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Production and use of many synthetic halogenated trace gases are regulated internationally due to their contribution to stratospheric ozone depletion or climate change. In many applications they have been replaced by shorter-lived compounds, which have become measurable in the atmosphere as emissions increased. Non-target monitoring of trace gases rather than targeted measurements of well-known substances is needed to keep up with such changes in the atmospheric composition. We regularly deploy gas chromatography (GC) coupled to time-of-flight mass spectrometry (TOF-MS) for analysis of flask air samples and in situ measurements at the Taunus Observatory, a site in central Germany. TOF-MS acquires data over a continuous mass range that enables a retrospective analysis of the dataset, which can be considered a type of digital air archive. This archive can be used if new substances come into use and their mass spectrometric fingerprint is identified. However, quantifying new replacement halocarbons can be challenging, as mole fractions are generally low, requiring high measurement precision and low detection limits. In addition, calibration can be demanding, as calibration gases may not contain sufficiently high amounts of newly measured substances or the amounts in the calibration gas may have not been quantified. This paper presents an indirect data evaluation approach for TOF-MS data, where the calibration is linked to another compound which could be quantified in the calibration gas. We also present an approach to evaluate the quality of the indirect calibration method, select periods of stable instrument performance and determine well suited reference compounds. The method is applied to three short-lived synthetic halocarbons: HFO-1234yf, HFO-1234ze(E), and HCFO-1233zd(E). They represent replacements for longer-lived hydrofluorocarbons (HFCs) and exhibit increasing mole fractions in the atmosphere.
The indirectly calibrated results are compared to directly calibrated measurements using data from TOF-MS canister sample analysis and TOF-MS in situ measurements, which are available for some periods of our dataset. The application of the indirect calibration method on several test cases can result in uncertainties of around 6 % to 11 %. For hydro(chloro-)fluoroolefines (denoted H(C)FOs), uncertainties up to 23 % are achieved. The indirectly calculated mole fractions of the investigated H(C)FOs at Taunus Observatory range between measured mole fractions at urban Dübendorf and Jungfraujoch stations in Switzerland.
Paläoklimarekonstruktionen, die es sich zum Ziel gesetzt haben, Klima-Mensch Interaktionen auf lange Zeitreihen betrachtet zu erforschen, nehmen begünstigt durch die aktuell intensiv geführte Klimadebatte, einen immer größer werdenden Stellenwert in der öffentlichen und wissenschaftlichen Wahrnehmung ein. Denn trotz aller wissenschaftlicher Fortschritte, die in den vergangenen Jahrzehnten im Bereich der modernen Klimaforschung gemacht wurden, bleibt die zuverlässige Vorhersage und Modellierung von zukünftigen Klimaveränderungen noch immer eine der größten Herausforderungen unser heutigen Zeit. Betrachtet man die Karibik exemplarisch in diesem Rahmen, dann prognostizieren viele Modellrechnungen, infolge steigender Ozeantemperaturen, ein deutlich häufigeres Auftreten von tropischen Stürmen und Hurrikanen sowie eine Verschiebung hin zu höheren Sturmstärken. Dieser Trend stellt für die Karibik und viele daran angrenzende Staaten eine der größten Gefahren des modernen Klimawandels dar, den es wissenschaftlich über einen langen Zeitrahmen zu erforschen gilt.
Klimaprognosen stützen sich meist vollständig auf hoch-aufgelöste instrumentelle Datensätze. Diese sind aber alle durch einen wesentlichen Aspekt limitiert. Aufgrund ihrer eingeschränkten Verfügbarkeit (~150 Jahre) fehlt ihnen die erforderliche Tiefe, um die auf langen Zeitskalen operierenden Prozesse der globalen Klimadynamik adäquat abbilden zu können. Betrachtet man das Holozän in seiner Gesamtheit, so wurde die globale Klimadynamik über die vergangenen ~11,700 Jahre von periodisch auftretenden Prozessen und Abläufen gesteuert. Diese wirken grundsätzlich über Zeiträume von mehreren Jahrzehnten, teilweise Jahrhunderten und in einigen Fällen sogar Jahrtausenden. Viele dieser natürlichen Prozesse, können in der kurzen Instrumentellen Ära nicht gänzlich identifiziert und angemessen in Klimamodellen berücksichtig werden. Die alleinige Berücksichtigung der Instrumentellen Ära bietet daher nur eine eingeschränkte Perspektive, um die Ursachen und Abläufe von vergangenen sowie mögliche Folgen von zukünftigen Klimaveränderungen zu verstehen. Um diese Einschränkung zu überwinden, ist es somit erforderlich, dass die geowissenschaftliche Forschung mit Proxymethoden ein zusammenfassendes und mechanistisches Verständnis über alle Holozänen Klimaveränderungen erlangt.
Wenn man sich diese Limitierung, die ansteigenden Ozeantemperaturen und das in der Karibik in den vergangen 20 Jahren vermehrte Auftreten von starken tropischen Zyklonen ins Gedächtnis ruft, ist es nachvollziehbar, dass im Rahmen dieser Doktorarbeit ein zwei Jahrtausende langer und jährlich aufgelöster Klimadatensatz erarbeitet werden soll, der spät Holozäne Variationen von Ozeanoberflächenwasser-temperaturen (SST) und daraus resultierende lang-zeitliche Veränderungen in der Häufigkeit tropischer Zyklone widerspiegelt. In Zentralamerika wird das Ende der Maya Hochkultur (900-1100 n.Chr.) mit drastischen Umweltveränderungen (z.B. Dürren) assoziiert, die während der Mittelalterlichen Warmzeit (MWP; 900-1400 n.Chr.) durch eine globale Klimaveränderung hervorgerufen wurde. Die aus einem „Blue Hole“ abgeleiteten Informationen über Klimavariationen der Vergangenheit können als Referenz für die gegenwärtige Klimakriese verwendet werden.
Als „Blue Hole“ wird eine Karsthöhle bezeichnet, die sich subaerisch während vergangener Meeresspiegeltiefstände im karbonatischen Gerüst eines Riffsystems gebildet hat und in Folge eines Meeresspiegelanstiegs vollständig überflutet wurde. In einigen wenigen marinen „Blue Holes“ treten anoxische Bodenwasserbedingungen auf. Die in diesen anoxischen Karsthöhlen abgelagerten Abfolgen mariner Sedimente können als einzigartiges Klimaarchiv verwendet werden, da sie aufgrund des Fehlens von Bioturbation eine jährliche Schichtung (Warvierung) aufweisen.
In dieser kumulativen Dissertation über das „Great Blue Hole“ werden die Ergebnisse eines 3-jährigen Forschungsprojekts vorgestellt, dass das Ziel verfolgte einen wissenschaftlich herausragenden spät Holozänen Klimadatensatz für die süd-westliche Karibik zu erzeugen. Beim „Great Blue Hole“ handelt es sich um ein weltweit einzigartiges marines Sedimentarchiv für diverse spät Holozäne Klima-veränderungen, das im Zuge dieser Dissertation sowohl nach paläoklimatischen als auch nach sedimentologischen Fragestellungen untersucht wurde. Die vorliegende Doktorarbeit befasst sich im Einzelnen mit (1) der Ausarbeitung eines jährlich aufgelösten Archives für tropische Zyklone, (2) der Entwicklung eines jährlich aufgelösten SST Datensatzes und (3) einer kompositionellen Quantifizierung der sedimentären Abfolgen sowie einer faziell-stratigraphischen Charakterisierung von Schönwetter-Sedimenten und Sturmlagen. Zu jedem dieser drei Aspekte, wurde jeweils ein Fachartikel bei einer anerkannten wissenschaftlichen Fachzeitschrift mit „peer-review“ Verfahren veröffentlicht.
Der insgesamt 8.55 m lange Sedimentbohrkern („BH6“), der für diese Dissertation untersucht wurde, stammt vom Boden des 125 m tiefen und 320 m breiten „Great Blue Holes“, das sich in der flachen östlichen Lagune des 80 km vor der Küste von Belize (Zentralamerika) gelegenen „Lighthouse Reef“ Atolls befindet. Durch seine besondere Geomorphologie wirkt das, innerhalb des atlantischen „Hurrikan Gürtels“ positionierte, „Great Blue Hole“ wie eine gigantische Sedimentfalle. Die unter Schönwetter-Bedingungen kontinuierlich abgelagerten Abfolgen feinkörniger karbonatischer Sedimente, werden von groben Sturmlagen unterbrochen, die auf „over-wash“ Prozesse von tropischen Zyklonen zurückzuführen sind.
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Probing the photointermediates of light-driven sodium ion pump KR2 by DNP-enhanced solid-state NMR
(2021)
KR2 is a light-driven sodium ion pump found in marine flavobacterium Krokinobacter Eikastus. The protein belongs to the microbial rhodopsin family, which is characterized by seven transmembrane helices and a retinal cofactor covalently bound to a conserved lysine residue through a Schiff base linkage. Specific features of KR2 and other sodium pumping rhodopsins are the NDQ motif, the N-terminal helix capping the protein at the extracellular side, and the sodium ion bound at the protomer interface in the pentameric structure. The ability to pump sodium ions was a surprising discovery since the positive charge at the Schiff base was long thought to hinder the transport of non-proton cations and the Grotthuss mechanism could not be applied to explain the Na+ transport. The photocycle of KR2 revealed by flashed photolysis and ultrafast femtosecond absorption spectroscopy consists of consecutive intermediates, named K, L, M, and O.
Here, DNP-enhanced ssNMR was used to analyze various aspects of these intermediate states. The K/L-state can be generated and trapped by in-situ illumination inside the magnet at 110 K. The trapping of L-state together with the K-state at this temperature is unexpected as this usually leads to the trapping of only K-state in bacteriorhodopsin (BR), proteorhodopsin (PR), and channelrhodopsin 2 (ChR2). This observation suggests a lower energy barrier between K- and L-state in KR2. For the O-state, the intermediate was generated by illuminating outside the magnet, followed by rapid freezing in liquid nitrogen and transfer to the magnet. Based on these procedures, the retinal conformation, and the electrostatic environment at the Schiff base in KR2 dark, K-, L- and O-intermediates were probed using 13C-labeled retinals bound to 15N-labeled KR2 by both 1D and 2D magic angle spinning (MAS) NMR experiments.
The obtained data show an all-trans retinal conformation with the distortion of 150° at H-C14-C15-H in the dark state whereas the retinal has a 13-cis, 15-anti conformation in the K- and L-state after light activation. Differences between K- and L-intermediates were observed. The retinal chemical shifts of the K-state show a large deviation from the model compound behavior between the middle and end part of the polyene chain. In the L-state, these differences are much less pronounced. These observations indicate that the light energy stored in the K-state dissipates into the protein in the subsequent photointermediate states. Furthermore, an additional shielding observed for C14 in L-state indicates the slight rotation toward a more compact 13-cis, 15-syn conformation. The distortion of the H-C14-C15-H angle in the L-state (136°) is larger than in the dark state. This twist of the retinal in the L-state would play an important role in lowering the pKa of the Schiff base, which is a prerequisite for the proton transfer from the Schiff base to the proton acceptor (D116). The electrostatic environments at the Schiff base in K- and L-states cause a de-shielding of the 15N nitrogen compared to the dark state. This indicates a stepwise stronger interaction with the counterion as the Schiff base proton moves away from the Schiff base and comes closer to the D116 in the transition from K- to L-state and approaches the proton transfer step during the M-state formation. In the O-state, the retinal was found to be in the all-trans conformation but differed to the dark state in the C13, C20, and Schiff base nitrogen chemical shifts. The largest effect (9 ppm) was observed for the Schiff base nitrogen, which could be explained by the effect of the positive charge of bound Na+ near the Schiff base in the O-state, coordinated by N112 and D116 as observed in the O-state crystal structure in the pentameric form.
The structural change at the opsin followed the retinal isomerization and the energy transfer from the chromophore to the surrounding were also investigated in this thesis using various amino acids labeling schemes. Moreover, 1H-13C hNOE in combination with CE-DNP was applied to probe the dynamics of retinylidene methyl groups and 23Na MAS NMR was employed to detect the bound sodium ion at the protomer interface in KR2 dark state.
Background: Previous studies have demonstrated that CF (Cystic Fibrosis) prognosis is dependent of three major parameters: FEV1 (Forced Expiratory Pressure in one second), BMI (Body Mass Index) and need of intravenous antibiotic therapy. The CF centres of Frankfurt, Germany, and Moscow, Russia, care for cystic fibrosis patients. We decided to investigate and compare both centers from 1990 to 2015. No comparable study has been published so far.
Method: German patient data was collected from the national cystic fibrosis database “Muko.web”. Missing values were extracted from the Hospital Information System. Russian patient data were taken directly from the medical records in Moscow. In a descriptive statistical analysis with Bias and R Studio the values were compared.
Result: A total of 428 patients from Moscow (217 male, 211 female; 348 (81,3%) were P. aeruginosa positive) and 159 patients from Frankfurt (92 male, 67 female; 137 (86,2%) with P. aeruginosa positive) were compared with regard to P. aeruginosa positivity, BMI, FEV1 and need of intravenous antibiotic therapy. CF patients in Moscow stratified by age groups had lower BMI than CF patients in Frankfurt (age 16-18: p=0,003; age 19-22: p=0,004; age 23-29: p<0,001; age 30-35: p<0,001; age 36-66: p=0,024). In a matching pairs analysis including 100 patients from Frankfurt and 100 patients from Moscow for the year 2015 FEV1 was significantly lower in Moscow patients (p<0,001).
Conclusion: BMI, FEV1 and need of intravenous therapy have significant impact on survival and on quality of life of CF patients. A lower BMI and a lower FEV1 result in a worse survival and determine the prognosis. This study showed a significant difference in prognostic parameters between Frankfurt and Moscow in the crosssectional analysis for the year 2015. A further study should evaluate this difference to show whether this difference will be found over a longer period of time.
The role of orthographic knowledge for reading performance in German elementary school children
(2021)
Reading is crucial for successful participation in the modern world. However, 3-8% (e.g., Moll et al., 2014) of children in elementary school age show reading difficulties, which can lead to limited education and enhance risks of social and financial disadvantages (Valtin, 2017). Therefore, it is important to identify reading relevant components (Tippelt & Schmidt-Hertha, 2018). In this context, especially phonological awareness (i.e., awareness of the sound structure of the language) and naming speed (i.e., fast and automatized retrieval of information) were identified as significant components for reading skills (e.g., Georgiou et al., 2012; Landerl & Thaler, 2006; Vellutino, Fletcher, Snowling, & Scanlon, 2004). One further component, which is of growing interest to the recent research, is orthographic knowledge. It comprises the knowledge about the spelling of specific words (word-specific orthographic knowledge) and about legal letter patterns (general orthographic knowledge; Apel, 2011).
Previous research focused predominantly on examining the role of orthographic knowledge on basic reading level, including word identification and word meaning (Conrad et al., 2013; Rothe et al., 2015). The relationship between orthographic knowledge and reading comprehension as the core objective of reading, including understanding of the relationship between words within a sentence as well as building a coherence between sentences (Perfetti et al., 2005), was on the contrary scarcely the object of research. The first goal of this dissertation is, therefore, to provide a remedy by investigating the role of orthographic knowledge on higher reading processes (sentence- and text-level). The scarce body of research investigating children with reading difficulties provide a mixed result pattern (e.g., Ise et al., 2014). Therefore, this dissertation aims at clarifying the influence of orthographic knowledge on word-, sentence-, and text-level in children without and with reading difficulties.
A thorough understanding of reading relevant components is also important for conception of interventions aiming at individual reading performance improvements in order to prevent school failure. One promising approach to help children to overcome their reading difficulties is a text-fading based reading training. During this procedure, reading material is faded out letter by letter in reading direction (i.e., in German from left to right; Breznitz & Nevat, 2006). The aim of this manipulation is to prompt the individual to read faster than usual, resulting in reading rate and comprehension improvements (e.g., Nagler et al., 2015). However, the underlying mechanisms leading to improvements of reading performance are still unclear. Considering previous findings showing orthographic skills to influence training outcomes (Berninger et al., 1999), and also word reading performance after a reading intervention (Stage et al., 2003), it seems plausible to include orthographic knowledge when investigating potential training effects. Therefore, this dissertation aims at investigating the predictive value of orthographic knowledge for comprehension performance during the text-fading based reading training.
In order to answer the first research question, two empirical papers are implemented (see Appendix A: Zarić et al., 2020 and Appendix B: Zarić & Nagler, 2021), which investigate the role of orthographic knowledge for reading at word-, sentence-, and text-level in German school children without and with reading difficulties. The study by Zarić et al. (2020) examines the incremental predictive value for explained reading variance of both word-specific and general orthographic knowledge in relation to variance amount explained by general intelligence and phonological awareness. For this purpose, data from 66 German third-graders without reading difficulties were analyzed. Correlation and multiple regression analyses have shown that word-specific and general orthographic knowledge contribute a unique significant amount to the variance of reading comprehension on word-, sentence-, and text-level, over and above the explained variance by general intelligence and phonological awareness. In order to answer the question whether word-specific and general orthographic knowledge also explain variance in children with poor reading proficiency, in addition to established predictors phonological awareness and naming speed, the data from 103 German third-graders with reading difficulties were analyzed in a second study (Zarić & Nagler, 2021). The analyses revealed that word-specific and general orthographic knowledge explain a unique significant amount of the variance of reading on word- and sentence-level. On text-level, these two components did not explain a significant amount of unique variance. Here, only phonological awareness was shown to be a significant predictor. The results indicate that the knowledge about the spelling of specific words (word-specific orthographic knowledge) and the knowledge about legal letter patterns (general orthographic knowledge) contribute to reading comprehension on word-level. Following the assumptions, for instance, of the Lexical Quality Hypothesis (Perfetti & Hart, 2002) high-quality orthographic representations are considered to be important for higher reading processes, such as comprehension.
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Chronic intestinal failure (CIF) is a rare but feared complication of Crohn’s disease. Depending on the remaining length of the small intestine, the affected intestinal segment, and the residual bowel function, CIF can result in a wide spectrum of symptoms, from single micronutrient malabsorption to complete intestinal failure. Management of CIF has improved significantly in recent years. Advances in home-based parenteral nutrition, in particular, have translated into increased survival and improved quality of life. Nevertheless, 60% of patients are permanently reliant on parenteral nutrition. Encouraging results with new drugs such as teduglutide have added a new dimension to CIF therapy. The outcomes of patients with CIF could be greatly improved by more effective prevention, understanding, and treatment. In complex cases, the care of patients with CIF requires a multidisciplinary approach involving not only physicians but also dietitians and nurses to provide optimal intestinal rehabilitation, nutritional support, and an improved quality of life. Here, we summarize current literature on CIF and short bowel syndrome, encompassing epidemiology, pathophysiology, and advances in surgical and medical management, and elucidate advances in the understanding and therapy of CIF-related complications such as catheter-related bloodstream infections and intestinal failure-associated liver disease.