Comparison between Different Strategies of Covalent Attachment of DNA to Glass Surfaces to Build DNA Microarrays

Zammatteo, Nathalie; Jeanmart, Laurent; Hamels, Sandrine; Courtois, S J; Louette, Pierre; Hevesi, L.; Remacle, José

doi:10.1006/abio.2000.4515

Cited by 302 publications

(223 citation statements)

References 22 publications

Supporting

Mentioning

212

Contrasting

Unclassified

Order By: Relevance

“…Aldehyde, epoxysilan or 3D-Link (long hydrophilic chains with amine-reactive groups) surface groups bind covalently with amino-modified probes (Kane et al 2000, Zammatteo et al 2000, Lidroos et al 2001. Good accessibility of the amino group for slide binding is ensured by adding a short carbon chain (usually C6) between the amino group and the 5' (or 3') end of the oligonucleotide (Franssen-val Hal et al 2002).…”

Section: Technical Aspectsmentioning

confidence: 99%

Oligonucleotide microarray methodology for taxonomic and functional monitoringof microbial community composition

Kyselková¹,

Kopecký²,

Ságová-Marečková³

et al. 2009

PLANT SOIL ENVIRON

View full text Add to dashboard Cite

Microarray analysis is a cultivation-independent, high-throughput technology that can be used for direct and simultaneous identification of microorganisms in complex environmental samples. This review summarizes current methodologies for oligonucleotide microarrays used in microbial ecology. it deals with probe design, microarray manufacturing, sample preparation and labeling, and data handling, as well as with the key features of microarray analysis such as specificity, sensitivity and quantification potential. Microarray analysis has been validated as an effective approach to describe the composition and dynamics of taxonomic and functional microbial communities, in environments including soil, compost, sediment, air or humans. it is now part of the technical arsenal available to address key issues in microbial community ecology, ranging from biogeography to ecosystem functioning.

show abstract

Section: Technical Aspectsmentioning

confidence: 99%

Oligonucleotide microarray methodology for taxonomic and functional monitoringof microbial community composition

Kyselková¹,

Kopecký²,

Ságová-Marečková³

et al. 2009

PLANT SOIL ENVIRON

View full text Add to dashboard Cite

show abstract

“…[1 -3] Among the various functional groups found to be effective, aldehyde (CHO) and carboxy (COOH) groups are particularly important because of their chemical reactivity to minerals, biomolecules, and metal ions. [3 -10] Although there have been numerous reports describing the formation of CHO- [4,5] and COOH-terminated alkanethiol SAMs [9 -11] on gold surfaces, there have been fewer studies on organosilane SAMs terminated with CHO [3,6,7] and COOH [8,12 -16] groups on SiO 2 or other oxide surfaces in spite of the practical advantages they offer. In particular, there have only been a limited number of papers describing the formation of COOH-terminated organosilane SAMs on SiO 2 or other oxide surfaces.…”

Section: Introductionmentioning

confidence: 99%

Formation of aldehyde‐ and carboxy‐terminated self‐assembled monolayers on SiO₂ surfaces

Hozumi¹,

Taoda²,

Saito³

et al. 2008

Surface & Interface Analysis

View full text Add to dashboard Cite

Aldehyde (CHO)-and carboxy (COOH)-terminated self-assembled monolayers (SAMs) were prepared on silicon substrates covered with native oxide (SiO 2 /Si) based on the chemisorption of triethoxysilylundecanal (TESUD) molecules and subsequent photooxidation of the terminal groups using 172-nm vacuum UV light in wavelength, respectively. In this study, we have particularly focused on the effects of atmospheric pressure during vacuum UV irradiation on the degree of the SAM photooxidation. When irradiation was conducted under a residual pressure of 10 3 Pa, the hydrophobic TESUD-SAM surface became hydrophilic and its water-contact angle fell from approximately 80• to less than 5• within 1 min. Film thickness also decreased from about 1.2 nm to about 0.3 nm, indicating the complete photodecomposition of the organic parts of the TESUD-SAM. On the other hand, in the case of 10 5 Pa, by selecting an appropriate time for vacuum UV irradiation, we were able to control the degree of photooxidation of the TESUD-SAM. Using a vacuum UV irradiation of 25 min at 10 5 Pa, only the topmost region of the TESUD-SAM was successfully photooxidized into COOH groups without any marked change in both film thickness and surface morphology, as evidenced by water-contact angle data, ellipsometry, X-ray photoelectron spectroscopy (XPS), and atomic force microscopy (AFM).

show abstract

“…This postsynthetic approach can be performed by electrostatic or covalent binding. Therefore, different DNA attachment strategies are possible as described in the literature by Zammateo et al [10]. But 161 often, inhomogeneous surfaces lead to less reproducible signals, and nonspecific binding hampers the significance of the results obtained.…”

Section: Introductionmentioning

confidence: 99%

Optimization of Gold Nanoparticle-Based DNA Detection for Microarrays

Festag¹,

Steinbrück²,

Wolff³

et al. 2005

J Fluoresc

View full text Add to dashboard Cite

DNA microarrays are promising tools for fast and highly parallel DNA detection by means of fluorescence or gold nanoparticle labeling. However, substrate modification with silanes (as a prerequisite for capture DNA binding) often leads to inhomogeneous surfaces and/or nonspecific binding of the labeled DNA. We examined both different substrate cleaning and activating protocols and also different blocking strategies for optimizing the procedures, especially those for nanoparticle labeling. Contact angle measurements as well as fluorescence microscopy, atomic force microscopy (AFM), and a flatbed scanner were used to analyze the multiple-step process. Although the examined different cleaning and activating protocols resulted in considerably different contact angles, meaning different substrate wettability, silanization led to similar hydrophobic surfaces which could be revealed as smooth surfaces of about 2-4 nm roughness. The two examined silanes (3-glycidoxypropyltrimethoxysilane (GOPS) and 3-aminopropyltriethoxysilane (APTES)) differed in their DNA binding homogeneity, maximum signal intensities, and sensitivity. Nonspecific gold binding on APTES/PDC surfaces could be blocked by treatment in 3% bovine serum albumin (BSA).

show abstract

Comparison between Different Strategies of Covalent Attachment of DNA to Glass Surfaces to Build DNA Microarrays

Cited by 302 publications

References 22 publications

Oligonucleotide microarray methodology for taxonomic and functional monitoringof microbial community composition

Oligonucleotide microarray methodology for taxonomic and functional monitoringof microbial community composition

Formation of aldehyde‐ and carboxy‐terminated self‐assembled monolayers on SiO₂ surfaces

Optimization of Gold Nanoparticle-Based DNA Detection for Microarrays

Contact Info

Product

Resources

About

Comparison between Different Strategies of Covalent Attachment of DNA to Glass Surfaces to Build DNA Microarrays

Cited by 302 publications

References 22 publications

Oligonucleotide microarray methodology for taxonomic and functional monitoringof microbial community composition

Oligonucleotide microarray methodology for taxonomic and functional monitoringof microbial community composition

Formation of aldehyde‐ and carboxy‐terminated self‐assembled monolayers on SiO2 surfaces

Optimization of Gold Nanoparticle-Based DNA Detection for Microarrays

Contact Info

Product

Resources

About

Formation of aldehyde‐ and carboxy‐terminated self‐assembled monolayers on SiO₂ surfaces