<p>Excess excitation energy, mechanical injury and defence against pathogens, each trigger rapid production of reactive oxygen species (ROS) in <i>Arabidopsis thaliana</i> leaves. ROS, such as hydrogen peroxide (H₂O₂), are required for the induction of systemic acquired acclimation and may lead to redox changes in photosynthetic electron transport (PET). On one hand, enhanced ROS production during stress can destroy cells, and on the other, ROS can also act as signals for the activation of stress responsive and defensive pathways.</p><p>In this work, physiological and molecular analyses of <i>Arabidopsis</i> mutants and transgenic lines were applied to investigate the signalling network controlling biotic and abiotic stress responses. A key enzyme of the antioxidant network is encoded by <i>ASCORBATE PEROXIDASE 2 (APX2</i>). Wounded leaves showed low induction of<i> APX2 </i>expression and when exposed to excess light, <i>APX2</i> expression was increased synergistically. Signalling pathways dependent upon jasmonic acid, chitosan and abscisic acid were not involved in the wound-induced expression of <i>APX2</i>, but PET was required, and APX2 induction was preceded by a depressed rate of CO₂fixation.</p><p>Analysis of<i> lsd1</i> (<i>LESION SIMULATING DISEASE 1</i>) strongly suggests that light acclimatory processes and pathogen defences are genetically and functionally linked. It is important to know that LSD1 type of mutants have mainly been studied with regard to pathogenesis. From this work, it reveals that association of LSD1 with hypersensitive response may only be supplementary.</p><p><i>GLUTATHIONE PEROXIDASES</i> <i>(GPXs)</i> are another major family of ROS scavenging enzymes. Analysis of the <i>Arabidopsis </i>genome database revealed a new open-reading frame, thus increasing the total number of <i>AtGPX </i>gene family to eight (<i>AtGPX1-AtGPX8</i>). <i>Arabidopsis thaliana</i> transgenic lines with reduced expression of both putative chloroplastic isoforms (<i>AtGPX1 </i>and <i>AtGPX7</i>) and <i>AtGPX7</i> knock-out mutant (ko-<i>GPX7</i>) were more sensitive to photo-oxidative stress but had a reduced bacterial growth rate when inoculated with virulent strains <i>Pseudomonas syringae</i> pv. <i>tomato</i> DC3000 and<i> P.s.t. maculicola</i> strain ES4326, indicating increased resistance to pathogenesis. This, to our knowledge, is the first functional and genetic analysis of chloroplastic GPXs in plants, and confirms that light and chloroplastic ROS metabolism is important for basal resistance against virulent pathogens.</p><p>The above results confirm that light sensing, light acclimatory processes and photo-produced ROS also govern pathogen defence pathways. This has a great ecological relevance for Darwinian fitness of plants growing in the natural environment, where simultaneous pathogen attack and fluctuations in light, temperature and other environmental factors make rapid acclimation a constant necessity. Molecular, biochemical and physiological analysis of pathogen responses in mutants impaired in light sensing, EEE-dissipatory mechanisms, and similar analysis of light acclimatory processes in mutants impaired in pathogen defences may prove to be seminal.</p>

Excess excitation energy, mechanical injury and defence against pathogens, each trigger rapid production of reactive oxygen species (ROS) in Arabidopsis thaliana leaves. ROS, such as hydrogen peroxide (H2O2), are required for the induction of systemic acquired acclimation and may lead to redox changes in photosynthetic electron transport (PET). On one hand, enhanced ROS production during stress can destroy cells, and on the other, ROS can also act as signals for the activation of stress responsive and defensive pathways. In this work, physiological and molecular analyses of Arabidopsis mutants and transgenic lines were applied to investigate the signalling network controlling biotic and abiotic stress responses. A key enzyme of the antioxidant network is encoded by ASCORBATE PEROXIDASE 2 (APX2). Wounded leaves showed low induction of APX2 expression and when exposed to excess light, APX2 expression was increased synergistically. Signalling pathways dependent upon jasmonic acid, chitosan and abscisic acid were not involved in the wound-induced expression of APX2, but PET was required, and APX2 induction was preceded by a depressed rate of CO2 fixation. Analysis of lsd1 (LESION SIMULATING DISEASE 1) strongly suggests that light acclimatory processes and pathogen defences are genetically and functionally linked. It is important to know that LSD1 type of mutants have mainly been studied with regard to pathogenesis. From this work, it reveals that association of LSD1 with hypersensitive response may only be supplementary. GLUTATHIONE PEROXIDASES (GPXs) are another major family of ROS scavenging enzymes. Analysis of the Arabidopsis genome database revealed a new open-reading frame, thus increasing the total number of AtGPX gene family to eight (AtGPX1-AtGPX8). Arabidopsis thaliana transgenic lines with reduced expression of both putative chloroplastic isoforms (AtGPX1 and AtGPX7) and AtGPX7 knock-out mutant (ko-GPX7) were more sensitive to photo-oxidative stress but had a reduced bacterial growth rate when inoculated with virulent strains Pseudomonas syringae pv. tomato DC3000 and P.s.t. maculicola strain ES4326, indicating increased resistance to pathogenesis. This, to our knowledge, is the first functional and genetic analysis of chloroplastic GPXs in plants, and confirms that light and chloroplastic ROS metabolism is important for basal resistance against virulent pathogens. The above results confirm that light sensing, light acclimatory processes and photo-produced ROS also govern pathogen defence pathways. This has a great ecological relevance for Darwinian fitness of plants growing in the natural environment, where simultaneous pathogen attack and fluctuations in light, temperature and other environmental factors make rapid acclimation a constant necessity. Molecular, biochemical and physiological analysis of pathogen responses in mutants impaired in light sensing, EEE-dissipatory mechanisms, and similar analysis of light acclimatory processes in mutants impaired in pathogen defences may prove to be seminal.

The polyphenol pathway and Maillard reaction (polycondensation of sugars and amino acids) are regarded as important pathways in natural humification. The significance of linking the Maillard reaction and polyphenol pathways into an integrated humification pathway has been addressed. However, the ability of mineral colloids commonly occurring in tropical and temperate environments to promote the Maillard reaction and integrated polyphenol-Maillard humification pathways remained to be uncovered. Furthermore, the effect of the nature and relative abundance of biomolecules on humification and associated reaction products remained to be studied.<p>The results of this study show that the structure of polyphenols and the relative molar ratio of polyphenol, glucose and glycine, significantly affected humification processes and the associated carbonate formation in the integrated polyphenol-Maillard reaction catalyzed by birnessite. Increasing the molar ratio of ortho-polyphenols (catechol and pyrogallol) to Maillard reagents in the polyphenol-Maillard pathway catalyzed by birnessite enhanced humification while suppressing the formation of rhodochrosite (MnCO3). The opposite trend of MnCO3 formation was observed in the meta-polyphenol (resorcinol)-Maillard reaction system. Increasing the amount of glucose in the integrated catechol-Maillard system under the catalysis of birnessite promoted the formation of Maillard reaction-type humic acid in the supernatant and MnCO3 in the solid phase.<p>The catalytic abilities of commonly occurring mineral colloids from temperate and tropical regions greatly differed in influencing humification processes and products in the Maillard reaction and integrated polyphenol-Maillard pathways. Compared with layer silicate colloids, the poorly ordered Fe and Mn oxides were by far the strongest catalysts of humification reactions in the Maillard and catechol-Maillard pathways. This accounted for the significant difference in reactivity between the sesquioxide-rich Oxisol clay from the high rainfall region of South Africa and the Mollisol clay from the Canadian Prairies. Furthermore, the nature of the mineral colloids also affected the extent of organic C accumulation in the solid phase upon humification, and related mineral surface alteration. The metal oxide- and Oxisol clay-catalyzed Maillard and catechol-Maillard reaction systems had the highest accumulation of organic C in the solid phase, indicating their significance in contributing to C sequestration in the environment.<p>The findings obtained in this study are of fundamental significance in understanding the influence of the atomic bonding, structural configuration and related surface properties of mineral colloids, and the nature and abundance of biomolecules on the abiotic humification pathways and related reaction products in natural environments.

Non-specific lipid transfer proteins is a large and diverse protein family found in plants, with roles in biological systems ranging from long distance signaling to plant pathogen defense. Little is known about the roles of nsLTPs, but recent studies have cast some light on the issue, among other things proposing that they may be involved in the cutice formation on land-living liverworts, mosses and non-seedbearing plants. Increased cuticle formation is thought to be a part of a plants defense system against stress. In this experiment, the expression of nsLTPs type G in the moss Physcomitrella patens was examined by qRT-PCR on cDNA synthesized from already existing mRNA samples from moss under different abiotic stresses. The different stresses were UV-light, salt (ion toxicity), heavy metal, cold drought, plant hormone and osmosis. House-keeping gene P. patens beta-tubuline 1 was used as reference and relative expression analysis was performed. The study showed a general down-regulation of PpLTPg's in the abiotically stressed samples, and the possible coupled regulatory response of PpLTPg3 and PpLTPg5. The results imply that the PpLTPg's in Physcomitrella patens could be connected to biological processes that cease during stress, or that they worl through negative feedback to support plant defense against stress.

During the water-to-land transition, that occurred approximately 450 MYA, novel habitats wererevealed to the emerging plants. This terrestrial habitat was a harsh environment compared to theaquatic, with shifting substrate content, irregular supply of water, damaging UV-radiation andrapid fluctuating temperatures. Non-specific lipid transfer proteins (nsLTP) are today only foundin the land living plants and not in the green algae. This suggests that these genes might haveevolved to help the plants cope with the stressful conditions. In this study the expression patternhas been analysed of the nsLTPs in the moss Physcomitrella patens during the possible conditionsthat raised during the water-to-land transition. The moss was exposed to salt, UV-B, drought, copper, cold and osmotic stress. Quantitative real-time PCR was used to analyse the transcription levels. I found that six genes were upregulated during either cold, dehydration or UV-B stress. This suggest that these genes are involved in the plant defense against these abiotic stresse

The polyphenol pathway and Maillard reaction (polycondensation of sugars and amino acids) are regarded as important pathways in natural humification. The significance of linking the Maillard reaction and polyphenol pathways into an integrated humification pathway has been addressed. However, the ability of mineral colloids commonly occurring in tropical and temperate environments to promote the Maillard reaction and integrated polyphenol-Maillard humification pathways remained to be uncovered. Furthermore, the effect of the nature and relative abundance of biomolecules on humification and associated reaction products remained to be studied.<p>The results of this study show that the structure of polyphenols and the relative molar ratio of polyphenol, glucose and glycine, significantly affected humification processes and the associated carbonate formation in the integrated polyphenol-Maillard reaction catalyzed by birnessite. Increasing the molar ratio of ortho-polyphenols (catechol and pyrogallol) to Maillard reagents in the polyphenol-Maillard pathway catalyzed by birnessite enhanced humification while suppressing the formation of rhodochrosite (MnCO3). The opposite trend of MnCO3 formation was observed in the meta-polyphenol (resorcinol)-Maillard reaction system. Increasing the amount of glucose in the integrated catechol-Maillard system under the catalysis of birnessite promoted the formation of Maillard reaction-type humic acid in the supernatant and MnCO3 in the solid phase.<p>The catalytic abilities of commonly occurring mineral colloids from temperate and tropical regions greatly differed in influencing humification processes and products in the Maillard reaction and integrated polyphenol-Maillard pathways. Compared with layer silicate colloids, the poorly ordered Fe and Mn oxides were by far the strongest catalysts of humification reactions in the Maillard and catechol-Maillard pathways. This accounted for the significant difference in reactivity between the sesquioxide-rich Oxisol clay from the high rainfall region of South Africa and the Mollisol clay from the Canadian Prairies. Furthermore, the nature of the mineral colloids also affected the extent of organic C accumulation in the solid phase upon humification, and related mineral surface alteration. The metal oxide- and Oxisol clay-catalyzed Maillard and catechol-Maillard reaction systems had the highest accumulation of organic C in the solid phase, indicating their significance in contributing to C sequestration in the environment.<p>The findings obtained in this study are of fundamental significance in understanding the influence of the atomic bonding, structural configuration and related surface properties of mineral colloids, and the nature and abundance of biomolecules on the abiotic humification pathways and related reaction products in natural environments.

Pentachloronitrobenzene (PCNB) is an organochlorine fungicide used either as seed dressing or for soil treatment. Research was conducted to investigate the microbial reductive transformation of PCNB with cultures developed from a contaminated estuarine sediment. The biotransformation of PCNB to pentachloroaniline (PCA) occurred under all electron accepting conditions tested. Sequential dechlorination of PCA to di- and in some cases to mono-chlorinated anilines occurred under fermentative/methanogenic conditions. Based on the use of inhibitors, methanogens were not involved in the sequential dechlorination of PCA. Based on 16S rRNA gene analysis, among five known dechlorinating bacterial groups tested, only Dehalococcoides was detected in the mixed culture. The sequential dechlorination of PCA was simulated using a branched-chain Michaelis-Menten kinetic model. The dechlorination rate (k) of the chlorinated anilines ranged from 0.25 to 1.19 uM/day and the half-saturation coefficient (KC) ranged from 0.11 to 1.72 uM at an incubation temperature of 22C and pH 6.90.1. Incubation at different temperature and pH values resulted in significant differences in the biotransformation rate and extent of PCNB in the fermentative/methanogenic enrichment culture. Incubation at 35C resulted in significantly different product distribution. The effect of temperature on the PCA dechlorination rate was modeled using an Arrhenius relationship. Dechlorination of PCA and methanogenesis were not observed in cultures amended with completely bioavailable iron sources until all Fe3+ was reduced to Fe2+. In contrast, PCA dechlorination took place at the same time with iron reduction in the same mixed, methanogenic culture amended with a less bioavailable iron source (FeOOH). PCA was sequentially dechlorinated to dichloroanilines in cultures amended with low nitrate concentrations, whereas partial dechlorination of PCA to tetrachloroanilines was observed in cultures amended with high initial nitrate concentrations due to the accumulation of reduced nitrogen species (e.g., NO, N2O). A semi-empirical molecular model (MOPAC/AM1) was used to estimate the thermodynamic and electronic properties of all chlorinated aniline congeners. These values were used to predict the sequential PCA dechlorination pathway and compare to experimentally observed dechlorination reactions. The results of this study have significant environmental implications relative to the fate and transport of PCNB, PCA and its dechlorination products in subsurface systems.

ABSTRACT TRANSFORMATION OF POTATO WITH MYB4 TRANSCRIPTION FACTOR AND EVALUATION OF ABIOTIC STRESS TOLERANCE AND GENE EXPRESSION PROFILES IN TRANSGENIC PLANTS Kalemtas, G&uuml / ls&uuml / m Ph.D., Department of Biology Supervisor: Prof. Dr. H&uuml / seyin Avni &Ouml / ktem February 2011, 257 pages Potato (Solanum tuberosum L. cv. Kennebec) was transformed via Agrobacterium tumefaciens (EHA105) harbouring two different binary vectors containing Oryza sativa myb4 gene, which encodes MYB4 transcription factor / under the control of CaMV35S promoter or cold inducible COR15a promoter. The transgenic plants were not growth retarded and there was no significant difference (p&lt / 0.05) in their tuber yield compared to wild-type plants. Wild-type and transgenic plants were subjected to abiotic stresses to compare their stress tolerances. There was no significant difference in boron, freezing and drought tolerances of wild-type and transgenic lines. Two of the transgenic lines were more salt tolerant than wild-type with respect to growth parameters. Transcriptomes of wild-type and these two lines, one expressing myb4 under the control of 35S promoter and the other COR15a promoter, were analyzed to elucidate the myb4-regulated processes and downstream target genes in potato. Differentially regulated genes in transgenic lines showed that myb4 controls a large and complex transcriptional network associated with diverse cellular processes, primarily defense and rescue, metabolism and development. Genes involved in sucrose synthesis, some peroxidases and CBF3 transcription factor were up-regulated in transgenic plants upon exposure to freezing stress. This suggested that myb4 may configure freezing response in potato primarily by oxidative stress defence mechanisms, osmotic adjustment or activation of CBF3 regulated genes that may confer cold tolerance. Despite up-regulation of these stress related genes, transgenic potato was not more drought or freezing tolerant compared to WT under the tested conditions. Further experiments should be conducted to better elucidate the involvement of these genes in regulation of stress response in transgenic potato expressing myb4.

Wheat is the most important grain crop grown in our country providing greatest part of the daily nutritional requirement. Abiotic factors including salinity, drought, cold and heat stresses affect quality and yield of wheat varieties used for the production of both bread and pasta flour. NAC proteins form one of the widest families of plant specific transcription factors. Members of this family are related with development, defense and abiotic stress responses. TaNAC69-1 and TtNAM-B2 genes were isolated from T.aestivum and T.turgidum, respectively. Then they were cloned into different monocot and dicot expression vectors to be used for further wheat and tobacco genetic transformation studies. To understand effects of salinity, drought, cold and heat stresses on expression profiles of TaNAC69-1 and TtNAM-B2 genes, quantitative real time PCR was performed. The time series expression profiles of TaNAC69-1 show that it was signi

Η παρούσα διπλωματική εργασία έχει ως στόχο την καταγραφή και την ερμηνεία των επιπτώσεων των ανθρώπινων επιδράσεων στο αβιοτικό περιβάλλον και τη βλάστηση του κάτω μέρους του Εύηνου ποταμού και την εξαγωγή συμπερασμάτων για τη διατάραξη της φυσιολογικής του ισορροπίας, με σκοπό την βέλτιστη διαχείρισή του στο μέλλον. Τέλος, στοχεύει στη δημιουργία ενός οικολογικού μοντέλου λειτουργίας του ποταμού. / The present thesis aims at as the recording and the interpretation of repercussions of human effects in the abiotic environment and the vegetation of down part of Evinos river and the export of conclusions on the perturbation of his physiologic balance, aiming at his most optimal management in the future. Finally, it aims in the creation of ecological model of operation of river.