Navigation Links
Oligonucleotide Purity Analysis by Capillary Electrophoresis


Introduction

Millions of oligonucleotides are synthesized each year for use as primers or probes in genetic analysis. Quality control of these preparations has traditionally been done by slab gel electrophoresis or HPLC, but these methods may require expensive reagents and laborious protocols, and may not provide desired quantitative precision or automation. Capillary electrophorsis (CE) using polymer solution buffers is being used increasingly for determination of oligonucleotide purity because of its high resolution, low consumption of sample and reagents, and ability to be fully automated. The dissolved polymers act as the sieving matrix and provide separations of oligonucleotides substantially equivalent to polyacrylamide and agarose gel electrophoresis.1, 2 This method is called dynamic sieving capillary electrophoresis (DSCE).

The CE Oligonucleotide Analysis Kit is optimized for use on the BioFocus capillary electrophoresis system. It can be used to determine the purity of synthetic oligonucleotides with quantitative estimation of the amounts of product and failure sequences. Separations are achieved by DSCE. The polymer type and concentration have been selected to provide unit resolution of oligonucleotides in the 440mer range. Replacement of the sieving buffer in the capillary between each analysis provides reproducibility of migration time and peak area. The analysis employs capillaries coated internally with a novel polymer (polyAAEE, acryloylaminoethoxyethanol) which ensures high-resolution separations over many runs.


CE Oligonucleotide Kit Components

The kit contains all the reagen ts necessary to perform oligonucleotide separations using the BioFocus capillary electrophoresis system:
Two fused silica capillaries, coated internally with poly(AAEE), 30 cm 75 m I.D. 375 m O.D., with detection window 8 cm from the end
CE Oligonucleotide Run Buffer, 50 ml
CE Oligonucleotide Size Standards 8-32mer, 13 peaks, total 0.5 OD units (see Figure 1).


Performance

Purity Results Fast

The BioFocus system provides automated analysis of up to 28 samples in one carousel setup. As Figure 2 illustrates, separations can be achieved in 10 or 12 minutes. The BioFocus Integration Software can be programmed to automatically integrate the results and print a quantitative report.

Accurate Size Estimation
The size standard can be used as an external standard to estimate the size of the sample oligonucleotide. Figure 3 shows an overlay of an 8mer synthysis product and the CE Oligonucleotide Size Standard.

High Resolution
Figure 2 shows an electropherogram of the CE Oligonucleotide Size Standard. Figure 4 shows that typical peak efficiency for the 32mer component is above 200,000 theoretical plates. Single base resolution is usually achievable out to 40mer. Resolution decreases with increasing size of the oligonucleotide.

Reproducibility
Table 1 shows the excellent reproducibility of the technique. Over a series of 12 successive runs, the average %RSD for area is 1.54% and 0.82% for migration time.


Key Benefits

Fast Results for a given sample are available in 12 minutes or less.
< b>Automated Up to 28 samples can be automatically analyzed and reported.
Quantitative Direct on-line detection makes it possible to automatically collect, analyze and report data.
Low operating cost The automated system reduces the labor needed to run samples when compared to standard slab gel electrophoresis. Performing electrophoresis in the capillary format greatly reduces reagent consumption. Buffers are used in 0.5 ml quantities, and standards are used on nanoliter quantities.

1. M. Zhu et al., J. Chromatography, 480 (1989) 311.

2. K. W. Talmadge et al., J. Chromatography A, 744 (1996) 347.


back to top
'"/>

Source:


Page: All 1 2 3

Related biology technology :

1. USB OptiKinase Eliminates Base Bias in Labeling of Oligonucleotide 5-Ends
2. Using the OligoGreen Oligonucleotide Quantitation Reagent in the Gemini XS, Gemini EM and SpectraMax M2 Microplate Readers (MaxLine Application Note #21)
3. A Unique Dimension in Biological Purity
4. Determinants of RNA Integrity and Purity
5. A Positive Selection Assay for Mutation Analysis in Big Blue Animals
6. Epitope-Tagging Vectors for Functional Analysis in Yeast
7. Map and Link Human Genetic Disorders with SSLP Analysis
8. CastAway Precast Gels for Rapid Automated DNA Sequence Analysis
9. Single-cell RT-PCR Analysis of Paramecium Primaurelia with the Eppendorf cMaster RTplusPCR System
10. Structural Analysis of Glycosylated Peptides in Complex Mixtures with Ion Trap MSn
11. Use of Transcriptor Reverse Transcriptase in Microarray Analysis
Post Your Comments:
*Name:
*Comment:
*Email:


(Date:2/8/2016)... -- Diplomat Pharmacy, Inc. (NYSE: DPLO) announced today that its new website has gone live. On Thursday, ... mobile-friendly. Visit the new site: www.diplomat.is ... ... ... "The goal was to reimagine the website and create ...
(Date:2/5/2016)... , Feb. 5, 2016 ATCC, the ... poised to assist the medical and life science researchers ... Zika Virus infection.   CDC website . ... --> Zika virus is a single-stranded RNA virus ... the West Nile, Dengue and Chikungunya Viruses. Zika virus ...
(Date:2/5/2016)... Australian-US drug discovery and development company, Novogen Limited (ASX:NRT; NASDAQ: ... Chairman, Mr John O,Connor , and new Deputy Chairman, ... James Garner , has also been formally appointed to the ... Iain Ross , will resume his role on the ... , has also been formally appointed to the Board as ...
(Date:2/4/2016)... ... 04, 2016 , ... Shimadzu Scientific Instruments will showcase several ... and poster sessions, and present on the analysis of mycotoxins and medical cannabis ... to 10 at the Georgia World Congress Center in Atlanta, Georgia. , ...
Breaking Biology Technology:
(Date:2/2/2016)... , Feb. 2, 2016 Technology Enhancements Accelerate ... an analysis of the digital and computed radiography markets ... , and Indonesia (TIM). ... and market size, as well as regional market drivers ... and discusses market penetration and market attractiveness, both for ...
(Date:2/2/2016)... 2, 2016  Based on its recent analysis ... recognizes US-based Intelligent Retinal Imaging Systems (IRIS) with ... for New Product Innovation. IRIS, a prominent cloud-based ... America , is poised to set the ... retinopathy market. The IRIS technology presents superior price-performance ...
(Date:2/1/2016)... -- Today, the first day of American Heart Month, the ... first of its kind workplace health solution that leverages ... first application of Watson to ... Welltok will create a new offering that combines AHA,s ... on Welltok,s health optimization platform. The effort is intended ...
Breaking Biology News(10 mins):