Monooxygenase Diversity and Oxygen Activation within Polyketide Antibiotic Biosynthesis

Molecular oxygen (O2) is a key component in cellular respiration and aerobic life. Through the redox potential of O2, the amount of free energy available to organisms that utilize it is greatly increased. Yet, due to the nature of the O2 electron configuration, it is non-reactive to most organic molecules in the ground state. For O2 to react with most organic compounds it must be activated. By activating O2, oxygenases can catalyze reactions involving oxygen incorporation into organic compounds. The oxygen activation mechanisms employed by many oxygenases to have been studied, and they often include transition metals and selected organic compounds. Despite the diversity of mechanisms for O2 activation explored in this thesis, all of the monooxygenases studied in the experimental part activate O2 through a transient carbanion intermediate. One of these enzymes is the small cofactorless monooxygenase SnoaB. Cofactorless monooxygenases are unusual oxygenases that require neither transition metals nor cofactors to activate oxygen. Based on our biochemical characterization and the crystal structure of this enzyme, the mechanism most likely employed by SnoaB relies on a carbanion intermediate to activate oxygen, which is consistent with the proposed substrate-assisted mechanism for this family of enzymes. From the studies conducted on the two-component system AlnT and AlnH, both the functions of the NADH-dependent flavin reductase, AlnH, and the reduced flavin dependent monooxygenase, AlnT, were confirmed. The unusual regiochemistry proposed for AlnT was also confirmed on the basis of the structure of a reaction product. The mechanism of AlnT, as with other flavin-dependent monooxygenases, is likely to involve a caged radical pair consisting of a superoxide anion and a neutral flavin radical formed from an initial carbanion intermediate. In the studies concerning the engineering of the S-adenosyl-L-methionine (SAM) dependent 4-O-methylase DnrK and the homologous atypical 10-hydroxylase RdmB, our data suggest that an initial decarboxylation of the substrate is catalyzed by both of these enzymes, which results in the generation of a carbanion intermediate. This intermediate is not essential for the 4-O-methylation reaction, but it is important for the 10-hydroxylation reaction, since it enables substrate-assisted activation of molecular oxygen involving a single electron transfer to O2 from a carbanion intermediate. The only role for SAM in the hydroxylation reaction is likely to be stabilization of the carbanion through the positive charge of the cofactor. Based on the DnrK variant crystal structure and the characterizations of several DnrK variants, the insertion of a single amino acid in DnrK (S297) is sufficient for gaining a hydroxylation function, which is likely caused by carbanion stabilization through active site solvent restriction. Despite large differences in the three-dimensional structures of the oxygenases and the potential for multiple oxygen activation mechanisms, all the enzymes in my studies rely on carbanion intermediates to activate oxygen from either flavins or their substrates. This thesis provides interesting examples of divergent evolution and the prevalence of carbanion intermediates within polyketide biosynthesis. This mechanism appears to be recurrent in aromatic polyketide biosynthesis and may reflect the acidic nature of these compounds, propensity towards hydrogen bonding and their ability to delocalize π-electrons.

Therapeutic Properties of Superoxide Dismutase 3 and Mesenchymal Stromal Cells in Peripheral Ischemia

The aim of this study was to characterize the cellular mechanisms leading to the beneficial effect of anti-oxidative gene therapy and pro-angiogenic stem cell therapy in acute peripheral ischemia. Post-ischemic events aim to re-establish tissue blood perfusion, to clear cellular debris, and to regenerate lost tissue by differentiation of satellite cells into myoblasts. Although leukocytes have an essential role in clearing cellular debris and promoting angiogenesis, they also contribute to tissue injury through excessive ROS production. First, we investigated the therapeutic properties of extracellular superoxide dismutase (SOD3) gene transfer. SOD3 was shown to reduce oxidative stress, to normalize glucose metabolism, and to enhance cell proliferation in the ischemic muscle. Analysis of the mitogenic Ras-Erk1/2 pathway showed SOD3 mediated induction offering a plausible explanation for enhanced cell proliferation. In addition, SOD3 reduced NF-κB activity by enhancing IκBα expression thus leading to reduced expression of inflammatory cytokines and adhesion molecules with consequent reduction in macrophage infiltration. Secondly, we sought to determine the fate and the effect of locally transplanted mesenchymal stem/stromal cells (MSCs) in acute ischemia. We showed that a vast majority of the transplanted cells are cleared from the injury site within 24 hours after local transplantation. Despite rapid clearance, transplantation was able to temporarily promote angiogenesis and cell proliferation in the muscle. Lack of graft-derived growth factor expression suggests other than secretory function to mediate this observed effect. In conclusion, both SOD3 and MSCs could be utilized to alleviate peripheral ischemia induced tissue injury. We have described a previously unidentified growth regulatory role for SOD3, and suggest a novel mechanism whereby transplanted MSCs enhance the reparative potential of the recipient tissue through physical contacts.

Superoxide dismutase 3-mediated cell survival and proliferation

This dissertation studies the signaling events mediated by the extracellular superoxide dismutase (SOD3). SOD3 is an antioxidant enzyme which converts the harmful superoxide into hydrogen peroxide. Overproduction of these reactive oxygen species (ROS) in the cellular environment as a result of tissue injury or impaired antioxidant defense system has detrimental effects on tissue integrity and function. However, especially hydrogen peroxide is also an important signaling agent. Ischemic injury in muscle causes acute oxidative stress and inflammation. We investigated the ability of SOD3 to attenuate ischemia induced inflammation and to promote recovery of skeletal muscle tissue. We found that SOD3 can downregulate the expression of several inflammatory cytokines and cell adhesion molecules thus preventing the accumulation of oxidant-producing inflammatory cells. Secondly, SOD3 was able to promote long-term activation of the mitogenic Erk pathway, but increased only briefly the activity of pro-survival Akt pathway at an early stage of ischemic inflammation, thus reducing apoptosis. SOD3 is a prominent antioxidant in the thyroid gland where oxidative stress is constantly present. We investigated the role of SOD3 in normal thyroid follicular cells and the changes in its expression in various hyperproliferative disorders. We first showed that SOD3 is TSH-responsive which indicated its participation in thyroid function. Its principal function seems to be in follicular cell proliferation since knockdown cells were deficient in proliferation. Additionally, it was overexpressed in goiter tissue. However, SOD3 was consistently downregulated in thyroid cancer cell lines and tissues. In conclusion, SOD3 is involved in tissue maintenance, cell proliferation and inflammatory cell migration. Its mechanisms of action are the activation of known proliferation/survival pathways, inhibition of apoptosis and regulation of adhesion molecule expression.

Rehun kationi-anionitasapainon vaikutus lypsylehmien kalsium-aineenvaihduntaan poikimavaiheessa laidunkaudella

Summary: Effect of dietary cation-anion balance on Ca metabolism at parturition of dairy cows fed fresh grass based diets during the dry period

Jäähdytykseen ja täyssuolanpoistoon perustuva lauhteen puhdistus soodakattilalaitoksella

Tämän diplomityön oleellisempana tavoitteena oli tutkia ioninvaihtohartsien pitkäaikaista toiminnallista lämpötilakestävyyttä kirjallisuustutkimuksin ja kuormituskokein. Lisaksi työssä optimoitiin taloudellisesti ja teknisesti paras kytkentävaihtoehto soodakattilan lauhteenpuhdistuslaitokselle. Tässä diplomityössä selvitettiin myös soodakattilan ulospuhallusveden sisältämien veden jälkiannostelukemikaalien ja epäpuhtauksien vaikutusta ioninvaihtohartsien vanhenemiseen.; Ioninvaihtohartsien lämpötilakestävyyteen liittyvät koeajot suoritettiin Stora Enso Laminating Papers Oy Kotkan tehtaalla. Koeajoja varten oli erikseen suunniteltu koeajolaitteisto, jossa lauhdenäytettä puhdistettiin patruunasuotimella ja sekavaihtimella. Sekavaihtimessa käytettiin vahvoja anioni- ja kationihartseja. Koeajoja oli yhteensä neljäkappaletta ja niissä tutkittiin hartsien lämpötilakestävyyttä ja anionihartsin silikaatti-vuodon riippuvuutta lämpötilasta. Lämpötilakestävyyskoeajoissa käytetyt hartsit lähetettiin Rohm and Haasille analysoitavaksi. Lopulta koeajojen tuloksia verrattiin kirjallisuudessa esitettyihin aikaisempiin tutkimuksiin. Lauhteenpuhdistuslaitoksen kytkentävaihtoehtojen optimoinnissa käytettiin apuna Kotkan ja UPM-Kymmene Oyj Pietarsaaren tehtaiden kokemuksia. Kytkentävaihtoehtojen energiataseet laskettiin kuudelle eri laitokselle, joiden syöttöveden virtaukset olivat 37 -180 kg/s. Lisaksi selvitettiin kytkentävaihtoehtojen investointikustannukset ja kertakäyttöhartsien vuotuiset kustannukset laitokselle, jossa syöttöveden virtaus oli 67 kg/s. Ulospuhalluksen talteenottojärjestelmän energiataseet laskettiin kuudelle eri laitokselle, joiden syöttöveden virtaukset olivat 37 - 180 kg/s. Laskelmien lähtökohtana käytettiin kunkin soodakattilan ulospuhallusveden määriä, jotka selvitettiin tehdasvierailujen yhteydessä. Ulospuhallusveden epäpuhtauksien ja jälkiannostelukemikaalien pitoisuudet arvioitiin kattilaveden perusteella. Aikaisempien kokemusten perusteella arvioitiin, että ulospuhallusvesi johdettaisiin lisäveden valmistukseen ennen suolanpoistosarjoja. loninvaihtohartsien kuormituskokeiden ja kirjallisuustutkimusten perusteella oli selkeästi nähtävissä, että etenkin anionihartsin kapasiteetti heikkeni nopeasti lämpötilan ollessa yli 60 °C. Kationihartsin suolanpoistolle kriittinen lämpötilaraja on 100 °C.Lisäksi yli 60 °C:ssa anionihartsi ei pysty poistamaan silikaattia lauhteesta. Seuraavaksi on esitelty lauhteenpuhdistuslaitoksen optimikytkentävaihtoehdot sekä vanhoille että uusille laitoksille. Vanhalle laitokselle, jossa lauhteet on puhdistettu aikaisemmin mekaanisella suotimella ja lisäveden puhdistuksessa on käytetty sekavaihdinta, paras kytkentävaihto on erilliset sekavaihtimet lauhteelle ja lisävedelle. Uudelle ja vanhalle laitokselle, jossa lauhteet on puhdistettu aikaisemmin mekaanisella suotimella ja lisäveden puhdistuksessa ei ole käytetty sekavaihdinta, paras kytkentävaihto on yhteiset sekavaihtimet lauhteelle ja lisävedelle. Lauhteen puhdistuksessa käytetyt sekavaihtimen toimintalämpötila on 45 °C molemmissa kytkentävaihtoehdoissa. Kertakäyttöhartsien käyttö osoittautui suuressa mittakaavassa kannattamattomaksi. Tämä asia tarvinnee kuitenkin jatkotutkimuksia. Ulospuhallusveden talteenotolla saadaan energiasäästöä 6-53 k¤/a riippuenlaitoksesta. Etenkin soodakattilalaitoksissa, joissa soodakattila ja vedenkäsittelylaitos sijaitsevat lähellä toisiaan, kannattaa ulospuhallusvesi johtaa lisäveden valmistukseen. Jos edellä mainittujen laitosten etäisyydet kasvavat, saattavat ulospuhallusjärjestelmän investointi-kustannukset nousta kohtuuttoman suureksi. Tämä työ osoitti myös, että ulospuhallusveden epäpuhtauksilla ei ole merkittävää vaikutusta kemiallisesti puhdistetun veden laatuun ennen suolanpoistolaitosta ja ioninvaihtohartsien vanhenemiseen.

Sakkaroosin hydrolyysi immobilisoidulla entsyymillä

Työssä tutkittiin sakkaroosin hydrolyysiä anioninvaihtohartseihin immobilisoidun entsyymin avulla tavoitteena löytää sellainen kantaja-entsyymi -yhdistelmä, jolla konversio halutuiksi lopputuotteiksi olisi mahdollisimman korkea. Työhön valittiin aikaisemmissa laboratoriokokeissa parhaita tuloksia saavuttaneet kantaja-entsyymi -parit. Entsyymeinä oli kaksi nestemäistä Saccharomyces cerevisiae -hiivasta eristettyjä entsyymivalmistetta. Kokeissa käytetyt kantajamateriaalit olivat erilaisia heikkoja anioninvaihtohartseja. Entsyymit immobilisoitiin kantajaan sekoitusreaktorissa ja niiden aktiivisuudet määritettiin sitomisen jälkeen. Hydrolyysikokeet tehtiin jatkuvatoimisessa kiintopetireaktorissa ja lisäksi panos-kokeina tutkittiin ominaisuuksiltaan erilaisten kantajien eroja hydrolyysissä. Reaktio-olosuhteet pidettiin kaikissa kokeissa samoina. Sakkaroosiliuoksen pitoisuus oli 50 p-%, reaktiolämpötila 50 oC ja pH 5. Kiintopetikolonnissa tutkittiin myös sakkaroosi-liuoksen viipymäajan vaikutusta sivutuotteiden syntyyn. Näytteet analysoitiin neste-kromatografilla. Kiintopetikolonnissa lyhimmän viipymäajan (15 min) kokeissa ainoastaan hitaimmilla kantaja-entsyymi -pareilla muodostui sivutuotteita, jotka hydrolyysireaktion edetessä kuitenkin hävisivät. Kun viipymäaikaa kasvatettiin sivutuotteiden synty väheni ja lopulta niitä ei havaittu syntyvän lainkaan. Hydrolyysin edetessä viipymäajan ollessa tarpeeksi pitkä pienet sivutuotekomponentit hävisivät sakkaroosin hajotessa kokonaan glukoosiksi ja fruktoosiksi. Verrattaessa partikkelikoon ja hartsimatriisin vaikutusta samaan entsyymiin sidottuna havaittiin, että niillä kummallakin on vaikutusta sekä sakkaroosin hydrolyysi-nopeuteen että sivutuotteiden muodostumiseen.

Hiilidioksidin talteenottoon soveltuvan anioninvaihtohartsin valmistus ja karakterisointi

Tämän työn tarkoituksena oli tutkia hiilidioksidin talteenottoon soveltuvan anioninvaihtohartsin valmistusmenetelmiä, kokeilla eri menetelmiä käytännössä ja tutkia sekä itse valmistettujen että valmiina saatujen hartsien adsorptiokykyä ja muita ominaisuuksia. Kemiallinen adsorptio amiiniryhmän omaavien hartsien avulla on yksi tapa sitoa hiilidioksidia ilmasta. Primäärinen amiiniryhmä sitoo hiilidioksidia parhaiten. Primäärisen amiiniryhmän omaava anioninvaihtohartsi voidaan valmistaa pohjapolymeeristä halogeenialkyloimalla ja aminoimalla, aminoalkyloimalla tai suoraan aminoimalla. Aminoalkylointi voidaan suorittaa erilaisilla reagensseilla ja katalyyteillä. Tässä työssä hartseja valmistettiin aminoimalla polymetyyliakrylaattidivinyylibentseenipohjaista polymeeriä etyylidiamiinilla ja propyylidiamiinilla. Lisäksi suoritettiin polystyreeni-divinyylibentseenipohjaisen polymeerin aminoalkylointi bis(ftaali-imidometyyli)eetterin avulla. Reaktio tehtiin kahdella eri katalyytillä; rikkitrioksidilla ja rautakloridilla. Aminoalkylointireaktioissa tarvittava eetteri piti ennen varsinaista reaktiota valmistaa N-hydroksymetyyliftaali-imidistä. Myös tämän reagenssin syntetisointia ftaali-imidistä kokeiltiin. Kaikki synteesit onnistuivat melko hyvin, paitsi aminoalkylointi rautakloridikatalyytillä. Hartsien valmistuksen lisäksi itse valmistettuja primäärisen amiiniryhmän omaavia hartseja sekä erilaisia amiiniryhmiä omaavia valmiita hartseja karakterisoitiin eri tavoin. Erityisesti haluttiin tutkia hiilidioksidin adsorptiokapasiteettia ja hartsien termistä kestävyyttä. Kaikista tutkituista hartseista lähimpänä haluttuja ominaisuuksia olivat kaksi kaupallista primäärisen amiiniryhmän omaavaa PS-DVBpohjaista makrohuokoista hartsia. Rakenteeltaan samanlainen itse valmistettu hartsi (rikkitrioksidikatalyytin läsnä ollessa aminoalkyloitu) oli myös ominaisuuksiltaan lupaava. Valmistusmenetelmää pitää kuitenkin tutkia ja kehittää lisää vielä parempien tulosten aikaansaamiseksi. Myös kaupallinen polyetyleeni-imiinirakenteen omaava silikapohjainen hartsi oli ominaisuuksiltaan hyvä.

Ympäristö- ja yhdyskuntavesien monitorointi Saimaan vesistöalueella

Diplomityössä tutkittiin kromatografian, elektroforeesin ja spektrometrian käyttöä ympäristövesianalytiikassa. Kokeellisessa osassa analysoitiin Saimaan Vesi- ja Ympäristötutkimus Oy:n keräämistä kaatopaikka-, jätevesi-, pohjavesi-, vesistö-, uimahalli-, yksityiskaivo-, poreallas- ja suovesinäytteistä epäorgaaniset anionit (F-, Cl-, Br-, NO3-, NO2- SO42-ja PO42-) sekä ionikromatografilla että kapillaarielektroforeesilla. Näytteet on kerätty Saimaan alueen ympäristökunnista. Kapillaarielektroforeesilla analysoitiin lisäksi tiosulfaatti. Liekkiatomiabsorptio-spektrometrilla analysoitiin Cu, Fe, Na ja Al. Natriumia löytyi jokaisesta vesinäytteestä. Pohjavesistä ei löytynyt rautaa eikä alumiinia ja kuparipitoisuudet olivat alle määritysrajan. Vesistövesistä kahdessa näytteessä oli alle määritysrajan olevia rautapitoisuuksia. Muissa näytteissä ei rautaa ollut. Suovesistä kuparia löytyi hyvin pieniä määriä ja yhdestä näytteestä alumiinia alle määritysrajan. Kaatopaikkavesissä kuparipitoisuudet sekä kolmessa näytteessä alumiinipitoisuudet olivat alle määritysrajan. Jätevesistä oletettiin löytyvän suuria määriä typpispesieksiä ja fosforia. Niitä kuitenkin esiintyi isoissa pitoisuuksissa vain suovesinäytteissä. Jätevesinäytteet sisälsivät bromidia, nitraattia ja fluoridia jopa yli 140 mg/l. Kapillaarielektroforeesilla ja ionikromatografilla mitatut anionipitoisuudet korreloivat hyvin toisiaan. Kontaminoituja vesiä löytyi pohja-, kaatopaikka-, jäte- ja vesistövesistä sekä uima-altaan terapiaaltaan vedestä.

Jatkuvatoiminen ioninvaihto ja kompleksoituvien metallien sorptio kloridiympäristössä

Työn tarkoituksena oli tutkia kompleksoituvien metallien erotusta kloridiliuoksesta ioninvaihdolla. Kirjallisessa osassa perehdyttiin metallikompleksien muodostumiseen, ja erityisesti hopean, kalsiumin, magnesiumin, lyijyn ja sinkin muodostamiin komplekseihin kloridin ja nitraatin kanssa. Kirjallisessa osassa käsiteltiin myös metallien erottamista kiintopetikolonneissa jatkuvatoimisilla ioninvaihtomenetelmillä. Tässä työssä jatkuvatoimisen ioninvaihdon prosessivaihtoehdot jaoteltiin pyöriviin ja paikallaan pysyviin kolonneihin, sekä tarkasteltiin eri prosessivaihtoehtoja kolonnien kytkentöjen suhteen. Työn kokeellisessa osassa tutkittiin kahdenarvoisten metallien erottamista yhdenarvoisista metalleista sekä luotiin koedataa vastaavanlaisen erotusprosessin simulointiin. Kokeissa käytettiin anioninvaihtohartsia ja kelatoivaa selektiivistä ioninvaihtohartsia. Kahdenarvoisen kalsiumin, magnesiumin, lyijyn ja sinkin adsorptiota hartseihin tutkittiin tasapaino-, kinetiikka- ja kolonnikokeilla. Anioninvaihtohartsilla tehtyjen tasapaino- ja kolonnikokeiden tulokset osoittivat, että hartsi adsorboi tehokkaasti sinkkiä kloridiliuoksista, koska sinkki muodostaa stabiileja anionisia klorokomplekseja. Muiden tutkittujen kahdenarvoisten metallien adsorptio hartsiin oli huomattavasti vähäisempää. Tulosten perusteella tutkittu anioninvaihtohartsi on hyvä vaihtoehto sinkin erottamiseen muista tutkituista kahdenarvoisista metalleista kloridiympäristössä. Kelatoivalla hartsilla tehdyt tasapaino- ja kolonnikokeet osoittivat, että hartsi adsorboi kloridiliuoksista hyvin kahdenarvoista kalsiumia, magnesiumia, lyijyä ja sinkkiä, mutta ei adsorboi yhdenarvoista hopeaa. Tulosten perusteella kahdenarvoisten metallien erottaminen yhdenarvoisista metalleista voidaan toteuttaa kokeissa käytetyllä kelatoivalla ioninvaihtohartsilla.

NADPH-Dependent Thioredoxin System In Regulation of Chloroplast Functions

Photosynthesis, the process in which carbon dioxide is converted into sugars using the energy of sunlight, is vital for heterotrophic life on Earth. In plants, photosynthesis takes place in specific organelles called chloroplasts. During chloroplast biogenesis, light is a prerequisite for the development of functional photosynthetic structures. In addition to photosynthesis, a number of other metabolic processes such as nitrogen assimilation, the biosynthesis of fatty acids, amino acids, vitamins, and hormones are localized to plant chloroplasts. The biosynthetic pathways in chloroplasts are tightly regulated, and especially the reduction/oxidation (redox) signals play important roles in controlling many developmental and metabolic processes in chloroplasts. Thioredoxins are universal regulatory proteins that mediate redox signals in chloroplasts. They are able to modify the structure and function of their target proteins by reduction of disulfide bonds. Oxidized thioredoxins are restored via the action of thioredoxin reductases. Two thioredoxin reductase systems exist in plant chloroplasts, the NADPHdependent thioredoxin reductase C (NTRC) and ferredoxin-thioredoxin reductase (FTR). The ferredoxin-thioredoxin system that is linked to photosynthetic light reactions is involved in light-activation of chloroplast proteins. NADPH can be produced via both the photosynthetic electron transfer reactions in light, and in darkness via the pentose phosphate pathway. These different pathways of NADPH production enable the regulation of diverse metabolic pathways in chloroplasts by the NADPH-dependent thioredoxin system. In this thesis, the role of NADPH-dependent thioredoxin system in the redox-control of chloroplast development and metabolism was studied by characterization of Arabidopsis thaliana T-DNA insertion lines of NTRC gene (ntrc) and by identification of chloroplast proteins regulated by NTRC. The ntrc plants showed the strongest visible phenotypes when grown under short 8-h photoperiod. This indicates that i) chloroplast NADPH-dependent thioredoxin system is non-redundant to ferredoxinthioredoxin system and that ii) NTRC particularly controls the chloroplast processes that are easily imbalanced in daily light/dark rhythms with short day and long night. I identified four processes and the redox-regulated proteins therein that are potentially regulated by NTRC; i) chloroplast development, ii) starch biosynthesis, iii) aromatic amino acid biosynthesis and iv) detoxification of H₂O₂. Such regulation can be achieved directly by modulating the redox state of intramolecular or intermolecular disulfide bridges of enzymes, or by protecting enzymes from oxidation in conjunction with 2-cysteine peroxiredoxins. This thesis work also demonstrated that the enzymatic antioxidant systems in chloroplasts, ascorbate peroxidases, superoxide dismutase and NTRC-dependent 2-cysteine peroxiredoxins are tightly linked up to prevent the detrimental accumulation of reactive oxygen species in plants.

DPS-Like Peroxide Resistance Protein: Structural and Functional Studies on a Versatile Nanocontainer

Oxidative stress is a constant threat to almost all organisms. It damages a number of biomolecules and leads to the disruption of many crucial cellular functions. It is caused by reactive oxygen species (ROS), such as hydrogen peroxide (H2O₂), superoxide (•O₂ -), and hydroxyl radical (•OH). The most harmful of these compounds is •OH, which is only formed in cells in the presence of redox-cycling transition metals, such as iron and copper. Bacteria have developed a number of mechanisms to cope with ROS. One of the most widespread means employed by bacteria is the DNA-binding proteins from starved cells (Dps). Dps proteins protect the cells by binding and oxidizing Fe2+, thus greatly reducing the production of •OH. The oxidized iron is stored inside the protein as an iron core. In addition, Dps proteins bind directly to DNA forming a protective coating that shields DNA from harmful agents. Moreover, Dps proteins have been found to elicit other protective functions in cells and to participate in bacterial virulence. Dps proteins are of special importance to Streptococci owing to the lack of catalase in this genus of bacteria.This study was focused on structural and functional characterization of streptococcal Dpslike peroxide resistance (Dpr) proteins. Initially, crystal structures of Streptococcus pyogenes Dpr were determined. The data confirmed the presence of a di-metal ferroxidase center (FOC) in Dpr proteins and revealed the presence of a novel N-terminal helix as well as a surface metal-binding site. The crystal structures of Streptococcus suis Dpr complexed with transition metals demonstrated the metal specificity of the FOC. Solution binding studies also indicated the presence of a di-metal FOC. These results suggested a possible role for Dpr in the detoxification of various metals. Iron was found to mineralize inside the protein as ferrihydrite based on X-ray absorption spectroscopy data. The iron core was found to exhibit clear superparamagnetic behaviour using magnetic and Mössbauer measurements. The results from this study are expected to further increase our understanding on the binding, oxidation, and mineralization of iron and other metals in Dpr proteins. In particular, the structural and magnetic properties of the iron core can form a basis for potential new applications in nanotechnology. From the streptococcal viewpoint, the results would help in understanding better the complicated picture of bacterial pathogenesis. Dpr proteins may also provide a novel target for drug design due to their tight involvement in bacterial virulence.

Electroactive ion exchange membranes based on conducting polymers

Ion exchange membranes are indispensable for the separation of ionic species. They can discriminate between anions and cations depending on the type of fixed ionic group present in the membrane. These conventional ion exchange membranes (CIX) have exceptional ionic conductivity, which is advantageous in various electromembrane separation processes such as electrodialysis, electrodeionisation and electrochemical ion exchange. The main disadvantage of CIX membranes is their high electrical resistance owing to the fact that the membranes are electronically non conductive. An alternative can be electroactive ion exchange membranes, which are ionically and electronically conducting. Polypyrrole (PPy) is a type of electroactive ion exchange material as well as a commonly known conducting polymer. When PPy membranes are repeatedly reduced and oxidised, ions are pumped through the membrane. The main aim of this thesis was to develop electroactive cation transport membranes based on PPy for the selective transport of divalent cations. Membranes developed composed of PPy films deposited on commercially available support materials. To carry out this study, cation exchange membranes based on PPy doped with immobile anions were prepared. Two types of dopant anions known to interact with divalent metal ions were considered, namely 4-sulphonic calix[6]arene (C6S) and carboxylated multiwalled carbon nanotubes (CNT). The transport of ions across membranes containing PPy doped with polystyrene sulphonate (PSS) and PPy doped with para-toluene sulphonate (pTS) was also studied in order to understand the nature of ion transport and permeability across PPy(CNT) and PPy(C6S) membranes. In the course of these studies, membrane characterisation was performed using electrochemical quartz crystal microbalance (EQCM) and scanning electron microscopy (SEM). Permeability of the membranes towards divalent cations was explored using a two compartment transport cell. EQCM results demonstrated that the ion exchange behaviour of polypyrrole is dependent on a number of factors including the type of dopant anion present, the type of ions present in the surrounding medium, the scan rate used during the experiment and the previous history of the polymer film. The morphology of PPy films was found to change when the dopant anion was varied and even when the thickness of the film was altered in some cases. In nearly all cases the permeability of the membranes towards metal ions followed the order K+ > Ca2+ > Mn2+. The one exception was PPy(C6S), for which the permeability followed the order Ca2+ ≥ K+ > Mn2+ > Co2+ > Cr3+. The above permeability sequences show a strong dependence on the size of the metal ions with metal ions having the smallest hydrated radii exhibiting the highest flux. Another factor that affected the permeability towards metal ions was the thickness of the PPy films. Films with the least thickness showed higher metal ion fluxes. Electrochemical control over ion transport across PPy(CNT) membrane was obtained when films composed of the latter were deposited on track-etched Nucleopore® membranes as support material. In contrast, the flux of ions across the same film was concentration gradient dependent when the polymer was deposited on polyvinylidene difluoride membranes as support material. However, electrochemical control over metal ion transport was achieved with a bilayer type of PPy film consisting of PPy(pTS)/PPy(CNT), irrespective of the type of support material. In the course of studying macroscopic charge balance during transport experiments performed using a two compartment transport cell, it was observed that PPy films were non-permselective. A clear correlation between the change in pH in the receiving solution and the ions transported across the membrane was observed. A decrease in solution pH was detected when the polymer membrane acted primarily as an anion exchanger, while an increase in pH occurred when it functioned as a cation exchanger. When there was an approximately equal flux of anions and cations across the polymer membrane, the pH in the receiving solution was in the range 6 - 8. These observations suggest that macroscopic charge balance during the transport of cations and anions across polypyrrole membranes was maintained by introduction of anions (OH-) and cations (H+) produced via electrolysis of water.

Solid-state reference and ion-selective electrodes : towards portable potentiometric sensing

Potentiometric sensors are very attractive tools for chemical analysis because of their simplicity, low power consumption and low cost. They are extensively used in clinical diagnostics and in environmental monitoring. Modern applications of both fields require improvements in the conventional construction and in the performance of the potentiometric sensors, as the trends are towards portable, on-site diagnostics and autonomous sensing in remote locations. The aim of this PhD work was to improve some of the sensor properties that currently hamper the implementation of the potentiometric sensors in modern applications. The first part of the work was concentrated on the development of a solid-state reference electrode (RE) compatible with already existing solid-contact ion-selective electrodes (ISE), both of which are needed for all-solid-state potentiometric sensing systems. A poly(vinyl chloride) membrane doped with a moderately lipophilic salt, tetrabutylammonium-tetrabutylborate (TBA-TBB), was found to show a satisfactory stability of potential in sample solutions with different concentrations. Its response time was nevertheless slow, as it required several minutes to reach the equilibrium. The TBA-TBB membrane RE worked well together with solid-state ISEs in several different situations and on different substrates enabling a miniature design. Solid contacts (SC) that mediate the ion-to-electron transduction are crucial components of well-functioning potentiometric sensors. This transduction process converting the ionic conduction of an ion-selective membrane to the electronic conduction in the circuit was studied with the help of electrochemical impedance spectroscopy (EIS). The solid contacts studied were (i) the conducting polymer (CP) poly(3,4-ethylienedioxythiophene) (PEDOT) and (ii) a carbon cloth having a high surface area. The PEDOT films were doped with a large immobile anion poly(styrene sulfonate) (PSS-) or with a small mobile anion Cl-. As could be expected, the studied PEDOT solid-contact mediated the ion-toelectron transduction more efficiently than the bare glassy carbon substrate, onto which they were electropolymerized, while the impedance of the PEDOT films depended on the mobility of the doping ion and on the ions in the electrolyte. The carbon cloth was found to be an even more effective ion-to-electron transducer than the PEDOT films and it also proved to work as a combined electrical conductor and solid contact when covered with an ion-selective membrane or with a TBA-TBB-based reference membrane. The last part of the work was focused on improving the reproducibility and the potential stability of the SC-ISEs, a problem that culminates to the stability of the standard potential E°. It was proven that the E° of a SC-ISE with a conducting polymer as a solid contact could be adjusted by reducing or oxidizing the CP solid contact by applying current pulses or a potential to it, as the redox state of the CP solid-contact influences the overall potential of the ISE. The slope and thus the analytical performance of the SC-ISEs were retained despite the adjustment of the E°. The shortcircuiting of the SC-ISE with a conventional large-capacitance RE was found to be a feasible instrument-free method to control the E°. With this method, the driving force for the oxidation/reduction of the CP was the potential difference between the RE and the SC-ISE, and the position of the adjusted potential could be controlled by choosing a suitable concentration for the short-circuiting electrolyte. The piece-to-piece reproducibility of the adjusted potential was promising, and the day-today reproducibility for a specific sensor was excellent. The instrumentfree approach to control the E° is very attractive considering practical applications.

Karboksyylihappojen kromatografinen fraktiointi

Suurin osa alifaattisista karboksyylihapoista tuotetaan nykyään synteettisesti, mutta öljyn hinnan nousu ja ekologisempi ajattelutapa on aiheuttanut kiinnostusta tuottaa näitä karboksyyli- ja hydroksihappoja jatkossa fermentoimalla tai sellun valmistuksen sivuvirtana syntyvästä mustalipeästä. Nykyään mustalipeä poltetaan sellaisenaan soodakattiloissa keittokemikaalien regeneroimiseksi, energiaksi ja sähköksi. Jatkossa mustalipeästä voisi erottaa arvokkaat orgaaniset hapot ennen polttamista. Saadusta happoseoksesta tulisi erottaa yksittäiset alifaattiset karboksyylihapot toisistaan jatkojalostusta varten. Tämän kandidaatintyön tavoitteena oli selvittää, millä kromatografisella erotusmenetelmällä fermentointituotteina ja teollisuuden sivuvirtoina syntyvistä karboksyylihapposeoksista saadaan yksittäiset alifaattiset karboksyylihapot erotettua toisistaan. Mittaukset suoritettiin kolonnilla, jossa hartsipedin halkaisija oli 1,5 cm ja korkeus 15 cm. Kolonnin erototusmateriaaleina kokeiltiin vahvoja ja heikkoja kationinvaihtohartseja, vahvaa anioninvaihtohartsia ja polymeerisiä adsorbentteja. Erotettavaksi happoseokseksi valittiin sitruuna-, viini-, glykoli-, maito- ja etikkahapon seos. Tehokkain erotus saatiin Puroliten valmistamalla Macronet 270:lla, joka on mikrohuokoinen polymeerinen adsorbentti. Macronet 270:lla saatiin erotettua erityisesti viini- ja glykolihappo sitruuna-, maito- ja etikkahaposta. Yksittäisiä happoja ei saatu kuitenkaan kunnolla erotettua. Parhaat koeolosuhteet erotustehokkuuden ja retentioaikojen kannalta saatiin vesieluentin virtausnopeudella 2 mL/min, syöttöpulssin tilavuudella 5 mL ja kolonnin lämpötilassa 75 °C.

The effect of cationic-anionic polyelectrolyte multilayer surface treatment on inkjet ink spreading and print quality

The focus of the work reported in this thesis was to study and to clarify the effect of polyelectrolyte multilayer surface treatment on inkjet ink spreading, absorption and print quality. Surface sizing with a size press, film press with a pilot scale coater, and spray coating, have been used to surface treat uncoated wood-free, experimental wood-free and pigmentcoated substrates. The role of the deposited cationic (polydiallydimethylammonium chloride, PDADMAC) and anionic (sodium carboxymethyl cellulose, NaCMC) polyelectrolyte layers with and without nanosilica, on liquid absorption and spreading was studied in terms of their interaction with water-based pigmented and dye-based inkjet inks. Contact angle measurements were made in attempt to explain the ink spreading and wetting behavior on the substrate. First, it was noticed that multilayer surface treatment decreased the contact angle of water, giving a hydrophilic character to the surface. The results showed that the number of cationic-anionic polyelectrolyte layers or the order of deposition of the polyelectrolytes had a significant effect on the print quality. This was seen for example as a higher print density on layers with a cationic polyelectrolyte in the outermost layer. The number of layers had an influence on the print quality; the print density increased with increasing number of layers, although the increase was strongly dependent on ink formulation and chemistry. The use of nanosilica clearly affected the rate of absorption of polar liquids, which also was seen as a higher density of the black dye-based print. Slightly unexpected, the use of nanosilica increased the tendency for lateral spreading of both the pigmented and dye-based inks. It was shown that the wetting behavior and wicking of the inks on the polyelectrolyte coatings was strongly affected by the hydrophobicity of the substrate, as well as by the composition or structure of the polyelectrolyte layers. Coating only with a cationic polyelectrolyte was not sufficient to improve dye fixation, but it was demonstrated that a cationic-anionic-complex structure led to good water fastness. A threelayered structure gave the same water fastness values as a five-layered structure. Interestingly, the water fastness values were strongly dependent not only on the formed cation-anion polyelectrolyte complexes but also on the tendency of the coating to dissolve during immersion in water. Results showed that by optimizing the chemistry of the layers, the ink-substrate interaction can be optimized.