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Biochip design based on tailored ethylene glycols
Linköping University, Department of Physics, Chemistry and Biology, Sensor Science and Molecular Physics. Linköping University, The Institute of Technology.
2007 (English)Doctoral thesis, comprehensive summary (Other academic)
Abstract [en]

Studies of biomolecular interactions are of interest for several reasons. Beside basic research, the knowledge gained from such studies is also very valuable in for example drug target identification. Medical care is another area where biomolecules may be used as biomarkers to aid physicians in making correct diagnosis. In addition, the highly specific interactions between antibodies and almost any substance opens up the possibilities to design systems for detection of trace amounts of both biological and non-biological substances within environmental restoration, law enforcement, correctional care, customs service and national security. A biochip, which contains a biologically active material, offers a means of monitoring the molecular interactions in the above applications in a sensitive and specific manner. The biochip is a key component of a biosensor, which also includes components for transforming the interaction events into a human-readable signal.

This thesis describes the use of poly(ethylene glycol) (PEG) in biochip design. Two different approaches are presented, the first based on ethylene glycol (EG)-containing alkyl thiol self-assembled monolayers (SAMs) on flat gold and the second on photo-induced graft copolymerisation of PEG-containing methacrylate monomers onto various substrates. The former is a two dimensional system where EG-terminated thiols are mixed with similar thiols presenting tail groups that mimic the explosive substance 2,4,6-trinitrotoluene (TNT). In an immunoassay, the detection limit for TNT was determined to fall in the range 1-10 µg/L. In the second approach, a branched three dimensional biosensor matrix (hydrogel) is proposed. The carboxymethylated (CM) dextran matrix, which is commonly used within the biosensing community, is not always ideal for studies of biointeractions, due to the non-specific binding frequently encountered in work with complex biological solutions and various proteins. To employ PEG, which displays a low non-specific binding of such species, is therefore an interesting option worth investigating. The use of a branched graft polymerised PEG matrix in biosensor applications is novel as compared to previous reports which have focused on linear PEG chains. The latter approach provides, at maximum, one functional group, per surface anchoring point, for immobilisation of sensor elements. Thus, it has the inherited disadvantage that it limits the number of available immobilisation sites. The present PEG matrix contains a large number of functional groups, for immobilisation of sensor elements, per grafting site and offers the potential of improved response upon binding to the analyte as demonstrated in a series of successful sensor experiments.

Furthermore, the nature of the process enables easy preparation of matrix patterns and gradients. In a PEG matrix gradient, protein permeability is studied and the capabilities of immobilising proteins are demonstrated. By combining the patterning technique with different monomers in a two-step process, an inert platform, lacking chemical attachment sites, is provided with arrays of spots (with immobilisation capabilities), which are conveniently addressed via microdispensing and used for biosensor purposes. The EG-terminated thiols present another means of generating such inert platforms, a route which is also investigated. To further explore the sensor quality of these spots, the concepts of patterning and gradient formation are combined and studied.

Abstract [sv]

Det är intressant att studera biomolekylära interaktioner av många anledningar. För att kunna bedriva framgångsrik läkemedelsutveckling är det oerhört viktigt att känna till hur olika molekyler samverkar i människokroppen. Inom sjukvården kan biomolekyler användas som biomarkörer, då närvaro av dem eller förändringar av deras koncentrationer är kopplade till sjukdomstillstånd, och därmed hjälper läkaren att ställa rätt diagnos. Dessutom kan de mycket specifika interaktionerna mellan antikroppar och (i princip) valfri substans användas för detektion av spårämnen vid miljösaneringsarbete, gränskontroller, polisarbete, fängelser och arbete med nationell säkerhet.

Den här avhandlingen beskriver hur polymeren polyetylenglykol (PEG) kan användas vid design av biochip. Ett biochip är en liten anordning, som kan användas för att detektera specifika molekyler med hjälp av en biologisk interaktion. Traditionellt har PEG använts inom biomaterialsektorn, men återfinns även i hygienartiklar som tvål och tandkräm. Ett annat användningsområde är konservering av bärgade träskepp och i en del litiumjonbatterier ingår PEG som en komponent. Dessutom pågår utveckling av PEG-innehållande skyddsvästar. I det här arbetet används PEG framför allt på grund av sin förmåga att minimera ospecifik inbindning av proteiner, som utgör en stor del av gruppen biomolekyler, till ytor på biochip. Två olika typer av ytbeläggningar, som innehåller den här polymeren, har använts. Den första typen ger mycket tunna (~0.000003 mm), tvådimensionella filmer medan den andra ger en något tjockare (~0.00005 mm), tredimensionell struktur (matris). De tvådimensionella filmerna har använts för att utveckla en sprängämnesdetektor med mycket hög känslighet (detektionsgräns mellan 1-10 ppb). En viktig beståndsdel i detta system är antikroppar riktade mot sprängämnet trinitrotoluen (TNT). Den tredimensionella matrisen är mer generell och kan användas för att studera många olika molekylära interaktioner. Tillverkningsmetoden av matrisen är baserad på belysning med ultraviolett ljus och är därmed lämpad för att skapa mönstrade ytor. Genom att blockera delar av ljusflödet begränsas tillväxten av matrisen till de belysta delarna. På så sätt har bland annat så kallade mikro-arrayer, bestående av mikrometerstora (tusendels millimeter) strukturer i ett regelbundet mönster, tillverkats. Tekniken tillåter även tillverkning av gradienter, där matrisens tjocklek varierar längs med provet, genom att belysa olika delar av provytan olika länge. Genom att undersöka dessa gradienter har information om matrisens genomsläpplighet för proteiner kunnat extraheras. Gradientkonceptet har även kombinerats med mikro-arraytillverkningen och gett möjlighet att studera interaktioner mellan flera olika modellproteiner och deras motsvarande antikroppar i olika tjocka matriser på en och samma yta.

Det finns ett stort antal sätt att utnyttja interaktionerna mellan olika molekyler på ett biochip. Ett tilltalande tillvägagångssätt är exempelvis att i en mikro-array binda in olika molekyler som kan fånga kliniskt intressanta biomolekyler, i syfte att skapa en hälsoprofil. Ett sådant biochip skulle ge möjlighet att parallellt detektera eller bestämma koncentrationen av ett stort antal biomolekyler i till exempel en droppe blod. På så sätt kan en diagnos snabbt ställas, kanske till och med utan att patienten behöver uppsöka sjukvården. Den utvecklade PEG-matrisen har god potential att fungera i en sådan applikation.

Place, publisher, year, edition, pages
Institutionen för fysik, kemi och biologi , 2007.
Series
Linköping Studies in Science and Technology. Dissertations, ISSN 0345-7524 ; 1111
Keyword [en]
Biosensor, biochip, poly(ethylene glycol), self-assembled monolayer, photopolymerisation, microarray, biomolecular interaction, explosives detection
National Category
Physical Sciences
Identifiers
URN: urn:nbn:se:liu:diva-9578ISBN: 978-91-85831-54-8 (print)OAI: oai:DiVA.org:liu-9578DiVA: diva2:24004
Public defence
2007-09-13, Planck, Fysikhuset, Campus Valla, Linköping, 10:15 (English)
Opponent
Supervisors
Available from: 2007-10-12 Created: 2007-10-12 Last updated: 2015-10-13
List of papers
1. A novel biochip technology for detection of explosives - TNT: Synthesis, characterisation and application
Open this publication in new window or tab >>A novel biochip technology for detection of explosives - TNT: Synthesis, characterisation and application
Show others...
2006 (English)In: Sensors and Actuators B: Chemical, ISSN 0925-4005, Vol. 113, no 2, 730-748 p.Article in journal (Refereed) Published
Abstract [en]

This contribution describes the synthesis, characterisation and evaluation of a novel biochip technology for the detection of the explosive substance 2,4,6-trinitrotoluene (TNT). Two types of thiols are self-assembled to produce the biochip on gold, namely oligo(ethylene glycol) (OEG)-alkyl thiols terminated with a hydroxyl group and a TNT-analogue (2,4-dinitrobenzene), respectively. Three different TNT-analogues are mixed in various proportions with hydroxyl-terminated OEG-thiols to obtain highly selective and sensitive biochips with a low non-specific binding. The produced self-assembled monolayers (SAMs) are thoroughly characterised with null ellipsometry, contact angle goniometry, infrared reflection absorption spectroscopy (IRAS) and X-ray photoelectron spectroscopy (XPS) and they all meet high standards in terms of molecular conformation, packing and orientation. The biochip is designed to function as a platform for a competitive label-free immunoassay and two real-time transducers – surface plasmon resonance (SPR) and quartz crystal microbalance (QCM) – are used to monitor the dissociation of on-line immobilised monoclonal antibodies produced against TNT. The three TNT-analogues are all potential candidates for the development of a functional biochip, though one of them displayed superior properties in terms of shorter recovery/stabilisation time after antibody immobilisation and a better response/loading capacity ratio. This is particularly evident when using low antigen (TNT-analogue) content in the mixed SAM.

Keyword
Explosives; Competitive immunoassay; Self-assembled monolayers; Quartz crystal microbalance; Surface plasmon resonance
National Category
Engineering and Technology
Identifiers
urn:nbn:se:liu:diva-14605 (URN)10.1016/j.snb.2005.07.025 (DOI)
Available from: 2007-10-12 Created: 2007-10-12 Last updated: 2015-10-13
2. Photografted poly(ethylene glycol) matrix for affinity interaction studies
Open this publication in new window or tab >>Photografted poly(ethylene glycol) matrix for affinity interaction studies
2007 (English)In: Biomacromolecules, ISSN 1525-7797, E-ISSN 1526-4602, Vol. 8, no 1, 287-295 p.Article in journal (Refereed) Published
Abstract [en]

A poly(ethylene glycol) (PEG)-based matrix for studies of affinity interactions is developed and demonstrated. The PEG matrix, less than 0.1 μm thick, is graft copolymerized onto a cycloolefin polymer from a mixture of PEG methacrylates using a free radical reaction initiated by UV light at 254 nm. The grafting process is monitored in real time, and characteristics such as thickness, homogeneity, relative composition, photostability, and performance in terms of protein resistance in complex biofluids and sensor qualities are investigated with null ellipsometry, infrared spectroscopy, and surface plasmon resonance. The matrix is subsequently modified to contain carboxyl groups, thereby making it possible to immobilize ligands in a controlled and functional manner. Human serum albumin and fibrinogen are immobilized and successfully detected by antibody recognition using surface plasmon resonance. The results are encouraging and suggest that the PEG matrix is suitable for biochip and biosensor applications in demanding biofluids.

National Category
Natural Sciences
Identifiers
urn:nbn:se:liu:diva-14606 (URN)10.1021/bm060685g (DOI)
Available from: 2007-10-12 Created: 2007-10-12 Last updated: 2017-12-13
3. Poly(ethylene glycol) gradient for biochip development
Open this publication in new window or tab >>Poly(ethylene glycol) gradient for biochip development
2007 (English)In: Langmuir, ISSN 0743-7463, E-ISSN 1520-5827, Vol. 23, no 22, 11319-11325 p.Article in journal (Refereed) Published
Abstract [en]

A novel method of producing a poly(ethylene glycol) (PEG)-based gradient matrix that varies gradually in thickness from 0 to 500 Å over a distance of 5−20 mm is presented. The gradient matrix is graft copolymerized from a mixture of PEG methacrylates onto organic thin films providing free radical polymerization sites initiated by UV irradiation at 254 nm. The films used as grafting platforms consist of either a spin-coated cycloolefin polymer or a self-assembled monolayer on planar gold. The thickness/irradiation gradient is realized by means of a moving shutter that slowly uncovers the modified gold substrate. The structural and functional characteristics of the gradient matrix are investigated with respect to thickness profile, degree of carboxylation, and subsequent immobilization of two model proteins of different sizes and shapes. These characteristics are studied with ellipsometry and infrared reflection−absorption microscopy using a grazing angle objective. It is revealed that the relatively small carboxylation agent used offers homogeneous activation throughout the gradient, even in the thick areas, whereas the diffusion/interpenetration and subsequent immobilization of large proteins is partially hindered. This is crucial information in biosensor design that can be easily obtained from a gradient experiment on a single sample. Moreover, the partially hindered protein interpenetration, the marginal swelling upon hydration, and the unspecific nature of the graft polymerization suggest a matrix growth mechanism that favors the formation of a bushlike polymer structure with a certain degree of cross linking.

National Category
Natural Sciences
Identifiers
urn:nbn:se:liu:diva-14607 (URN)10.1021/la700729q (DOI)
Available from: 2007-10-12 Created: 2007-10-12 Last updated: 2017-12-13
4. UV-patterned poly(ethylene glycol) matrix for microarray applications
Open this publication in new window or tab >>UV-patterned poly(ethylene glycol) matrix for microarray applications
2007 (English)In: Biomacromolecules, ISSN 1525-7797, E-ISSN 1526-4602, Vol. 8, no 11, 3511-3518 p.Article in journal (Refereed) Published
Abstract [en]

A versatile method to fabricate polymeric matrixes for microarray applications is demonstrated. Several different design strategies are presented where a variety of organic films, such as plastic polymers and self-assembled monolayers (SAMs) on planar silica and gold substrates, act as supports for the graft polymerization procedure. An ensemble of poly(ethylene glycol) methacrylate monomers are combined to obtain a matrix with desired properties:  low nonspecific binding and easily accessible groups for postimmobilization of ligands. The free radical graft polymerization process occurs under irradiation with UV light in the 254−266 nm range, which offers the possibility to introduce patterns by means of a photomask. The arrays are created on inert and homogeneous coatings prepared either by graft polymerization of a methoxy-terminated PEG−methacrylate or self-assembly of a methoxy-terminated oligo(ethylene glycol) thiol. Carboxylic acid groups, introduced in the array spots either during graft polymerization or upon wet chemical conversion of hydroxyls, grant the capability to immobilize proteins and other molecules via free amine groups. Immobilization of fluorescent species as well as biotin followed by exposure to a fluorescently labeled antibody directed toward biotin display both excellent integrity of the spots and low nonspecific binding to the surrounding framework. Beside patterns of uniform height and size, an array of spots with varying thickness (a sort of gradient) is demonstrated. Such gradient samples enable us to address critical issues regarding the mechanism(s) behind spatially resolved free radical polymerization of methacrylates. It also offers a convenient route to optimize the matrix properties with respect to thickness, loading capacity, protein diffusion/penetration, and nonspecific binding.

National Category
Natural Sciences
Identifiers
urn:nbn:se:liu:diva-14608 (URN)10.1021/bm700707s (DOI)
Available from: 2007-10-12 Created: 2007-10-12 Last updated: 2017-12-13
5. A hydrogel chip for biosensing studied by imaging surface plasmon resonance
Open this publication in new window or tab >>A hydrogel chip for biosensing studied by imaging surface plasmon resonance
Manuscript (Other academic)
Identifiers
urn:nbn:se:liu:diva-14609 (URN)
Available from: 2007-10-12 Created: 2007-10-12 Last updated: 2010-01-13

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