Wireless Interference Identification with Convolutional Neural Networks

The steadily growing use of license-free frequency bands requires reliable coexistence management for deterministic medium utilization. For interference mitigation, proper wireless interference identification (WII) is essential. In this work we propose the first WII approach based upon deep convolutional neural networks (CNNs). The CNN naively learns its features through self-optimization during an extensive data-driven GPU-based training process. We propose a CNN example which is based upon sensing snapshots with a limited duration of 12.8 {\mu}s and an acquisition bandwidth of 10 MHz. The CNN differs between 15 classes. They represent packet transmissions of IEEE 802.11 b/g, IEEE 802.15.4 and IEEE 802.15.1 with overlapping frequency channels within the 2.4 GHz ISM band. We show that the CNN outperforms state-of-the-art WII approaches and has a classification accuracy greater than 95% for signal-to-noise ratio of at least -5 dB

A Software-Defined Channel Sounder for Industrial Environments with Fast Time Variance

Novel industrial wireless applications require wideband, real-time channel characterization due to complex multipath propagation. Rapid machine motion leads to fast time variance of the channel's reflective behavior, which must be captured for radio channel characterization. Additionally, inhomogeneous radio channels demand highly flexible measurements. Existing approaches for radio channel measurements either lack flexibility or wide-band, real-time performance with fast time variance. In this paper, we propose a correlative channel sounding approach utilizing a software-defined architecture. The approach enables real-time, wide-band measurements with fast time variance immune to active interference. The desired performance is validated with a demanding industrial application example.Comment: Submitted to the 15th International Symposium on Wireless Communication Systems (ISWCS 2018

Bacterial niche adaptation at hydrothermal vents

At deep sea hydrothermal fields, a mixing gradient between hot reduced fluids and cold oxygenated sea water creates a number of micro-environments with different physico-chemical conditions in direct proximity to each other. Although many of the key microorganisms in these environments have been identified and described, a systematic understanding of their distribution across the mixing gradient and their niche partitioning is still missing. In my doctoral thesis, I investigated the interplay of geochemical settings, microbial community structures, and diversification of microorganisms in three collaborative studies of hydrothermal vent fields in the Atlantic and Pacific Oceans. Taken together, this thesis provides a detailed overview of the microbial community structures in hydrothermal vents. It deepens our understanding of niche differentiation of major marine sulfur oxidizers, and offers valuable insights into microbial diversification

Resource Allocation for a Wireless Coexistence Management System Based on Reinforcement Learning

In industrial environments, an increasing amount of wireless devices are used, which utilize license-free bands. As a consequence of these mutual interferences of wireless systems might decrease the state of coexistence. Therefore, a central coexistence management system is needed, which allocates conflict-free resources to wireless systems. To ensure a conflict-free resource utilization, it is useful to predict the prospective medium utilization before resources are allocated. This paper presents a self-learning concept, which is based on reinforcement learning. A simulative evaluation of reinforcement learning agents based on neural networks, called deep Q-networks and double deep Q-networks, was realized for exemplary and practically relevant coexistence scenarios. The evaluation of the double deep Q-network showed that a prediction accuracy of at least 98 % can be reached in all investigated scenarios.Comment: Submitted to the 23rd IEEE International Conference on Emerging Technologies and Factory Automation (ETFA 2018

Rapid succession of uncultured marine bacterial and archaeal populations in a denitrifying continuous culture.

Kraft B, Tegetmeyer H, Meier D, Geelhoed JS, Strous M. Rapid succession of uncultured marine bacterial and archaeal populations in a denitrifying continuous culture. Environmental Microbiology. 2014;16(10):3275-3286.Marine denitrification constitutes an important part of the global nitrogen cycle and the diversity, abundance and process rates of denitrifying microorganisms have been the focus of many studies. Still, there is little insight in the ecophysiology of marine denitrifying communities. In this study, a heterotrophic denitrifying community from sediments of a marine intertidal flat active in nitrogen cycling was selected in a chemostat and monitored over a period of 50 days. The chemostat enabled the maintenance of constant and well-defined experimental conditions over the time-course of the experiment. Analysis of the microbial community composition by automated ribosomal intergenic spacer analysis (ARISA), Illumina sequencing and catalyzed reporter deposition fluorescence in situ hybridization (CARD-FISH) revealed strong dynamics in community composition over time, while overall denitrification by the enrichment culture was stable. Members of the genera Arcobacter, Pseudomonas, Pseudovibrio, Rhodobacterales and of the phylum Bacteroidetes were identified as the dominant denitrifiers. Among the fermenting organisms co-enriched with the denitrifiers was a novel archaeon affiliated with the recently proposed DPANN-superphylum. The pan-genome of populations affiliated to Pseudovibrio encoded a NirK as well as a NirS nitrite reductase, indicating the rare co-occurrence of both evolutionary unrelated nitrite reductases within coexisting subpopulations

Giant Polymer Compartments for Confined Reactions

In nature, various specific reactions only occur in spatially controlled environments. Cell compartment and subcompartments act as the support required to preserve the bio-specificity and functionality of the biological content, by affording absolute segregation. Inspired by this natural perfect behavior, bottom-up approaches are on focus to develop artificial cell-like structures, crucial for understanding relevant bioprocesses and interactions or to produce tailored solutions in the field of therapeutics and diagnostics. In this review, we discuss the benefits of constructing polymer-based single and multicompartments (capsules and giant unilamellar vesicles (GUVs)), equipped with biomolecules as to mimic cells. In this respect, we outline key examples of how such structures have been designed from scratch, namely, starting from the application-oriented selection and synthesis of the amphiphilic block copolymer. We then present the state-of-the-art techniques for assembling the supramolecular structure while permitting the encapsulation of active compounds and the incorporation of peptides/membrane proteins, essential to support in situ reactions, e.g., to replicate intracellular signaling cascades. Finally, we briefly discuss important features that these compartments offer and how they could be applied to engineer the next generation of microreactors, therapeutic solutions, and cell models

Decorating Nanostructured Surfaces with Antimicrobial Peptides to Efficiently Fight Bacteria

With conventional antibiotic therapies being increasingly ineffective, bacterial infections with subsequent biofilm formation represent a global threat to human health. Here, an active and a passive strategy based on polymeric micelles were combined to fight bacterial growth. The passive strategy involved covalent immobilization of polymeric micelles through Michael addition between exposed maleimide and thiol functionalized surfaces. Compared to the bare surface, micelle-decorated surfaces showed reduced adherence and survival of bacteria. To extend this passive defense against bacteria with an active strategy, the immobilized micelles were equipped with the antimicrobial peptide KYE28 (KYEITTIHNLFRKLTHRLFRRNFGYTLR). The peptide interacted nonspecifically with the immobilized micelles where it retained its antimicrobial property. The successful surface decoration with KYE28 was demonstrated by a combination of X-ray photoelectron spectroscopy and quartz crystal microbalance with dissipation monitoring. The initial antimicrobial activity of the nanostructured surfaces against Escherichia coli was found to be increased by the presence of KYE28. The combination of the active and passive strategy represents a straightforward modular approach that can easily be adapted, for example, by exchanging the antimicrobial peptide to optimize potency against challenging bacterial strains, and/or to simultaneously achieve antimicrobial and anti-infection properties

Horizontal acquisition of a patchwork Calvin cycle by symbiotic and free-living Campylobacterota (formerly Epsilonproteobacteria).

Assie A, Leisch N, Meier DV, et al. Horizontal acquisition of a patchwork Calvin cycle by symbiotic and free-living Campylobacterota (formerly Epsilonproteobacteria). The ISME journal. 2019;14(1):104-122.Most autotrophs use the Calvin-Benson-Bassham (CBB) cycle for carbon fixation. In contrast, all currently described autotrophs from the Campylobacterota (previously Epsilonproteobacteria) use the reductive tricarboxylic acid cycle (rTCA) instead. We discovered campylobacterotal epibionts ("Candidatus Thiobarba") of deep-sea mussels that have acquired a complete CBB cycle and may have lost most key genes of the rTCA cycle. Intriguingly, the phylogenies of campylobacterotal CBB cyclegenes suggest they were acquired in multiple transfers from Gammaproteobacteria closely related to sulfur-oxidizing endosymbionts associated with the mussels, as well as from Betaproteobacteria. We hypothesize that "Ca. Thiobarba" switched from the rTCA cycle to a fully functional CBB cycle during its evolution, by acquiring genes from multiple sources, including co-occurring symbionts. We also found key CBB cycle genes in free-living Campylobacterota, suggesting that the CBB cycle may be more widespread in this phylum than previously known. Metatranscriptomics and metaproteomics confirmed high expression of CBB cycle genes in mussel-associated "Ca. Thiobarba". Direct stable isotope fingerprinting showed that "Ca. Thiobarba" has typical CBB signatures, suggesting that it uses this cycle for carbon fixation. Our discovery calls into question current assumptions about the distribution of carbon fixation pathways in microbial lineages, and the interpretation of stable isotope measurements in the environment

Microbial metal-sulfide oxidation in inactive hydrothermal vent chimneys suggested by metagenomic and metaproteomic analyses

Metal-sulfides are wide-spread in marine benthic habitats. At deep-sea hydrothermal vents, they occur as massive sulfide chimneys formed by mineral precipitation upon mixing of reduced vent fluids with cold oxygenated sea water. Although microorganisms inhabiting actively venting chimneys and utilizing compounds supplied by the venting fluids are well studied, only little is known about microorganisms inhabiting inactive chimneys. In this study, we combined 16S rRNA gene-based community profiling of sulfide chimneys from the Manus Basin (SW Pacific) with radiometric dating, metagenome (n = 4) and metaproteome (n = 1) analyses. Our results shed light on potential lifestyles of yet poorly characterized bacterial clades colonizing inactive chimneys. These include sulfate-reducing Nitrospirae and sulfide-oxidizing Gammaproteobacteria dominating most of the inactive chimney communities. Our phylogenetic analysis attributed the gammaproteobacterial clades to the recently described Woeseiaceae family and the SSr-clade found in marine sediments around the world. Metaproteomic data identified these Gammaproteobacteria as autotrophic sulfide-oxidizers potentially facilitating metal-sulfide dissolution via extracellular electron transfer. Considering the wide distribution of these gammaproteobacterial clades in marine environments such as hydrothermal vents and sediments, microbially accelerated neutrophilic mineral oxidation might be a globally relevant process in benthic element cycling and a considerable energy source for carbon fixation in marine benthic habitat