@phdthesis{AbdAllahSalem2018,
  author    = {Abd Allah Salem, Mohamed},
  title     = {Comparative and systemic metabolomic analysis of the model plant Arabidopsis thaliana after perturbing the essential Target of Rapamycin (TOR) pathway},
  school      = {Universit{\"a}t Potsdam},
  pages     = {113},
  year      = {2018},
  language  = {en}
}
@phdthesis{AbdelHaliem2003,
  author    = {Abdel-Haliem, Mahmoud E. F.},
  title     = {Molecular-physiological analysis of two novel isoforms of phosphoinositide kinases from Arabidopisis thaliana (L.) Heynh.},
  pages     = {122 S.},
  year      = {2003},
  language  = {en}
}
@phdthesis{Adamla2015,
  author    = {Adamla, Frauke},
  title     = {Polyglutamine- and aging-dependent aberrancies in transcription and translation},
  school      = {Universit{\"a}t Potsdam},
  pages     = {109},
  year      = {2015},
  language  = {en}
}
@phdthesis{Agarwal2023,
  author    = {Agarwal, Pallavi},
  title     = {Functional characterization of ROS-responsive genes, ANAC085 and ATR7, in Arabidopsis thaliana},
  school      = {Universit{\"a}t Potsdam},
  pages     = {XVII, 169},
  year      = {2023},
  language  = {en}
}
@phdthesis{Agrawal2018,
  author    = {Agrawal, Shreya},
  title     = {Engineering the isoprenoid pathway for molecular farming and effect of tRNA(Glu) manipulation on tetrapyrrole biosynthesis},
  school      = {Universit{\"a}t Potsdam},
  pages     = {viii, 131},
  year      = {2018},
  language  = {en}
}
@phdthesis{AhmadAbadi2007,
  author    = {Ahmad Abadi, Mohammad},
  title     = {Development and application of novel genetic transformation technologies in maize (Zea mays L.)},
  url       = {http://nbn-resolving.de/urn:nbn:de:kobv:517-opus-14572},
  school      = {Universit{\"a}t Potsdam},
  year      = {2007},
  abstract  = {Plant genetic engineering approaches are of pivotal importance to both basic and applied research. However, rapid commercialization of genetically engineered crops, especially maize, raises several ecological and environmental concerns largely related to transgene flow via pollination. In most crops, the plastid genome is inherited uniparentally in a maternal manner. Consequently, a trait introduced into the plastid genome would not be transferred to the sexually compatible relatives of the crops via pollination. Thus, beside its several other advantages, plastid transformation provides transgene containment, and therefore, is an environmentally friendly approach for genetic engineering of crop plants. Reliable in vitro regeneration systems allowing repeated rounds of regeneration are of utmost importance to development of plastid transformation technologies in higher plants. While being the world's major food crops, cereals are among the most difficult-to-handle plants in tissue culture which severely limits genetic engineering approaches. In maize, immature zygotic embryos provide the predominantly used material for establishing regeneration-competent cell or callus cultures for genetic transformation experiments. The procedures involved are demanding, laborious and time consuming and depend on greenhouse facilities. In one part of this work, a novel tissue culture and plant regeneration system was developed that uses maize leaf tissue and thus is independent of zygotic embryos and greenhouse facilities. Also, protocols were established for (i) the efficient induction of regeneration-competent callus from maize leaves in the dark, (ii) inducing highly regenerable callus in the light, and (iii) the use of leaf-derived callus for the generation of stably transformed maize plants. Furthermore, several selection methods were tested for developing a plastid transformation system in maize. However, stable plastid transformed maize plants could not be yet recovered. Possible explanations as well as suggestions for future attempts towards developing plastid transformation in maize are discussed. Nevertheless, these results represent a first essential step towards developing chloroplast transformation technology for maize, a method that requires multiple rounds of plant regeneration and selection to obtain genetically stable transgenic plants. In order to apply the newly developed transformation system towards metabolic engineering of carotenoid biosynthesis, the daffodil phytoene synthase (PSY) gene was integrated into the maize genome. The results illustrate that expression of a recombinant PSY significantly increases carotenoid levels in leaves. The beta-carotene (pro-vitamin A) amounts in leaves of transgenic plants were increased by ~21\% in comparison to the wild-type. These results represent evidence for maize to have significant potential to accumulate higher amounts of carotenoids, especially beta-carotene, through transgenic expression of phytoene synthases. Finally, progresses were made towards developing transformation technologies in Peperomia (Piperaceae) by establishing an efficient leaf-based regeneration system. Also, factors determining plastid size and number in Peperomia, whose species display great interspecific variation in chloroplast size and number per cell, were investigated. The results suggest that organelle size and number are regulated in a tissue-specific manner rather than in dependency on the plastid type. Investigating plastid morphology in Peperomia species with giant chloroplasts, plasmatic connections between chloroplasts (stromules) were observed under the light microscope and in the absence of tissue fixation or GFP overexpression demonstrating the relevance of these structures in vivo. Furthermore, bacteria-like microorganisms were discovered within Peperomia cells, suggesting that this genus provides an interesting model not only for studying plastid biology but also for investigating plant-microbe interactions.},
  language  = {en}
}
@phdthesis{AlFadel2018,
  author    = {Al Fadel, Frdoos},
  title     = {Influence of sphingosine 1-phosphate and its receptor modulators on the development of liver fibrosis},
  school      = {Universit{\"a}t Potsdam},
  pages     = {156},
  year      = {2018},
  language  = {en}
}
@phdthesis{ALRawi2020,
  author    = {AL-Rawi, Shadha},
  title     = {Biochemical studies to determine the role of Early Starvation 1 (ESV1) protein and its homologue Like-Early Starvation 1 (LESV) during starch degradation},
  doi       = {10.25932/publishup-48395},
  url       = {http://nbn-resolving.de/urn:nbn:de:kobv:517-opus4-483956},
  school      = {Universit{\"a}t Potsdam},
  pages     = {215},
  year      = {2020},
  abstract  = {Depending on the biochemical and biotechnical approach, the aim of this work was to understand the mechanism of protein-glucan interactions in regulation and control of starch degradation. Although starch degradation starts with the phosphorylation process, the mechanisms by which this process is controlling and adjusting starch degradation are not yet fully understood. Phosphorylation is a major process performed by the two dikinases enzymes α-glucan, water dikinase (GWD) and phosphoglucan water dikinase (PWD). GWD and PWD enzymes phosphorylate the starch granule surface; thereby stimulate starch degradation by hydrolytic enzymes. Despite these important roles for GWD and PWD, so far the biochemical processes by which these enzymes are able to regulate and adjust the rate of phosphate incorporation into starch during the degradation process haven't been understood. Recently, some proteins were found associated with the starch granule. Two of these proteins are named Early Starvation Protein 1 (ESV1) and its homologue Like-Early Starvation Protein 1 (LESV). It was supposed that both are involved in the control of starch degradation, but their function has not been clearly known until now. To understand how ESV1 and LESV-glucan interactions are regulated and affect the starch breakdown, it was analyzed the influence of ESV1 and LESV proteins on the phosphorylating enzyme GWD and PWD and hydrolysing enzymes ISA, BAM, and AMY. However, the analysis determined the location of LESV and ESV1 in the chloroplast stroma of Arabidopsis. Mass spectrometry data predicted ESV1and LESV proteins as a product of the At1g42430 and At3g55760 genes with a predicted mass of ~50 kDa and ~66 kDa, respectively. The ChloroP program predicted that ESV1 lacks the chloroplast transit peptide, but it predicted the first 56 amino acids N-terminal region as a chloroplast transit peptide for LESV. Usually, the transit peptide is processed during transport of the proteins into plastids. Given that this processing is critical, two forms of each ESV1 and LESV were generated and purified, a full-length form and a truncated form that lacks the transit peptide, namely, (ESV1and tESV1) and (LESV and tLESV), respectively. Both protein forms were included in the analysis assays, but only slight differences in glucan binding and protein action between ESV1 and tESV1 were observed, while no differences in the glucan binding and effect on the GWD and PWD action were observed between LESV and tLESV. The results revealed that the presence of the N-terminal is not massively altering the action of ESV1 or LESV. Therefore, it was only used the ESV1 and tLESV forms data to explain the function of both proteins. However, the analysis of the results revealed that LESV and ESV1 proteins bind strongly at the starch granule surface. Furthermore, not all of both proteins were released after their incubation with starches after washing the granules with 2\% [w/v] SDS indicates to their binding to the deeper layers of the granule surface. Supporting of this finding comes after the binding of both proteins to starches after removing the free glucans chains from the surface by the action of ISA and BAM. Although both proteins are capable of binding to the starch structure, only LESV showed binding to amylose, while in ESV1, binding was not observed. The alteration of glucan structures at the starch granule surface is essential for the incorporation of phosphate into starch granule while the phosphorylation of starch by GWD and PWD increased after removing the free glucan chains by ISA. Furthermore, PWD showed the possibility of starch phosphorylation without prephosphorylation by GWD. Biochemical studies on protein-glucan interactions between LESV or ESV1 with different types of starch showed a potentially important mechanism of regulating and adjusting the phosphorylation process while the binding of LESV and ESV1 leads to altering the glucan structures of starches, hence, render the effect of the action of dikinases enzymes (GWD and PWD) more able to control the rate of starch degradation. Despite the presence of ESV1 which revealed an antagonistic effect on the PWD action as the PWD action was decreased without prephosphorylation by GWD and increased after prephosphorylation by GWD (Chapter 4), PWD showed a significant reduction in its action with or without prephosphorylation by GWD in the presence of ESV1 whether separately or together with LESV (Chapter 5). However, the presence of LESV and ESV1 together revealed the same effect compared to the effect of each one alone on the phosphorylation process, therefore it is difficult to distinguish the specific function between them. However, non-interactions were detected between LESV and ESV1 or between each of them with GWD and PWD or between GWD and PWD indicating the independent work for these proteins. It was also observed that the alteration of the starch structure by LESV and ESV1 plays a role in adjusting starch degradation rates not only by affecting the dikinases but also by affecting some of the hydrolysing enzymes since it was found that the presence of LESV and ESV1leads to the reduction of the action of BAM, but does not abolish it.},
  language  = {en}
}
@phdthesis{Albers2018,
  author    = {Albers, Philip},
  title     = {Funktionelle Charakterisierung des bakteriellen Typ-III Effektorproteins HopZ1a in Nicotiana benthamiana},
  school      = {Universit{\"a}t Potsdam},
  pages     = {viii, 134},
  year      = {2018},
  abstract  = {Um das Immunsystem der Pflanze zu manipulieren translozieren gram-negative pathogene Bakterien Typ-III Effektorproteine (T3E) {\"u}ber ein Typ-III Sekretionssystem (T3SS) in die pflanzliche Wirtszelle. Dort lokalisieren T3Es in verschiedenen subzellul{\"a}ren Kompartimenten, wo sie Zielproteine modifizieren und so die Infektion beg{\"u}nstigen. HopZ1a, ein T3E des Pflanzenpathogens Pseudomonas syringae pv. syringae, ist eine Acetyltransferase und lokalisiert {\"u}ber ein Myristolierungsmotiv an der Plasmamembran der Wirtszelle. Obwohl gezeigt wurde, dass HopZ1a die fr{\"u}he Signalweiterleitung an der Plasmamembran st{\"o}rt, wurde bisher kein mit der Plasmamembran assoziiertes Zielprotein f{\"u}r diesen T3E identifiziert. Um bisher unbekannte HopZ1a-Zieleproteine zu identifizieren wurde im Vorfeld dieser Arbeit eine Hefe-Zwei-Hybrid-Durchmusterung mit einer cDNA-Bibliothek aus Tabak durchgef{\"u}hrt, wobei ein nicht n{\"a}her charakterisiertes Remorin als Interaktor gefunden wurde. Bei dem Remorin handelt es sich um einen Vertreter der Gruppe 4 der Remorin-Familie, weshalb es in NbREM4 umbenannt wurde. Durch den Einsatz verschiedener Interaktionsstudien konnte demonstriert werden, dass HopZ1a mit NbREM4 in Hefe, in vitro und in planta wechselwirkt. Es wurde ferner deutlich, dass HopZ1a auf spezifische Weise mit dem konservierten C-Terminus von NbREM4 interagiert, das Remorin jedoch in vitro nicht acetyliert. Analysen mittels BiFC haben zudem ergeben, dass NbREM4 in Homodimeren an der Plasmamembran lokalisiert, wo auch die Interaktion mit HopZ1a stattfindet. Eine funktionelle Charakterisierung von NbREM4 ergab, dass das Remorin eine spezifische Rolle im Immunsystem der Pflanze einnimmt. Die transiente Expression in N. benthamiana induziert die Expression von Abwehrgenen sowie einen ver{\"a}nderten Blattph{\"a}notyp. In A. thaliana wird HopZ1a {\"u}ber das Decoy ZED1 und das R-Protein ZAR1 erkannt, was zur Ausl{\"o}sung einer starken Hypersensitiven Antwort (HR von hypersensitive response) f{\"u}hrt. Es konnte im Rahmen dieser Arbeit gezeigt werden, dass ZAR1 in N. benthamiana konserviert ist, NbREM4 jedoch nicht in der ETI als Decoy fungiert. Mit Hilfe einer Hefe-Zwei-Hybrid-Durchmusterung mit NbZAR1 als K{\"o}der konnten zwei Proteine, die Catalase CAT1 und der Protonenpumpeninteraktor PPI1, als Interaktoren von NbZAR1 identifiziert werden, welche m{\"o}glicherweise in der Regulation der HR eine Rolle spielen. Aus Voruntersuchungen war bekannt, dass NbREM4 mit weiteren, nicht n{\"a}her charakterisierten Proteinen aus Tabak interagieren k{\"o}nnte. Eine phylogenetische Einordnung hat gezeigt, dass es sich um die bekannte Immun-Kinase PBS1 sowie zwei E3-Ubiquitin-Ligasen, NbSINA1 und NbSINAL3, handelt. PBS1 interagiert mit NbREM4 an der Plasmamembran und phosphoryliert das Remorin innerhalb des intrinsisch ungeordneten N-Terminus. Mittels Massenspektrometrie konnten die Serine an Position 64 und 65 innerhalb der Aminos{\"a}uresequenz von NbREM4 als PBS1-abh{\"a}ngige Phosphorylierungsstellen identifiziert wurden. NbSINA1 und NbSINAL3 besitzen in vitro Ubiquitinierungsaktivit{\"a}t, bilden Homo- und Heterodimere und interagieren ebenfalls mit dem N-terminalen Teil von NbREM4, wobei sie das Remorin in vitro nicht ubiquitinieren. Aus den in dieser Arbeit gewonnenen Ergebnissen l{\"a}sst sich ableiten, dass der bakterielle T3E HopZ1a gezielt mit dem Tabak-Remorin NbREM4 an der Plasmamembran interagiert und {\"u}ber einen noch unbekannten Mechanismus mit dem Immunsystem der Pflanze interferiert, wobei NbREM4 m{\"o}glicherweise eine Rolle als Adapter- oder Ankerprotein zukommt, {\"u}ber welches HopZ1a mit weiteren Immunkomponenten interagiert. NbREM4 ist Teil eines gr{\"o}ßeren Immunnetzwerkes, zu welchem die bekannte Immun-Kinase PBS1 und zwei E3-Ubiquitin-Ligasen geh{\"o}ren. Mit NbREM4 konnte damit erstmalig ein membranst{\"a}ndiges Protein mit einer Funktion im Immunsystem der Pflanze als Zielprotein von HopZ1a identifiziert werden.},
  language  = {de}
}
@phdthesis{Albrecht1998,
  author    = {Albrecht, Tanja},
  title     = {Quart{\"a}rstruktur, Funktion und Lokation der Pho 1-Phosphorylasen aus Solanum tuberosum L.},
  address   = {Potsdam},
  pages     = {122 S. : graph. Darst.},
  year      = {1998},
  language  = {de}
}