Showing papers by "University of Kiel published in 2022"

Privacy and Confidentiality in Process Mining: Threats and Research Challenges

Abstract: Privacy and confidentiality are very important prerequisites for applying process mining to comply with regulations and keep company secrets. This article provides a foundation for future research ...

What makes a megaplasmid

Abstract: Naturally occurring plasmids come in different sizes. The smallest are less than a kilobase of DNA, while the largest can be over three orders of magnitude larger. Historically, research has tended...

Application of enhanced-efficiency nitrogen fertilizers reduces mineral nitrogen usage and emissions of both N2O and NH3 while sustaining yields in a wheat-rice rotation system

Abstract: The application of nitrification and urease inhibitors with urea can increase the residence time of ammonium (NH4+) in soils and thus reduce nitrogen (N) losses to the environment. We therefore hypothesized that these inhibitors would perform better in enhancing crop yield and lowering nitrous oxide (N2O) and ammonia (NH3) emissions in rice preferring NH4+ than in wheat preferring nitrate (NO3–). Additionally, a biostimulant (BS) when co-applied with urea would improve N uptake and thus reduce N loss as well. Thereby, the objective of this two-year field experiment was to evaluate the effects of urease inhibitor (UI) N-(n-butyl) thiophosphorictriamide (NBPT), the new nitrification inhibitor (NI) 3,4-dimethylpyrazole succinic acid (DMPSA), dual inhibitors (UI + NI) (NBPT + DMPSA), and a BS on crop yield and soil N2O and NH3 emissions in a wheat-rice rotation system. Treatments comprised no N fertilizer (Zero-N), urea under conventional practice (CN), and urea at a reduced rate by 20% either alone (RN) or combined with UI, NI, UI + NI, or BS. Averagely, RN treatment decreased N2O and NH3 emissions by 29.9% and 21.7%, respectively, but reduced grain yield and N use efficiency by 13.1% and 16.3%, respectively, compared with the CN treatment, although not always significantly. However, the combined use of RN and UI, NI, UI + NI, or BS resulted in comparable grain yield and N use efficiency but with lesser N2O and NH3 emissions by 56.4% and 36.1%, respectively averaged across treatments compared with CN treatment. We demonstrated that both inhibitors performed better in reducing N2O and NH3 emissions in rice than in wheat. Overall, we propose that the application of NBPT, DMPSA, and BS could be an effective strategy to mitigate gaseous N pollution while sustaining crop yields in the wheat-rice rotation system.

A Bacterial Dynamin-Like Protein Confers a Novel Phage Resistance Strategy on the Population Level in Bacillus subtilis

Abstract: Bacillus subtilis DynA is a member of the dynamin superfamily, involved in membrane remodeling processes. DynA was shown to catalyze full membrane fusion and it plays a role in membrane surveillance against antibiotics. We show here that DynA also provides a novel resistance mechanism against phage infection. Cells lacking DynA are efficiently lysed after phage infection and virus replication. DynA does not prevent phage infection and replication in individual cells, but significantly delays host cell lysis, thereby slowing down the release of phage progeny from the host cells. During the process, DynA forms large, almost immobile clusters on the cell membrane that seem to support membrane integrity. Single-molecule tracking revealed a shift of freely diffusive molecules within the cytosol toward extended, confined motion at the cell membrane following phage induction. Thus, the bacterial dynamins are the first anti-phage system reported to delay host cell lysis and the last line of defense of a multilayered antiviral defense. DynA is therefore providing protective effects on the population, but not on single cell level. IMPORTANCE Bacteria have to cope with myriads of phages in their natural environments. Consequently, they have evolved sophisticated systems to prevent phage infection or epidemic spreading of the infection in the population. We show here that a bacterial dynamin-like protein is involved in phage resistance. The Bacillus subtilis DynA protein delays lysis of infected bacteria and reduces spreading of the phage particles. Thus, the dynamin mediated protection is not at the level of the individual cell, but on the population level. The bacterial DynA is the last line of defense to reduce the deleterious effect of a phage infection in a bacterial community. Interestingly, dynamin-like proteins such as Mx proteins are also involved in antiviral activities in Eukaryotes. Thus, the interaction of dynamin-like proteins and viruses seem to be an evolutionary ancient process.

Immunological tolerance in the evolution of male pregnancy

Abstract: The unique male pregnancy in pipefishes and seahorses ranges from basic attachment (pouch-less species: Nerophinae) of maternal eggs to specialized internal gestation in pouched species (e.g. Syngnathus and Hippocampus) with many transitions in between. Due to this diversity, male pregnancy offers a unique platform for assessing physiological and molecular adaptations in pregnancy evolution. These insights will contribute to answering long-standing questions of why and how pregnancy evolved convergently in so many vertebrate systems. To understand the molecular congruencies and disparities in male pregnancy evolution, we compared transcriptome-wide differentially expressed genes in four syngnathid species, at four pregnancy stages (nonpregnant, early, late and parturition). Across all species and pregnancy forms, metabolic processes and immune dynamics defined pregnancy stages, especially pouched species shared expression features akin to female pregnancy. The observed downregulation of adaptive immune genes in early-stage pregnancy and its reversed upregulation during late/parturition in pouched species, most notably in Hippocampus, combined with directionless expression in the pouch-less species, suggests immune modulation to be restricted to pouched species that evolved placenta-like systems. We propose that increased foeto-paternal intimacy in pouched syngnathids commands immune suppression processes in early gestation, and that the elevated immune response during parturition coincides with pouch opening and reduced progeny reliance. Immune response regulation in pouched species supports the recently described functional MHC II pathway loss as critical in male pregnancy evolution. The independent co-option of similar genes and pathways both in male and female pregnancy highlights immune modulation as crucial for the evolutionary establishment of pregnancy.

Astrospheres of Planet-Hosting Cool Stars and Beyond ⋅ When Modeling Meets Observations

Abstract: Abstract Thanks to dedicated long-term missions like Voyager and GOES over the past 50 years, much insight has been gained on the activity of our Sun, the solar wind, its interaction with the interstellar medium, and, thus, about the formation, the evolution, and the structure of the heliosphere. Additionally, with the help of multi-wavelength observations by the Hubble Space Telescope , Kepler , and TESS , we not only were able to detect a variety of extrasolar planets and exomoons but also to study the characteristics of their host stars, and thus became aware that other stars drive bow shocks and astrospheres. Although features like, e.g., stellar winds, could not be measured directly, over the past years several techniques have been developed allowing us to indirectly derive properties like stellar mass-loss rates and stellar wind speeds, information that can be used as direct input to existing astrospheric modeling codes. In this review, the astrospheric modeling efforts of various stars will be presented. Starting with the heliosphere as a benchmark of astrospheric studies, investigating the paleo-heliospheric changes and the Balmer $\text{H}\upalpha$ H α projections to $1~\text{pc}$ 1 pc , we investigate the surroundings of cool and hot stars, but also of more exotic objects like neutron stars. While pulsar wind nebulae (PWNs) might be a source of high-energy galactic cosmic rays (GCRs), the astrospheric environments of cool and hot stars form a natural shield against GCRs. Their modulation within these astrospheres, and the possible impact of turbulence, are also addressed. This review shows that all of the presented modeling efforts are in excellent agreement with currently available observations.

Investigating the interaction of waves and river discharge during compound flooding at Breede Estuary, South Africa

Abstract: Abstract. Recent studies have drawn special attention to the significant dependencies between flood drivers and the occurrence of compound flood events in coastal areas. This study investigates compound flooding from tides, river discharge (Q), and specifically waves using a hydrodynamic model at the Breede Estuary, South Africa. We quantify vertical and horizontal differences in flood characteristics caused by driver interaction and assess the contribution of waves. Therefore, we compare flood characteristics resulting from compound flood scenarios to those in which single drivers are omitted. We find that flood characteristics are more sensitive to Q than to waves, particularly when the latter only coincides with high spring tides. When interacting with Q, however, the contribution of waves is high, causing 10 %–12 % larger flood extents and 45–85 cm higher water depths, as waves caused backwater effects and raised water levels inside the lower reaches of the estuary. With higher wave intensity, the first flooding began up to 12 h earlier. Our findings provide insights on compound flooding in terms of flood magnitude and timing at a South African estuary and demonstrate the need to account for the effects of compound events, including waves, in future flood impact assessments of open South African estuaries.

FGFR2 overexpression and compromised survival in diffuse-type gastric cancer in a large central European cohort

Abstract: The significance of fibroblast growth factor receptor 2 (FGFR2) in gastric cancer (GC) has been studied predominantly in Asian patient cohorts. Data on White patients are scarce. Here, we aimed to independently validate the expression and putative tumor biological significance of FGFR2 in a large non-Asian GC cohort. Immunohistochemistry (IHC) was performed on large-area tissue sections from 493 patients with GC and evaluated using the HScore. GCs with moderate and strong FGFR2 expression were studied for Fgfr2 amplification using chromogenic in situ hybridization (CISH). Median overall survival was determined using the Kaplan-Meier method. The majority [240 (99.1%)] of FGFR2-positive GCs showed a variable combination of staining intensities with marked intratumoral heterogeneity, including weak [198 (40.2%) cases], moderate [145 (29.4%)], and strong [108 (21.9%)] staining in diverse combinations. 250 (50.9%) GCs expressed no FGFR2. Fgfr2 gene amplification was found in 40% of selected cases with high protein expression and was also heterogeneous at the cell level. FGFR2 protein expression did not correlate with patient survival in the entire cohort However, using different cutoff values, a negative correlation between FGFR2-expression and patient outcome was found for diffuse-type GC. FGFR2 expression was associated with a lower tumor grade and intestinal phenotype (p≤0.0001). FGFR2-positive diffuse-type GCs classify a small subset of patients with a poor tumor specific survival (5.29±1.3 vs. 14.67±1.9 months; p = 0.004).

Exploring Effects of C. elegans Protective Natural Microbiota on Host Physiology

Abstract: The Caenorhabditis elegans natural microbiota was described only recently. Thus, our understanding of its effects on nematode physiology is still in its infancy. We previously showed that the C. elegans natural microbiota isolates Pseudomonas lurida MYb11 and P. fluorescens MYb115 protect the worm against pathogens such as Bacillus thuringiensis (Bt). However, the overall effects of the protective microbiota on worm physiology are incompletely understood. Here, we investigated how MYb11 and MYb115 affect C. elegans lifespan, fertility, and intestinal colonization. We further studied the capacity of MYb11 and MYb115 to protect the worm against purified Bt toxins. We show that while MYb115 and MYb11 affect reproductive timing and increase early reproduction only MYb11 reduces worm lifespan. Moreover, MYb11 aggravates killing upon toxin exposure. We conclude that MYb11 has a pathogenic potential in some contexts. This work thus highlights that certain C. elegans microbiota members can be beneficial and costly to the host in a context-dependent manner, blurring the line between good and bad.

Multidimensional thermally-induced transformation of nest-structured complex Au-Fe nanoalloys towards equilibrium

Abstract: Bimetallic nanoparticles are often superior candidates for a wide range of technological and biomedical applications owing to their enhanced catalytic, optical, and magnetic properties, which are often better than their monometallic counterparts. Most of their properties strongly depend on their chemical composition, crystallographic structure, and phase distribution. However, little is known of how their crystal structure, on the nanoscale, transforms over time at elevated temperatures, even though this knowledge is highly relevant in case nanoparticles are used in, e.g., high-temperature catalysis. Au-Fe is a promising bimetallic system where the low-cost and magnetic Fe is combined with catalytically active and plasmonic Au. Here, we report on the in situ temporal evolution of the crystalline ordering in Au-Fe nanoparticles, obtained from a modern laser ablation in liquids synthesis. Our in-depth analysis, complemented by dedicated atomistic simulations, includes a detailed structural characterization by X-ray diffraction and transmission electron microscopy as well as atom probe tomography to reveal elemental distributions down to a single atom resolution. We show that the Au-Fe nanoparticles initially exhibit highly complex internal nested nanostructures with a wide range of compositions, phase distributions, and size-depended microstrains. The elevated temperature induces a diffusion-controlled recrystallization and phase merging, resulting in the formation of a single face-centered-cubic ultrastructure in contact with a body-centered cubic phase, which demonstrates the metastability of these structures. Uncovering these unique nanostructures with nested features could be highly attractive from a fundamental viewpoint as they could give further insights into the nanoparticle formation mechanism under non-equilibrium conditions. Furthermore, the in situ evaluation of the crystal structure changes upon heating is potentially relevant for high-temperature process utilization of bimetallic nanoparticles, e.g., during catalysis.

Chirality of Valley Excitons in Monolayer Transition-Metal Dichalcogenides

Abstract: By enabling control of valley degrees of freedom in transition-metal dichalcogenides, valley-selective circular dichroism has become a key concept in valleytronics. Herein, we show that valley excitons, bound electron-hole pairs formed at the K or K̅ valleys upon absorption of circularly polarized light, are chiral quasiparticles characterized by a finite orbital angular momentum (OAM). We further formulate an ab initio many-body theory of valley-selective circular dichroism and valley excitons based on the Bethe-Salpeter equation. Besides governing the interaction with circularly polarized light, the OAM confers upon excitons a finite magnetization that manifests itself through an excitonic Zeeman splitting upon interaction with external magnetic fields. The good agreement between our ab initio calculations and recent experimental measurements of the exciton Zeeman shifts corroborates this picture, indicating that valley excitons can carry angular momentum even in their singlet state.