) were mixed with a 4 × LDS loading dye (Thermo Fisher Scientific) and denatured (100 °C for 5 min). Samples were then analyzed on 4−12% sodium dodecyl sulfate poly(acrylamide) gel electrophoresis (SDS-PAGE) precast gels in a 1 × morpholinepropanesulfonic acid (MOPS) buffer (Thermo Fisher Scientific). SeeBlue Plus2 ladder (Thermo Fisher Scientific) was used, and gels were run for 35 min at 200 V and 120 mA. Gels were stained with either GelRed (Biotium) or Coomassie Brilliant Blue G-250 (0.25% w/v) and subsequently imaged with the FluorChem R imaging system under UV light or white light. ImageJ software (https://imagej.nih.gov/ij/download.html) and band analysis tool were used for image analysis.
Native CPMV, UV-, and Form-CPMV (10 μg) were analyzed on agarose gels (0.8% w/v) in 1 × tris-acetate-ETDA (TAE) running buffer in the presence of nucleic acid gel stain (GelRed, Biotium). Gels were run for 30 min at 120 V and then imaged under UV light. Alternatively, gels were stained with Coomassie Brilliant Blue G-250 (0.25% w/v, Sigma-Aldrich) and subsequently imaged under white light. A FluorChem R imaging system (Protein Simple) was used.

Jung E., Mao C., Bhatia M., Koellhoffer E.C., Fiering S.N, & Steinmetz N.F. (2022). Inactivated Cowpea Mosaic Virus for In Situ Vaccination: Differential Efficacy of Formalin vs UV-Inactivated Formulations. Molecular pharmaceutics, 20(1), 500-507.

+ Open protocol

+ Expand

DNA Extraction and Genotyping Protocols

Check if the same lab product or an alternative is used in the 5 most similar protocols

Individual embryos and adult fin tissue were lysed in 50 μl 1M NaOH for 15 mins at 95°C followed by incubation on ice for 5 minutes at 4°C, and then neutralized with 5 μl of 1M Tris-HCl pH 8. For genotyping fixed embryos, heads were removed into ThermoPol buffer (20 μl) and treated with 2 mg/ml ProK at 55°C for 3 hours to extract DNA. 1 μl of DNA extract was used as a template in a 20 μl PCR with Taq polymerase according to the manufacturer's protocol (NEB). For genotyping rbm8a^oz36and foxo3b^ihb404 mutant embryos, PCR products were digested with 20 units of XmnI and XcmI respectively (NEB) to distinguish cleavable mutant from un-cleavable wild-type amplicons. Digested products were analyzed on a 1% agarose gel stained with Gel Red (Biotium). For genotyping magoh^oz37 mutant embryos, PCR products were analyzed by separation of mutant and wild-type alleles on a 2% agarose gel stained with Gel Red (Biotium). Primer sequences are listed in S4 Table.

Gangras P., Gallagher T.L., Parthun M.A., Yi Z., Patton R.D., Tietz K.T., Deans N.C., Bundschuh R., Amacher S.L, & Singh G. (2020). Zebrafish rbm8a and magoh mutants reveal EJC developmental functions and new 3′UTR intron-containing NMD targets. PLoS Genetics, 16(6), e1008830.

+ Open protocol

+ Expand

DNA Condensation Ability of Vectors

Check if the same lab product or an alternative is used in the 5 most similar protocols

The DNA condensation ability of vectors was determined by performing Gel Red exclusion assay. During the experiment, an aliquot of 10× Gel Red solution was prepared by diluting 10,000× Gel Red (Biotium) in ultrapure water. The diluted Gel Red solution (4 µL) was then added to naked pCS2 plasmid DNA solution (10 µL with 10 ng/µL of DNA, 0.1 μg) or each polyplex formed from F1–F7 and pCS2 plasmid DNA (0.1 µg) at N/P ratios of 2.5, 5, 7.5, 10, 15, 20, 35, 30, 40, and 50. The resultant mixtures were incubated at ambient temperature in the dark for 30 min. The fluorescence intensity of the mixture was measured using a plate reader (EnSight, PerkinElmer, Singapore) at excitation and emission wavelengths of 510 and 590 nm, respectively. The vectors were tested at N/P ratios between 0 and 50, where N/P 0 (DNA and GelRed) was considered 100% fluorescence intensity.

Craciun B.F., Gavril G., Peptanariu D., Ursu L.E., Clima L, & Pinteala M. (2019). Synergistic Effect of Low Molecular Weight Polyethylenimine and Polyethylene Glycol Components in Dynamic Nonviral Vector Structure, Toxicity, and Transfection Efficiency. Molecules, 24(8), 1460.

+ Open protocol

+ Expand

Rdl Gene Mutation Detection in Mosquitoes

Check if the same lab product or an alternative is used in the 5 most similar protocols

Total DNA of single larvae was extracted using a CTAB protocol (Rogers and Bendich 1988 ). A previously described PCR-RFLP test (Tantely et al. 2010 (link)) was used to detect the A302S substitution in the Rdl gene in Ae. albopictus and Cx. quinquefasciatus specimens. Briefly, a 232 bp fragment of the Rdl gene was amplified by PCR with mqGABAdir (5ʹ-TGTACGTTCGATGGGTTAT-3ʹ) and mqGABArev (5ʹ-CATGACGAAGCATGTGCCTA-3ʹ) primers. A 30 cycle PCR (each composed of 94°C for 30 s, 52°C for 30 s, and 72°C for 1 min) was performed in the thermocycler using 1 μl (0.5 ng) of a genomic DNA solution in a 25 µl final volume reaction contained 9.5 μl of water, 12.5 μl of MasterMix (Applied Biosystems, Foster City) and 1 μl of each primer (10 μM). PCR products were digested for 3 h at 60°C with 1.5 U of BstAPI restriction endonuclease (New England Biolabs, Ipswich), which selectively cleaves the susceptible allele. DNA fragments were run on 2% agarose gel electrophoresis stained with 1X GelRed^TM (Biotium Inc.) and visualized under ultraviolet light. On each gel, 3 control PCR-RFLP were included using DNA extracted from lab mosquito lines. Specifically, DNA template of mosquitoes from homozygous susceptible (SS), homozygous resistant (RR), and heterozygous (RS) lines were used.

Lebon C., Alout H., Zafihita S., Dehecq J.S., Weill M., Tortosa P, & Atyame C. (2022). Spatio-Temporal Dynamics of a Dieldrin Resistance Gene in Aedes albopictus and Culex quinquefasciatus Populations From Reunion Island. Journal of Insect Science, 22(3), 4.

+ Open protocol

+ Expand

Morphological and Molecular Identification of Black Fly Larvae

Check if the same lab product or an alternative is used in the 5 most similar protocols

All Reunion black fly larvae could be identified morphologically using previously published keys [47 ]. For larvae, three specific morphological characteristics were used: ventral and dorsal ornamentations on the head capsule together with hypostomium shape. To improve identification of larvae and adults, a potential size polymorphism in the Internal Transcribed Spacer 1 (ITS1) was investigated as this nuclear marker has been shown to be variable in size between closely related black fly species [50 (link),51 (link)]. Using DNA from morphologically identified larvae as template; a Polymerase Chain Reaction (PCR) amplification of the ITS1 locus was carried out using previously published primers, ITS1-5’/ITS1-3’ [52 (link)] (see DNA extraction, amplification and sequencing section). Differences in amplicon size were visualized by electrophoresis on 2% agarose gels stained with 1X GelRed^TM (Biotium Inc.) and further confirmed by Sanger sequencing.

Gomard Y., Cornuault J., Licciardi S., Lagadec E., Belqat B., Dsouli N., Mavingui P, & Tortosa P. (2018). Evidence of multiple colonizations as a driver of black fly diversification in an oceanic island. PLoS ONE, 13(8), e0202015.

+ Open protocol

+ Expand

Denaturing and Native Gel Electrophoresis of Proteins

Check if the same lab product or an alternative is used in the 5 most similar protocols

For denaturing gel electrophoresis, samples were denatured by heating at 100° C for 10 minutes in NuPage 4× LDS Sample loading buffer (Thermo Fisher). CPMV (10 μg) were loaded on 12% NuPage Bis-Tris protein gels (Thermo Fisher) and run in 1× MOPs buffer at 200V for 35 minutes. Gels were stained with Coomassie Blue. For native gel electrophoresis, 10 μg of sample was loaded into 0.8% (w/v) TAE agarose gels in 1× TAE buffer and run at 90V for 40 minutes. Gels were post-stained in 3× GelRed (Biotium) in water, and in Coomassie Blue. All gels were imaged on an AlphaImager HP or a FluorChem R (Protein Simple) and analyzed with Fiji.^{31 –33 (link)}

Lam P., Lin R, & Steinmetz N.F. (2018). Delivery of mitoxantrone using a plant virus-based nanoparticle for the treatment of glioblastomas. Journal of materials chemistry. B, 6(37), 5888-5895.

+ Open protocol

+ Expand

DNA Binding Assay of Metal Complexes

Check if the same lab product or an alternative is used in the 5 most similar protocols

The DNA binding activity of the metal complexes was assessed through their ability to alter the electrophoretic mobilities of the covalently closed circular (ccc) and open circular (oc) forms of ΦX174 supercoiled DNA as previously described [30 (link)]. Briefly, a mixture containing 200 ng of ϕX174 DNA (Promega, Madison, WI, USA) and different concentrations of the metal complexes was prepared. After incubation for 24 h at 37 °C in the dark, the samples were run in a 0.8% agarose gel in TAE buffer for 3 h at 90 V. The gel obtained was then stained using a 3× GelRed^® (Biotium, Fremont, CA, USA) solution in H₂O and imaged in an AlphaImagerEP (Alpha Innotech, San Leandro, CA, USA).

Costa J.P., Pinheiro T., Martins M.S., Carvalho M.F., Feliciano J.R., Leitão J.H., Silva R.A., Guerreiro J.F., Alves L.M., Custódio I., Cruz J, & Marques F. (2022). Tuning the Biological Activity of Camphorimine Complexes through Metal Selection. Antibiotics, 11(8), 1010.

+ Open protocol

+ Expand

Phage DNA Separation and Visualization

Check if the same lab product or an alternative is used in the 5 most similar protocols

Phage libraries or isolated phage clones (~10¹⁰ virions per sample) were separated on a 0.8% agarose gel in 4× GBB (pH 8.3) at a constant 20 V (~1.38 V/cm) for 24 hours at 4 °C as previously described by [43 (link)]. Electrophoresed gels were soaked in 0.2 N NaOH for 1 hour at room temperature to denature phage particles, washed with ddH₂O for 5 minutes, and neutralized with 1 M Tris-HCl, pH 7.0 for 15 minutes. Gels were then soaked in 3× GelRed (Biotium, Fremont, CA, USA) staining solution diluted in ddH₂O for 1 hour at room temperature and briefly rinsed with ddH₂O for 5 minutes. Phage ssDNA bands were visualized using the UV imaging tray on a GelDoc Imaging Station (Bio-Rad, Hercules, CA, USA).

Gillespie J.W., Yang L., De Plano L.M., Stackhouse M.A, & Petrenko V.A. (2019). Evolution of a Landscape Phage Library in a Mouse Xenograft Model of Human Breast Cancer. Viruses, 11(11), 988.

+ Open protocol

+ Expand

About PubCompare

Our mission is to provide scientists with the largest repository of trustworthy protocols and intelligent analytical tools, thereby offering them extensive information to design robust protocols aimed at minimizing the risk of failures.

We believe that the most crucial aspect is to grant scientists access to a wide range of reliable sources and new useful tools that surpass human capabilities.

However, we trust in allowing scientists to determine how to construct their own protocols based on this information, as they are the experts in their field.

Ready to get started?

Revolutionizing how scientists
search and build protocols!