barcoding procedure immobilized target dna (Thermo Fisher)

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Thermo Fisher barcoding procedure immobilized target dna

<t>DNA</t> <t>barcoding</t> experimental scheme. Target DNA strands are <t>immobilized</t> on a microscope slide, and dye-labeled barcodes are introduced together with T4 DNA ligase in the microfluidic chamber (1). Complementary barcodes bind transiently to the target site (2), whereas mismatched barcodes bind on an even shorter timescale (2′). Successful ligation is observed for the complementary barcodes (3) but not for the mismatched barcodes (3′). Ligation product shows stable binding to the target DNA (4), whereas mismatched barcodes dissociate and are washed away before imaging. To see this figure in color, go online.

Barcoding Procedure Immobilized Target Dna, supplied by Thermo Fisher, used in various techniques. Bioz Stars score: 99/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
https://www.bioz.com/product/dna+barcoding+methods/DNA/pmc06139880-62-0-37
Average 99 stars, based on 1 article reviews

barcoding procedure immobilized target dna - by Bioz Stars, 2026-10

99/100 stars

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1) Product Images from "Multiplex Single-Molecule DNA Barcoding Using an Oligonucleotide Ligation Assay"

Article Title: Multiplex Single-Molecule DNA Barcoding Using an Oligonucleotide Ligation Assay

Journal: Biophysical Journal

doi: 10.1016/j.bpj.2018.08.013

DNA barcoding experimental scheme. Target DNA strands are immobilized on a microscope slide, and dye-labeled barcodes are introduced together with T4 DNA ligase in the microfluidic chamber (1). Complementary barcodes bind transiently to the target site (2), whereas mismatched barcodes bind on an even shorter timescale (2′). Successful ligation is observed for the complementary barcodes (3) but not for the mismatched barcodes (3′). Ligation product shows stable binding to the target DNA (4), whereas mismatched barcodes dissociate and are washed away before imaging. To see this figure in color, go online.

Figure Legend Snippet: DNA barcoding experimental scheme. Target DNA strands are immobilized on a microscope slide, and dye-labeled barcodes are introduced together with T4 DNA ligase in the microfluidic chamber (1). Complementary barcodes bind transiently to the target site (2), whereas mismatched barcodes bind on an even shorter timescale (2′). Successful ligation is observed for the complementary barcodes (3) but not for the mismatched barcodes (3′). Ligation product shows stable binding to the target DNA (4), whereas mismatched barcodes dissociate and are washed away before imaging. To see this figure in color, go online.

Techniques Used: Microscopy, Labeling, Ligation, Binding Assay, Imaging

Enzymatic restriction confirms specificity of DNA barcoding. The number of barcode pairs detected in four-color single-target and four-target experiments is shown, indicated with the sequence at the ligation site (“GA,” “GC,” “GG,” and “GT”) and with “All,” respectively. Hatched bars show barcode pair counts after the addition of a restriction enzyme specific to the bound Cy3-Cy3 barcode pair. To see this figure in color, go online.

Figure Legend Snippet: Enzymatic restriction confirms specificity of DNA barcoding. The number of barcode pairs detected in four-color single-target and four-target experiments is shown, indicated with the sequence at the ligation site (“GA,” “GC,” “GG,” and “GT”) and with “All,” respectively. Hatched bars show barcode pair counts after the addition of a restriction enzyme specific to the bound Cy3-Cy3 barcode pair. To see this figure in color, go online.

Techniques Used: Sequencing, Ligation

other:

Article Title: A national study confirms a low occurrence of antimicrobial resistance amongst Escherichia coli isolates from the caecae of Australian meat chickens
Article Snippet: DNA was extracted using the MagMAX Multi-Sample DNA Extraction Kit (Thermo Fisher Scientific, USA), following the manufacturer’s instructions.

Article Title: Integrative genomic analysis and gene expression patterns reveal a cardio-neuroendocrine signaling network for heat adaptation in geographically diverse chickens
Article Snippet: DNA extraction was performed, checked for DNA quality using 1% agarose gel electrophoresis and NanoDrop 2000 (A260/280 ratio), and finally libraries were sequenced on the DNBSEQ-T7 platform.

Concentration Assay:

Article Title: Development of a high-resolution multiplex qPCR method to profile microbial consortia in spaceflight water recovery systems
Article Snippet: 3 mL of broth culture from each strain was harvested by centrifugation and the genomic DNA was extracted using the DNeasy Blood & Tissue Kit (Qiagen), following the manufacturer's protocol for cultured cells. .. DNA concentration and purity were assessed using a NanoDrop spectrophotometer. ..

Article Title: Integrated genomic, transcriptomic, and metabolomic profile analysis reveals molecular mechanism underlying meat quality traits in Chinese Kangle chickens
Article Snippet: .. We extracted genomic DNA from blood samples using the phenol/chloroform method and quantified DNA concentration/quality using a Nanodrop-2000 spectrophotometer (Thermo Fisher Scientific, MA, USA). .. In total, 273 Chinese Kangle chickens were genotyped for 52,180 SNPs using the “Jingxin NO.1” 55 K Beadchip by following the manufacturer's protocol (Chinese Academy of Agricultural Sciences, Beijing, China) ( ).

Spectrophotometry:

Polymerase Chain Reaction:

Article Title: Combinatorial engineering of enzyme and pathway for efficient β-farnesene bioproduction in Yarrowia lipolytica
Article Snippet: The codon-optimized exogenous AaFS gene and its mutant variants synthesized by GenScript (Nanjing, China) were tailored for Y. lipolytica expression. .. PCR amplification was performed using primers listed in (Phusion® High-Fidelity DNA Polymerase, Thermo Fisher Scientific). ..

Amplification:

Viscosity:

Article Title: Protocol for the assessment of the impact of mycotoxins and glyphosate residues on the gut microbiome and resistome of European fallow deer
Article Snippet: .. Qubit quantification indicated acceptable DNA concentrations; however, NanoDrop measurements showed low 260/230 ratios (e.g., 0.3–1.2), and the DNA exhibited a brown coloration and increased viscosity. ..

Modification:

Article Title: Amino acid starvation and iron limitation facilitate the biofilm formation of Klebsiella pneumoniae within urine
Article Snippet: .. All enzymes required for restriction digestion and DNA modification were sourced from Thermo Fisher Scientific (Waltham, MA, USA) and handled in accordance with the supplier's protocols. ..

Purification:

Article Title: Identification of biofilm-associated genes in Arcobacter butzleri
Article Snippet: For that, the DNA of the P8 strain was extracted using Lysing Matrix E tubes (MP Biomedicals, France) and a Bead Mill 4 Mini Homogenizer (Fisher Scientific, USA). .. After purification with AMPure XP beads (Beckman Coulter, USA), DNA quantification was performed by a Qubit fluorometer (Invitrogen, USA) using the Qubit 1X dsDNA HS assay kit (Invitrogen, USA). .. DNA libraries were then prepared using the Rapid Sequencing Kit V14 (Oxford Nanopore Technologies, UK) and loaded into a Flonge flow cell (Oxford Nanopore Technologies, UK) for sequencing.

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