Local modification and laser-welding production of functionalized microfluidic chips
Rijo Carvalho, Rui - \ 2017
Wageningen University. Promotor(en): H. Zuilhof, co-promotor(en): E.X. Vrouwe; S.P. Pujari. - Wageningen : Wageningen University - ISBN 9789463431781 - 180
lasers - vloeistoffen (fluids) - microfluidics - glas - kanalen, klein - olefine - organische scheikunde - lasers - fluids - microfluidics - glass - channels - olefin - organic chemistry
The ability to locally functionalize the surface of glass and polymers allows for myriad biomedical and chemical applications. When we started this research enclosed surfaces such as microfluidic channels were not easily amenable to localized functionalization. Furthermore, pre-functionalization of microfluidic devices was incompatible with the typical high-temperature substrate bonding procedures. The work described in this thesis was performed to tackle these two issues.
In Chapter 1, an introduction is provided to concepts that are central to microfluidics and surface functionalization. Focus is given to techniques that allow for localized surface functionalization, specifically on silicon oxide and glass surfaces. Although contact methods are often easy and near-ubiquitously used, non-contact methods, such as photolithography, are preferred for scaled-up production and are compatible with enclosed surfaces. In addition, plastics – preferably so-called inert plastics – are emerging as a consistent and cheap substrate for the fabrication of microtechnologies. Therefore, previous methods for the modification of such plastics, e.g. cyclic olefin co-polymers (COC), are described. Most of these methods rely on harsh conditions, e.g. plasma, to oxidize the plastic surface. However, in solution there are reported methods to selectively oxidize C-H bonds on alkanes, under mild conditions. Solution-based procedures are much more compatible with enclosed structures when compared to methods relying on gases or plasmas, as the latter exhibit several diffusion issues. Finally, we address the emergence of laser-based techniques and other low-temperature glass bonding methods which will allow for the pre-functionalization of microfluidic devices prior to the bonding step of their fabrication. An outline of this thesis is provided at the end of the chapter.
In Chapter 2, we present the first example of a photochemical modification of hydrogen-terminated glass (H-glass) with terminal alkenes. Both flat glass surfaces and the inside of glass microchannels were modified with a well-defined, covalently attached organic monolayer using a range of wavelengths, including 302 nm ultraviolet light. Mechanistic studies of the surface modification showed that it proceeds via an anti-Markovnikov substitution. Reacting H-glass with 10-trifluoro-acetamide-1-decene (TFAAD) followed by basic hydrolysis afforded the corresponding primary amine-terminated monolayer, enabling additional functionalization of the substrate (with fluorescent nanoparticles). A microchannel was photochemically patterned with a functional linker allowing for surface-directed liquid flow, and a passive flow stop-valve. H-glass was shown to be modifiable with a functional tailor-made organic monolayer, has highly tunable wetting properties and presents potential for many applications that are explored in the following chapters.
In Chapter 3, we studied how to increase the wavelength used in the surface modification approach described in the previous chapter, from 302 to 328 nm. Thus, we show the direct photochemical coupling of a N-hydroxysuccinimide-terminated (NHS) ω-alkene onto hydrogen-terminated silicon oxide, and its subsequent functionalization with a catalytically active DNAzyme. In this chapter, we prepared hydrogen-phenyl-terminated glass (H-Φ-glass) by the reaction of glass with H-SiPhCl2. The presence of a radical-stabilizing substituent on the Si atom enabled the covalent modification of bare glass substrates and of the inside of glass microchannels with a functional organic monolayer that allowed direct reaction with an amine-functionalized bio-molecule. Using these NHS-based active esters on the surface, we performed a direct localized attachment of a horseradish peroxidase (HRP)-mimicking hemin/G-quadruplex (hGQ) DNAzyme complex inside a microfluidic channel. This wall-coated hGQ DNAzyme effectively catalyzed the in-flow oxidation of 2,2'-azino-bis(3-ethylbenzothiazoline-6-sulphonate) [ABTS] in the presence of hydrogen peroxide. This proof-of-concept of mild bio-functionalization will find use in myriad bio-relevant applications.
In Chapter 4, we explored the modification of plastics, such as cyclic olefin copolymer (COC), which are becoming an increasingly popular material for microfluidics. COC is used, in part, due to its (bio)-chemical resistance. However, its inertness and hydrophobicity can be a major downside for many bio-applications. In this chapter, we showed the first example of a surface-bound selective C-H activation of COC into alcohol C-OH moieties under mild aqueous conditions at room temperature. The nucleophilic COC-OH surface allowed for subsequent covalent attachments, such as of a H-terminated silane. The resulting hybrid material (COC-Si-H) was then modified via a photolithographic hydrosilylation in the presence of ω‑functionalized 1-alkenes to form a new highly-stable, solvent-resistant hybrid surface. The work described in this chapter shows great potential for multiple types of plastics, and further shows that the hydrosilylation chemistry described in the previous chapters can be applied onto a multitude of surfaces that contain nucleophilic groups (such as -OH), and thus be able to react with hydrogen-terminated silanes.
In Chapter 5, we explored low-temperature bonding methods of glass substrates. These methods are of great interest in the field of microfluidic-based biosensing. We evaluated how laser welding could be used for this, by studying how the compatibility of this technology with the, prior to bonding, modification of glass channels with temperature-sensitive materials. The effects of the welding process were studied by investigating the thermal degradation of a fluorescent monolayer throughout the bonding procedure. Furthermore, these leakage-free devices, as well as preliminary work using picosecond lasers, shows that there is a great potential for improvement and wide applicability.
In Chapter 6, we summarize the results obtained in this thesis. In addition, we discuss some ideas and topics where the research could either be improved or achieved via alternative approaches, including some leads from unfinished work that was performed within this project.
Molecular design, synthesis and evaluation of chemical biology tools
Hoogenboom, Jorin - \ 2017
Wageningen University. Promotor(en): Han Zuilhof, co-promotor(en): Tom Wennekes. - Wageningen : Wageningen University - ISBN 9789463430388 - 206
chemical biology - biology - tools - synthesis - organic chemistry - molecules - design - chemische biologie - biologie - gereedschappen - synthese - organische scheikunde - moleculen - ontwerp
Chapter 1 provides a perspective of synthetic organic chemistry as a discipline involved in the design, synthesis and evaluation of complex molecules. The reader is introduced with a brief history of synthetic organic chemistry, all the while dealing with different aspects of synthetic organic chemistry. These aspects include design, synthesis and evaluation of complex molecules, which are described with representative examples. For instance, chapter 1 described different strategies to design antibiotics like penicillin. Furthermore, efforts at the interface of chemistry and biology has led to the emerging of a new subdisciplines such as chemical biology. Although this discipline is relatively new, the scientific community has witnessed many breakthrough discoveries and some of these discoveries are highlighted in this chapter. After the general introduction presented in chapter 1, the following chapters of this thesis focus on the design, synthesis and evaluation of small molecular probes towards the study of proteins and glycans in plant and mammalian cells. Most of these probes are complex glycomimetic small molecules that in many instances are prepared with a nitrone-olefin [3+2] cycloaddition as a key step.
In chapter 2, a novel nitrone is presented for the nitrone-olefin [3+2] cycloaddition reaction. This reaction is a powerful tool in synthetic organic chemistry for the synthesis of a wide range of complex molecules. The versatile nature of the reaction is illustrated by the synthesis of several classes of natural product such as vitamins and alkaloids – all complex molecules containing multiple neighboring chiral centers – through the nitrone-olefin [3+2] cycloaddition. However, most nitrones that show good regio- and stereoselectivity are limited in their synthetic versatility, as subsequent synthetic modification of the cycloaddition products are limited. The nitrone described in chapter 2 is a novel masked aldehyde-containing nitrone. This nitrone is prepared by a simple and scalable procedure and can be combined with a diverse set of olefins and other dipolarophiles to afford a broad range of cycloadducts. These cycloadducts can be considered as a masked form of amino-aldehydes, which makes them interesting from a synthetic point of view as illustrated by several postcycloaddition modifications.
The nitrone-olefin [3+2] cycloaddition is also utilized in chapter 3 for the synthesis of glycomimetic building blocks. Glycomimetics such as iminosugars and pipecolic acids are found in nature and possess a variety of biological activities. The potential of glycomimetics have led to the development of drugs for the treatment of diseases such as type 2 diabetes, Gaucher disease and HIV. Chapter 3 describes how glycomimetic building blocks can be obtained through a nitrone-olefin [3+2] cycloaddition, providing different bicyclic isoxazolidines. These cycloadducts are synthetically versatile, as we report a set of reactions that allow selective modification at each functional position. Accordingly, these versatile bicyclic isoxazolidines enable the synthesis of different glycomimetic building blocks. For example, we were able to make a library of pipecolic acid derivatives – a popular drug-motif – via a one-pot Staudinger/aza-Wittig/Ugi three-component reaction.
The bicyclic isoxazolidines, discussed in chapter 3, are also reported in chapter 4. This chapter describes the development of a synthetic route towards an activity-based probe (ABP) to study the enzymatic activity of neuraminidases. Neuraminidases are a class of enzymes found in a range of organisms including mammals. The importance of neuraminidases is illustrated by the existence of a neuraminidase-related genetic disease, sialidosis. With no cure for this fatal disease being very limited, there is keen interest in the discovery of novel mechanisms to restore neuraminidase activity. The poor enzyme-activity of a different enzyme-related disease, Gaucher disease, could be improved through the identification of a small molecule that stabilizes and/or promotes the folding of the active enzyme. The validation of this small molecule was aided greatly by the development of a sensitive ABP targeting this disease specific enzyme. Accordingly, the development of a neuramidase-ABP would provide a diagnostic tool to study the activity of neuramidases and ultimately help identify small molecules that could increase the activity of mutant-neuraminidase molecules by stabilizing and/or promoting the folding of this enzyme. The synthesis of a carbocyclic neuraminidase ABP was the goal of chapter 4 and was approached by starting with the nitrone-olefin [3+2] cycloaddition as the key-step. This reaction provided a bicyclic cycloadduct that was used for the development of a synthetic route, which led to a high yielding and practical synthesis of an advance intermediate possessing the majority of the stereochemistry of the required carbocyclic neuraminidase ABP.
Chapter 5 describes the synthesis and evaluation of chemical tools to study phoshatidyl ethanolamine-binding proteins (PEBPs). This family of proteins is found in a variety of organisms including mammals and plants. This family includes FLOWERING LOCUS T (FT), a signaling protein that acts as a vital flowering hormone in plants. No small molecule inhibitors for FT are known, but an inhibitor called locostatin has been reported to bind in the highly conserved ligand binding site of a structurally related protein. Based on this conservation and overall structurally similarity with FT it was hypothesized that locostatin or derivatives thereof could covalently bind in the ligand binding pocket of FT and hence affect flowering. Chapter 5 reports on the synthesis of novel locostatin-based chemical PEBP probes, followed by evaluation for their ability and selectivity towards FT and a mammalian PEBP.
Chemical tools were also used to study plants in chapter 6, although different aspects of plants were investigated. This chapter describes the direct molecular imaging of carbohydrates (glycans) in Arabidopsis thaliana. Glycans play a crucial but not fully understood role in plant health and development. The formation of glycans is not genetically encoded, which makes it impossible to image them in vivo using genetically encoded fluorescent tags and related molecular biology approaches. A solution to this problem is the use of tailor-made glycans that are metabolically incorporated in plants via the roots, which may then be visualized with copper-catalyzed click labeling. However, this labelling-technique is toxic to plants and future applications would benefit from bio-orthoganol copper-free labeling techniques. Chapter 6 shows, for the first time in metabolic labeling and imaging of plant glycans, the potential of two copper-free click chemistry methods. These methods are bio-orthogonal and lead to more uniform labeling. Furthermore, this chapter also describes the metabolic incorporation of five novel monosaccharide probes in Arabidopsis thaliana roots and their imaging after (copper-free) fluorescent labeling.
Finally, chapter 7 contains a general discussion, critically summarizing the body of this thesis along with additional ideas and recommendations for further research.
Nanostructured imaging surface plasmon resonance biosensing
Joshi, Sweccha - \ 2017
Wageningen University. Promotor(en): Michel Nielen; Han Zuilhof, co-promotor(en): Teris van Beek. - Wageningen : Wageningen University - ISBN 9789463430203 - 164
methodology - techniques - biosensors - resonance - mass spectrometry - organic chemistry - physics - methodologie - technieken - biosensoren - resonantie - massaspectrometrie - organische scheikunde - fysica
The testing and further development of a prototype nanostructured imaging surface plasmon resonance (iSPR) biosensor, with a focus on surface modification and detailed characterization of the biosensor chip and in-field and at-line applicability in the food industry is described. Furthermore, a simplified coupling of SPR and MS is described that allows identification of the mycotoxins of interest along with any other cross-reacting analytes. Chapter 1 describes general information about SPR, SPR instruments along with their components, development of a multiplex SPR biosensor and coupling of SPR to mass spectrometry.
In Chapter 2, the surface modification, in-depth characterization and the antifouling performance of the nanostructured iSPR chip is described. Different types of polyethylene glycol (PEG) and zwitterionic polymers were chosen as antifouling chemistries. Various surface characterization techniques such as atomic force microscopy, scanning electron microscopy, water contact angle, X-ray photoelectron spectroscopy and direct analysis in real time high resolution mass spectrometry provided complementary information about the chip before and after the modification. Antifouling chemistry, an essential first step in the development of an SPR biosensor, prevents false positive results arising from non-specific binding of sample components to the SPR chip. Upon comparison of the surface modification and antifouling behavior with conventional flat SPR chips, the latter were only slightly better. Zwitterionic polymers and long chain PEG had the best antifouling performance. A proof-of-principle experiment was done to demonstrate the selective detection of streptavidin binding to a surface partially modified with biotin.
A 6-plex SPR assay for the detection of mycotoxins in barley was developed in Chapter 3. A benchmark double 3-plex assay was developed for the detection of deoxynivalenol (DON), zearalenone (ZEA), T-2 toxin (T-2), ochratoxin A (OTA), fumonisin B1 (FB1) and aflatoxin B1 (AFB1) using benchtop SPR instrument (Biacore). Preliminary in-house validation of the competitive inhibition assay developed using ovalbumin conjugates of the mycotoxins showed that the method is suitable for detection of DON, ZEA, T-2 and FB1 whereas further improvement is required for OTA and AFB1. The method was then transferred to the nanostructured iSPR, which although less sensitive than the benchtop SPR, was able to detect DON, T-2, ZEA and FB1 at the relevant levels.
In Chapter 4, the assay developed in Chapter 3 was further optimized and an entire assay along with in-house validation and measurement of naturally contaminated was developed using the nanostructured iSPR. The antifouling chemistry used in Chapter 3, PEG, was replaced by carboxymethylated dextran (CMD) that not only allowed direct immobilization of toxins but also helped to improve the stability of the chip whereby the chip could be used for more than 450 cycles. DON could be detected at the relevant levels in beer with minimal sample preparation whereas for OTA an enrichment step using solid phase extraction was required.
As demonstrated in Chapter 3 and 4, the nanostructured iSPR instrument can be used for screening of different mycotoxins in beer and related ingredients. However, SPR is not able to provide chemical information of the binding analyte especially in cases where the antibodies have cross-reactivity towards conjugates of the analyte. Therefore, a simplified coupling for SPR with ambient mass spectrometry was developed in Chapter 5. The method allowed identification of DON as well as its cross-reacting conjugates such as deoxynivalenol-3-glucoside and 3-acetyl DON.
The research presented in this thesis is an important step towards the use of the nanostructured iSPR instrument for label free in-field and at-line detection of various analytes. In Chapter 6, discussion of the main achievements of this thesis, challenges and future perspectives of the technology is described.
Organocatalysis in continuous flow
Berg, S.A. van den - \ 2016
Wageningen University. Promotor(en): Han Zuilhof, co-promotor(en): Tom Wennekes. - Wageningen : Wageningen University - ISBN 9789462576636 - 217
catalysis - organic chemistry - flow - microfluidics - alkenes - katalyse - organische scheikunde - stroming - microfluidics - alkenen
Continuous flow chemistry is an enabling technique in organic chemistry. Advantages include extremely fast mixing and heat transfer capabilities as well as rapid screening of reaction conditions. Combining continuous flow chemistry with solid-supported organocatalysis presents challenges that have been investigated in this thesis.
We have developed a technique to modify the surface of silicon carbide with alkenes using microwaves. Silicon carbide is an extremely tough bio-compatible material and is of interest as a solid support. By using monolayers of bifunctional alkenes we were able to perform follow-up reactions to attach other molecules of interest, thereby further modifying the surface chemistry of silicon carbide. The use of microwaves speeds up the attachment of monolayers by as much as sixteen times.
We have developed a new method for the surface functionalization of MCM-41, a type of mesoporous silica. Mesoporous silica is an interesting solid support for catalysts because of its large surface area. 1,7-octadiene can be covalently attached under mild conditions (24 h, 100 ºC). Follow-up thiol-ene click reactions can be performed using thiols. The use of 1,2-ethanedithiol leads to a material that can be reacted with the organocatalyst quinine, giving catalytically active mesoporous silica. This material was tested in flow and yielded full conversion of starting materials for the thio-Michael addition of 3-methoxythiophenol and 1-cyclohex-2-enone.
Sulfonic acid supported on mesoporous silica (SBA-15) made via co-condensation of a thiol-containing silica precursor was used in a packed-bed continuous flow setup. This solid-supported sulfonic acid efficiently catalyzes the protection and deprotection of various alcohols as the tetrahydropyranyl-, trimethylsilyl and dimethylphenylsilyl derivatives under continuous flow conditions. By passing the starting material (primary, secondary, benzylic and phenolic alcohols) together with the appropriate protecting group over the packed bed more than 100 mg of product was produced in flow.
Finally, the ring-opening polymerization of L-lactide using an organocatalyst was investigated. Using low catalyst loading and short residence times (0.25– 1.2% TBD catalyst, residence times as short as 2 s) well-defined poly(lactic acid) (PLA) is obtained with high (95–100%) monomer conversions and PDIs of typically 1.2. Use of the microreactor allows for a rapid screening of optimal reaction conditions, consistently yielding the optimal values for high conversion and low polydispersity. This quickly revealed that longer residence times will give rise to higher conversions and a concomitantly broader molecular weight distribution due to transesterification of the polymer backbone by TBD.
The organocatalytic, metal-free continuous flow method described is rapid and mild enough to allow the use of a PEG-5,000 macroinitiator (yielding block copolymers), exo-BCN alcohol and even a base-labile tetrazine-derived alcohol, the latter of which cannot be used under traditional batch conditions. The resulting BCN-PLA and tetrazine-PLA materials were readily functionalized with small molecules and large polymers bearing azides and norbornenes via SPAAC and inverse electron demand Diels-Alder click chemistry.
Despite the challenges that arise, the combination of continuous flow chemistry and (solid-supported) organocatalysis is a powerful concept that warrants further investigation.
Kleine deeltjes, grote kansen: nanotechnologie neemt een grote vlucht (Interview met Maarten Jongsma)
Smit, A. ; Jongsma, M.A. - \ 2012
WageningenWorld 4 (2012). - ISSN 2210-7908 - p. 34 - 39.
nanotechnologie - bionanotechnologie - smaak - moleculen - organische scheikunde - toegepast onderzoek - nanotechnology - bionanotechnology - taste - molecules - organic chemistry - applied research
Een elektronische tong, zeefjes die binnen een uur ziekmakende bacteriën detecteren, of moleculen die helpen bij het vinden en doden van tumoren. Wageningen UR timmert hard aan de weg met nanotechnologie – en onderzoekt meteen de mogelijke risico’s voor mens en natuur.
'Doorbreek de stilte rond nanotechnologie in voedsel'
Kampers, F.W.H. - \ 2012
Kennis Online 9 (2012)december. - p. 4 - 5.
nanotechnologie - voedseltechnologie - voedselveiligheid - organische scheikunde - toxiciteit - bionanotechnologie - houding van consumenten - nanotechnology - food technology - food safety - organic chemistry - toxicity - bionanotechnology - consumer attitudes
Levensmiddelenbedrijven vertellen liever niet dat hun eten uit de fabriek komt. Gevaarlijk, zegt Frans Kampers van de Agrotechnolgy & Food Sciences Group. Want als er iets misgaat, zal een ongeïnformeerde consument helemaal in paniek raken.
Organic monolayers on oxide-free silicon : self-assembly, functionalization, patterning and electronic characterization
Scheres, L.M.W. - \ 2010
Wageningen University. Promotor(en): Han Zuilhof. - S.l. : s.n. - ISBN 9789085856641 - 201
silicium - unimoleculaire films - organische verbindingen - zelf-assemblage - organische scheikunde - silicon - unimolecular films - organic compounds - self assembly - organic chemistry - cum laude
cum laude graduation (with distinction)
H-Bond stabilized columnar discotic liquid crystals
Paraschiv, I. - \ 2007
Wageningen University. Promotor(en): Ernst Sudhölter, co-promotor(en): Ton Marcelis; Han Zuilhof. - [S.l.] : S.n. - ISBN 9789085045588 - 150
chemische eigenschappen - synthese - vloeibare kristallen - organische scheikunde - chemical properties - synthesis - liquid crystals - organic chemistry
Since 1977, more than 2300 publications on discotic (disk-like) liquid crystalline materials have appeared. Discotic liquid crystals, which usually consist of polyaromatic molecules surrounded by long peripheral alkyl tails, can form liquid crystalline mesophases in a wide temperature range. Within these mesophases, the molecules self-assemble in large columnar stacks viap-stacking interactions between the aromatic cores. These assemblies can provide an efficient charge transport pathway, as indicated by their informal designation as " molecular-wires ". As a result, they nowadays attract significant interest for optoelectronic applications. Several possible applications where discotic liquid crystals could be used are field effect transistors (FETs), light emitting diodes (LEDs) and photovoltaic solar cells.In all the discotic materials described so far, the molecules inside the columns, can still rotate around the columnar axis, slide out of the columns or oscillate within the columnar stack. This represents a limitation of their applicability as " molecular-wires ". Therefore, in this research, an additional stabilization of columnar discotic mesophases was envisaged in order to increase their organization, without the frequently concomitant loss of processability that would result from extensions of the aromatic core. The research described in this thesis focuses on the stabilization of columnar mesophases by highly tunable (i.e. controlled) H-bonding interactions, without enlarging the aromatic cores and thus maintaining their processability. Functional H-bonding groups, such as urea, amide, thiourea or 1,3,5-benzenetrisamide, have been used in this work, in order to create a H-bonding network parallel to the columnar axis, alongside the existing π-π stacking interactions between the disk-like molecules.In Chapter 1 an overview of the different types of liquid crystalline phases is presented, with emphasis on the organization of columnar discotic mesophases. Since this work focuses on the hydrogen bond stabilization of the triphenylene-based discotic liquid crystals, the most important synthetic approaches towards these materials are discussed. Several of these methods were applied to prepare the materials investigated in Chapters 2 to 5. Besides the synthetic aspect, several characterization techniques, which are normally used to investigate the properties of the liquid crystal materials, are shortly discussed.Chapter 2deals withthe synthesis and thermotropic properties ofa series of hexaalkoxytriphenylenes that contain one amide, urea or thiourea group in one of their alkoxy tails, as H-bond forming group. The biphenyl route turns out to be the best with respect to yields and versatility, as compared to other methods. The optical polarization microscopy, differential scanning calorimetry and X-ray studies show that the intermolecular hydrogen bonding has a negative influence on the formation and stability of the columnar liquid crystalline phases: The stronger the hydrogen bonding, the more the liquid crystallinity is suppressed. This is probably due to disturbance of thep-pstacking of the triphenylene disks and a lower flexibility of the alkyl tails. So far, the urea and amide containing triphenylene derivatives do not exhibit liquid crystalline properties, probably because an H-bond stabilization of the crystalline state is obtained. However, several thiourea derivatives show columnar hexagonal (Col h ) mesophases, because in these compounds thep-pinteractions are more important than the relatively weak thiourea hydrogen bonding.Because in the columnar mesophases the motions of the aromatic core and the alkyl tails are strongly correlated, the length of the alkyl chains, which surround the disk-like aromatic cores, is an important factor that determines the stability of the columns. Since in the previous chapter long substituents carrying an urea, amide or thiourea group have been used, a complementary study, with focus on the synthesis and phase behavior of unsymmetrically substituted hexaalkoxytriphenylenes, is described in Chapter
Uptake of sediment-bound bioavailable polychlorobiphenyls by benthivorous carp (Cyprinus carpio)
Moermond, C.T.A. ; Roozen, F.C.J.M. ; Zwolsman, J.J.G. ; Koelmans, A.A. - \ 2004
Environmental Science and Technology 38 (2004)17. - ISSN 0013-936X - p. 4503 - 4509.
sediment - biologische beschikbaarheid - polychloorbifenylen - benthos - karper - zoetwatervissen - meren - waterinvertebraten - chemicaliën - opname (uptake) - organische scheikunde - ecotoxicologie - waterbodems - sediment - bioavailability - polychlorinated biphenyls - benthos - carp - freshwater fishes - lakes - aquatic invertebrates - chemicals - uptake - organic chemistry - ecotoxicology - water bottoms - hydrophobic organic contaminants - aquatic food webs - contact time - pore-water - ingested sediment - extraction - lake - pollutants - fish
It is unclear whether accumulation of sediment-bound chemicals in benthivorous fish depends on the degree of sequestration in the sediment like it does for invertebrates. Here, we report on the potential of slow and fast desorbing sediment-bound polychlorobiphenyl (PCB) fractions for accumulation in carp (Cyprinus carpio) in lake enclosures treated with different nutrient doses
It is unclear whether accumulation of sediment-bound chemicals in benthivorous fish depends on the degree of sequestration in the sediment like it does for invertebrates. Here, we report on the potential of slow and fast desorbing sediment-bound polychlorobiphenyl (PCB) fractions for accumulation in carp (Cyprinus carpio) in lake enclosures treated with different nutrient doses. Routes of PCB uptake were quantitatively evaluated for 15 PCBs (log K-0W range 5.6-7.8) using model analysis. Fast-desorbing PCB fractions in the sediment were defined as the ratio of 6-h Tenax-extractable to (total) Soxhlet-extractable concentrations. These fractions varied between 4 and 22% and did not show a clear trend with log K-0W. However, bioaccumulation of PCBs in carp correlated much better with Tenax-extractable concentrations than with total-extractable concentrations. Nutrient additions in the enclosures had a positive effect on PCB accumulation. Model results show that PCB uptake in carp can be explained from (1) uptake through invertebrate food, (2) uptake from fast-desorbing fractions in ingested sediments, and (3) uptake from water, where PCBs are in partitioning equilibrium with fast-desorbing fractions. The main implication of this research is that fast-desorbing PCB fractions in sediments have great predictive potential for bioaccumulation in benthivorous fish.
Seed development and carbohydrates
Wittich, P.E. - \ 1998
Agricultural University. Promotor(en): M.T.M. Willemse; A.A.M. van Lammeren; C.J. Keijzer. - Wageningen : Wittich - ISBN 9789054858553 - 178
zaadzetting - zaden - formatie - plantenfysiologie - plantenontwikkeling - vruchten - rijp worden - planten - embryologie - metabolisme - plantenvoeding - assimilatie - koolhydraten - vicia faba - gasteria verrucosa - organische scheikunde - seed set - seeds - formation - plant physiology - plant development - fruits - ripening - plants - embryology - metabolism - plant nutrition - assimilation - carbohydrates - vicia faba - gasteria verrucosa - organic chemistry
Seeds assure the plant the onset of a next generation and a way of dispersal. They consist of endosperm and an embryo (originating from gametophytic tissue), enveloped by a seed coat (sporophytic tissue). Plants generate different types of seeds. For instance, the endosperm may either be consumed by the embryo during seed development or retained for use by the embryo during germination. Differences in timing of endosperm digestion can be illustrated with broad bean ( Vicia faba ) and Gasteria verrucosa . Broad bean forms seeds in which the endosperm has been consumed by the fully developed embryo, while the embryo of Gasteria is less developed and surrounded by a large amount of endosperm for use during germination.
An important factor in seed development is the distribution, storage, and utilization of carbohydrates, since carbohydrates are a major source of energy for cell growth. In this thesis the carbohydrate distribution is studied in developing ovules and seeds of maize ( Zea mays ) and Gasteria , by identifying the cells and tissues in which sucrose is degraded. Sucrose is the main carbohydrate supplied by these plants in the developing seeds. The sucrose degrading activity of the enzymes sucrose synthase and invertase indicates the destination of the sucrose transport (Chapters 9 and 10). Immunocytochemical and histochemical techniques are used for the localization of these enzymes in situ .
The results obtained in this study on maize (Chapter 2 and 3) and Gasteria seed development (Chapters 4 and 5) show a general pattern of carbohydrate transport. First, the greatest amount of carbohydrates is applied for the development of the seed coat and nucellus (sporophytic tissues). An example of such a carbohydrate consuming process is the deposition of phytomelan in the seed coat of Gasteria . Phytomelan is a black cell wall component and chemically very inert. Histochemical and electron microscopy observations (Chapters 6 and 7) show that callose forms a mould for the deposition of phytomelan. The breakdown products of callose (glucose monomers and polymers) seem to be used for the synthesis of the phytomelan. Chemical analysis reveals that phytomelan is a complex polyphenolic polymer, and not a melanin (Chapter 8). Second, carbohydrate transport to the sporophytic tissues is followed by transport of most carbohydrates into the endosperm. These carbohydrates will be used for endosperm growth and for storage. Finally the main carbohydrate flow will go to the embryo. The pattern of carbohydrate usage observed in maize and Gasteria was used to generate a general model for angiosperm seed development (Chapter 10). The model explains differences between seeds by relating carbohydrate distribution during seed development to the timing of seed dispersal.
Fermentatie van brijvoeders en bijproducten tijdens opslag
Rijnen, M. ; Scholten, R. - \ 1997
Praktijkonderzoek varkenshouderij 11 (1997)5. - ISSN 1382-0346 - p. 6 - 6.
voer - enzymen - fermentatie - voedselindustrie - bijproducten - zetmeelverwerkende industrie - glycolzuur - melkzuur - lactonen - ethanol - voedingswaarde - vloeibare voedering - organische scheikunde - feeds - enzymes - fermentation - food industry - byproducts - starch industry - glycolic acid - lactic acid - lactones - ethanol - nutritive value - liquid feeding - organic chemistry
Er zijn aanwijzingen dat vloeibare bijproducten en brijvoeders gaan gisten (fermenteren) tijdens opslag, waarbij onder andere organische zuren, melkzuur en alcohol worden gevormd. Dit kan enerzijds de voederwaarde van het product en anderzijds de gezondheid van het dier beonvloeden.
|Sampling and efficient data use for characterizing polluted areas.
Stein, A. - \ 1997
In: Pollution assessment and control / Barnett, V., Turkman, K.F., - p. 45 - 69.
bodem - zware metalen - fysicochemische eigenschappen - bodemeigenschappen - bodemchemie - koolwaterstoffen - organische scheikunde - geostatistiek - soil - heavy metals - physicochemical properties - soil properties - soil chemistry - hydrocarbons - organic chemistry - geostatistics
|Biologische monitoring zoete rijkswateren : microverontreinigingen in driehoeksmosselen 1993
Pieters, H. ; Verboom, B.L. - \ 1994
IJmuiden : RIVO-DLO (RIVO rapport C004/94) - 49
biologische technieken - kanalen - koolwaterstoffen - mossels - mytilidae - nederland - rivieren - waterlopen - oppervlaktewater - water - waterverontreiniging - waterkwaliteit - biologische monitoring - organische scheikunde - biological techniques - canals - hydrocarbons - mussels - mytilidae - netherlands - rivers - streams - surface water - water - water pollution - water quality - biomonitoring - organic chemistry
Simulation of subsurface biotransformation
Bosma, T.N.P. - \ 1994
Agricultural University. Promotor(en): A.J.B. Zehnder; G. Schraa. - S.l. : Bosma - ISBN 9789054852216 - 136
microbiële afbraak - geologie - biologie - bodembacteriën - organische verbindingen - organische scheikunde - microbial degradation - geology - biology - soil bacteria - organic compounds - organic chemistry
Hydrophobic organic contaminants like DDT, Polychlorobiphenyls (PCB's) and polyaromatic hydrocarbons (PAH's), have been detected all over the world. They tend to accumulate in the atmosphere and in the soil as a result of their physical and chemical properties. Breakdown mainly proceeds by (photo)chemical reactions in the atmosphere and via microbial transformation in the soil. Microbial transformation can be viewed as part of the ecological process of decomposition, that is, the remineralization of organic material by biota. This Chapter discusses the ecological significance of biotransformation and the dependence of biotransformation rates on enviromnental conditions, and suggests ways to improve the effectiveness of biological soil remediation techniques.
Contaminant cycling in ecosystems
Plants and animals are not always able to detoxify or excrete contaminants after uptake. The inability of organisms to handle xenobiotic compounds may have several causes. One example is the absence of appropriate enzymes to transform the compounds, another the accumulation in (animal) fat tissue before excretion or enzymatic transformation has taken place. Contaminants accumulate in the food chain when organisms are not able to detoxify or excrete them. Accumulation is indicated by the use of different grey shades in Fig. S. 1.
The population of "decomposers" (Fig. S. 1) is specialized in the uptake and conversion of all kinds of dead organic material, like for instance dead animals and plant debris. Decomposers are crucial for the functioning of ecosystems because they recycle nutrients to the nutrient pool. Contaminants which are accumulated in the tissue of organisms are recycled to the contaminant pool simultaneously. Some bacteria and fungi are able to detoxify and mineralize man-made organic compounds like chlorinated benzenes and polyaromatic hydrocarbons. Thus, they prevent their accumulation in the environment. These microorganisms may therefore be viewed as the "decontaminators" of ecosystems (Fig. S. 1), Many micro-organisms live in soil and ground water where hazardous compounds may accumulate. Microbial transformation is the only mechanism leading to the effective detoxification of such compounds. Therefore, it is of interest to know under which environmental conditions biotransformation is inhibited or stimulated. The potential of micro- organisms to transform contaminants under various environmental conditions is discussed in the following together with the factors governing exposure of micro-organisms to contaminants in soil and ground water.
Potential of micro-organisms to transform organic contaminants
Many non-chlorinated organic compounds can be mineralized by aerobic bacteria. Well documented examples are simple aromatic compounds like benzene, toluene, and xylenes. ,More complicated aromatic structures like PAH's are also susceptible to aerobic degradation. Heavily chlorinated compounds are not readily degraded under aerobic conditions. However, anaerobic bacteria have a great potential to dehalogenate all kinds of such chemicals. Dehalogenation changes the environmental impact of the parent compounds considerably. Partly dechlorinated compounds are often more toxic and more mobile than the original compounds. The carcinogenic compound vinylchloride for example, may arise from the anaerobic dechlorination of tetra- and trichloroethene (PER and TRI). The anoxic transformation products are often biodegradable under aerobic conditions. The increased mobility of the more toxic products allows them to travel to aerobic environments where they
Most of the information regarding the potential of micro-organisms to degrade organic contaminants is obtained from laboratory studies at 20°C. Studies carried out at temperatures down to 4°C, reveal only a slight temperature dependency of aerobic biotransformation rates. Anaerobic dehalogenation rates are reduced and intermediary dehalogenation products accumulate at lower temperatures. It seems that activities of aerobic micro-organisms involved in these processes are less dependent on temperature than those of anaerobes. Therefore, the aerobic removal rates of non- or partly halogenated compounds may be similar in summer and in winter in natural systems, while heavily halogenated compounds will tend to persist more in winter because of the reduced activity of anaerobes.
A microscopic view of soil pollution and micro-organisms
Soil is polluted from point sources like for instance accidental spills and landfills (local pollution), or from non-point sources like atmospheric deposition and application of pesticides (diffuse pollution). The general characteristic of a local pollution is the presence of high contaminant concentrations in a small volume of soil (Fig. S.2A, upper part). Diffuse pollution is characterized by low contaminant concentrations over a wide area (Fig. S.2B, upper part). The lower part of Fig. S.2 schematically shows the local distribution of micro-organisms and contaminants in both situations. Bacteria are normally present inside soil aggregates. Low concentrations of contaminants flow around these aggregates in the case of diffuse pollution (Fig. S.2B). Local pollution initially contaminates pores around soil aggregates. The easily accessible part in wide pores may be biotransformed rapidly until nutrients become exhausted. This leads to a rapid growth of bacteria in the wide pores. Pollutants which are not biotransformed initially will diffuse into the aggregates. Thus, a situation arises with relatively high numbers of bacteria surrounding contaminated aggregates (Fig. S.2A). Degradation activity is drastically reduced as a result of spatial separation. A similar situation may arise when spots containing pure contaminant exist, where no biological activity is possible anymore. Hence, micro-organisms and contaminants are spatially separated both in the case of local and diffuse pollution. Biotransformation can only take place after diffusion of contaminant through the soil matrix to the micro-organisms.
Computer calculations based on the concept presented in Fig. S.2 show that intra-aggregate processes of sorption and diffusion are of primary importance in determining the kinetics of biotransformation in soil. Effective diffusion rates in soil aggregates can be up to 1-10 orders of magnitude smaller than in water, depending on the characteristics of the soil matrix. As a consequence, biotransformation rates in different soils are subject to the same variation. When the diffusivity in soil aggregates is small, a steep concentration gradient is needed to maintain a flux of nutrients and contaminants that is sufficient to sustain microbial activity. As soon as the contaminant concentration drops below the value that is needed to maintain the gradient, biotransformation will stop. This threshold concentration is inversely proportional to the effective diffusion rate of contaminant. So, residual concentrations after biotransformation are expected to differ by many orders of magnitude, just like the biotransformation rates do.
Optimization of bioremediation techniques to relieve limitation of biotransformation
Dissolution rates of undissolved pollutants may be enhanced by dispersing the pure component through the soil, and by the addition of surfactants that increase maximum dissolution rates. These methods have been shown to increase biotransformation rates in practice. However, surfactants do not dissolve bound residues which are covalently bound to organic matter. In addition, they do not increase diffusion rates in small, highly tortuous pores, The existence of bound residues and the extremely slow diffusion rates are causes for high residual concentrations that remain after bioremediation. Therefore, surfactants are not expected to decrease these residual concentrations.
The possible application of procedures that enhance bound residue formation as means of bioremediation is disputed. It can be argued that pollutants which are present as bound residues are not hazardous anymore, having lost their specific chemical characteristics. Thus, they have also lost their biological activity. However, pollutants not only bind to the humus fraction of the soil, but also to dissolved or colloidal fractions of soil organic matter. This may lead to a mobilization of pollutants instead of the intended immobilization. In addition, dioxinlike products are formed when pollutants with phenolic or carboxylic groups bind to each other. The use of applications involving enhancement of bound residue formation requires that the possible hazards are better understood and that ways are provided to prevent them.
Considerable residual concentrations will always remain after bioremediation of "aged" pollutions, due to strong sorption and incorporation in organic matter, unless special measures are taken to mobilize the pollutants. In an ex situ scheme, the soil may be pulverized to increase biotransformation rates and decrease residual concentrations. It is imaginable to remove the mobile fraction of pollutant in a relatively short time via a biological treatment during in situ remediation. The residual immobilized fraction which is trapped inside soil aggregates is biologically and chemically inactive. It should be sufficient to monitor and control pollutants that are slowly desorbing from the soil aggregates in an "after-care" phase. An approach may be to monitor the concentration level in the macropores continuously and to stimulate biotransformation by the addition of nutrients as soon as some critical level is reached. An alternative would be to apply a slow pump-and-treat method continuously, The after-care phase can be stopped as soon as total pollution concentrations in the soil are below acceptable limits.
New pollutions have to be treated biologically as soon as possible to achieve optimal results because long contact times between pollutants and soil have a negative effect on the expected result of bioremediation. A possible strategy is to include biological soil treatment in human activities which almost inherently lead to soil pollution with organic chemicals. Thus, the establishment of a strong association between contaminants and soil can be prevented. This strategy has shown to be effective at tank stations where leaking of benzine or diesel is unavoidable.
Introduction of specialized bacteria is used as a strategy to enhance the biotransformation of compounds that are not degraded by the indigenous microflora. The success of the addition of micro- organisms depends on their ability to reach the contamination, to survive, and to carry out the desired reaction. A better understanding and control of the transport of bacteria in soil and ground water will help to optimize techniques for bioremediation which employ introduced bacteria. Surface characteristics of bacteria and soil particles together with the ionic strength of the flowing water control the transport of bacteria under saturated flow conditions. The adhesion of bacteria to soil particles is positively correlated with the hydrophobicity of bacteria and the ionic strength of the flowing water. Hence, the ionic strength of the water in which bacteria are introduced can be used to control microbial transport and attachment. If a low ionic strength is used, bacteria may travel long distances and disperse around the point where they are introduced. On the other hand, a high ionic strength will generally stimulate the attachment of bacteria to the solid phase and may prevent bacteria from moving away from the polluted site.
From an ecological stand-point, it can be argued that production and release rates of toxicants have to be smaller than in situ biotransformation rates to keep environmental pollution within acceptable limits. Treatment as close to the source as possible during the manufacturing and use of chemicals will be an important strategy to reach such a goal. The use of pesticides should be regulated such that the amount applied in a growth. season is completely transformed in situ in the same season.
Effecten van stoffen op de Nederlandse natuur : een inventarisatie
Elbers, M.A. ; Douben, P.E.T. - \ 1993
Wageningen : IBN-DLO (IBN - rapport 005) - 92
milieu - verontreinigende stoffen - verontreiniging - nadelige gevolgen - koolwaterstoffen - zware metalen - wildbescherming - flora - fauna - wild - bescherming - conservering - nederland - ecotoxicologie - bioaccumulatie - milieuhygiëne - organische scheikunde - environment - pollutants - pollution - adverse effects - hydrocarbons - heavy metals - wildlife conservation - flora - fauna - wildlife - protection - conservation - netherlands - ecotoxicology - bioaccumulation - environmental hygiene - organic chemistry
|Biodegradatie ten dienste van bodemsanering, landbouw en drinkwaterwinning.
Schraa, G. ; Berg, R. van den - \ 1992
Bodem 2 (1992)1. - ISSN 0925-1650 - p. 20 - 24.
luchtverontreiniging - koolwaterstoffen - microbiële afbraak - bodemverontreiniging - biodegradatie - organische scheikunde - air pollution - hydrocarbons - microbial degradation - soil pollution - biodegradation - organic chemistry
Geordende moleculen in perspectief
Sudhölter, E.J.R. - \ 1991
Wageningen : Landbouwuniversiteit - 20
chemie - organische scheikunde - moleculen - chemistry - organic chemistry - molecules
Rede Wageningen, 16 mei 1991
|Bepaling van vluchtige vetzuren en ethanol in kuilextracten
Huisert, H. ; Spoelstra, S.F. - \ 1988
Lelystad : IVVO (Intern rapport / IVVO no. 247) - 13
samenstelling - voer - koolwaterstoffen - kuilvoer - organische scheikunde - composition - feeds - hydrocarbons - silage - organic chemistry
Problematiek bij de analyse van sterolen met betulinol als interne standaard
Kamp, H.J. van der; Muuse, B.G. - \ 1987
Wageningen : RIKILT (Rapport / RIKILT 87.50) - 10
steroïden - alcoholen - analytische methoden - organische scheikunde - steroids - alcohols - analytical methods - organic chemistry
ISO, IDF en EEG werken aan methoden waarbij de sterolen in % m/m op vetbasis bepaald worden. Hierbij wordt gebruik gemaakt van betulinol als interne standaard. Uit internationale tussenlaboratoriumonderzoeken blijkt dat de sterolsamenstelling m.b.v. gaschromatografie nauwkeurig en reproduceerbaar vastgesteld kan worden. Ook het gehalte aan sterolen in massaprocenten op vetbasis is goed herhaalbaar te bepalen doch de reproduceerbaarheld is zeer slecht. Dit rapport beschrijft stapsgewijs het onderzoek van de methode met interne standaard.
Oplosbaarheden en aktiviteitscoefficienten van apolaire organische stoffen opgelost in water
Bosman, H.F.P.M. - \ 1986
Wageningen : ICW (Nota / Instituut voor Cultuurtechniek en Waterhuishouding no. 1688) - 29
kanalen - chemische eigenschappen - schade - milieu - koolwaterstoffen - rivieren - oplossingen - waterlopen - oppervlaktewater - water - waterverontreiniging - organische scheikunde - canals - chemical properties - damage - environment - hydrocarbons - rivers - solutions - streams - surface water - water - water pollution - organic chemistry