Active bacterioplankton community response to dissolved ‘free’ deoxyribonucleic acid (dDNA) in surface coastal marine waters

Seawater contains dissolved ‘free’ DNA (dDNA) that is part of a larger <0.2 μm pool of DNA (D-DNA) including viruses and uncharacterised bound DNA. Previous studies have shown that bacterioplankton readily degrade dDNA and culture-based approaches have identified several potential dDNA-utilising taxa. This study characterised the seasonal variation in D-DNA concentrations at Station L4, a coastal marine observatory in the Western English Channel, and linked changes in concentration to cognate physicochemical and biological factors. The impact of dDNA addition on active bacterioplankton communities at Station L4 was then determined using 16S rRNA high-throughput sequencing and RNA Stable Isotope Probing (RNA SIP) with 13C-labelled diatom-derived dDNA. Compared to other major bacterioplankton orders, the Rhodobacterales actively responded to dDNA additions in amended microcosms and RNA SIP identified two Rhodobacterales populations most closely associated with the genera Halocynthiibacter and Sulfitobacter that assimilated the 13C-labelled dDNA. Here we demonstrate that dDNA is a source of dissolved organic carbon for some members of the major bacterioplankton group the Marine Roseobacter Clade. This study enhances our understanding of roles of specific bacterioplankton taxa in dissolved organic matter cycling in coastal waters with potential implications for nitrogen and phosphorus regeneration processes

Electron Transport Through Molecules: Gate Induced Polarization and Potential Shift

We analyze the effect of a gate on the conductance of molecules by separately evaluating the gate-induced polarization and the potential shift of the molecule relative to the leads. The calculations use ab initio density functional theory combined with a Green function method for electron transport. For a general view, we study several systems: (1) atomic chains of C or Al sandwiched between Al electrodes, (2) a benzene molecule between Au leads, and (3) (9,0) and (5,5) carbon nanotubes. We find that the polarization effect is small because of screening, while the effect of the potential shift is significant, providing a mechanism for single-molecule transistors.Comment: 4 pages, 4 figure

Music SketchNet: Controllable Music Generation via Factorized Representations of Pitch and Rhythm

Drawing an analogy with automatic image completion systems, we propose Music SketchNet, a neural network framework that allows users to specify partial musical ideas guiding automatic music generation. We focus on generating the missing measures in incomplete monophonic musical pieces, conditioned on surrounding context, and optionally guided by user-specified pitch and rhythm snippets. First, we introduce SketchVAE, a novel variational autoencoder that explicitly factorizes rhythm and pitch contour to form the basis of our proposed model. Then we introduce two discriminative architectures, SketchInpainter and SketchConnector, that in conjunction perform the guided music completion, filling in representations for the missing measures conditioned on surrounding context and user-specified snippets. We evaluate SketchNet on a standard dataset of Irish folk music and compare with models from recent works. When used for music completion, our approach outperforms the state-of-the-art both in terms of objective metrics and subjective listening tests. Finally, we demonstrate that our model can successfully incorporate user-specified snippets during the generation process.Comment: 8 pages, 8 figures, Proceedings of the 21st International Society for Music Information Retrieval Conference, ISMIR 202

Commercial-off-the-shelf simulation package interoperability: Issues and futures

Commercial-Off-The-Shelf Simulation Packages (CSPs) are widely used in industry to simulate discrete-event models. Interoperability of CSPs requires the use of distributed simulation techniques. Literature presents us with many examples of achieving CSP interoperability using bespoke solutions. However, for the wider adoption of CSP-based distributed simulation it is essential that, first and foremost, a standard for CSP interoperability be created, and secondly, these standards are adhered to by the CSP vendors. This advanced tutorial is on an emerging standard relating to CSP interoperability. It gives an overview of this standard and presents case studies that implement some of the proposed standards. Furthermore, interoperability is discussed in relation to large and complex models developed using CSPs that require large amount of computing resources. It is hoped that this tutorial will inform the simulation community of the issues associated with CSP interoperability, the importance of these standards and its future

Introduction: “C’est une femme qui parle”

This is the author accepted manuscript. The final version is available from Duke University Press via the DOI in this recordLeverhulme Trus

Multitrack Music Transformer: Learning Long-Term Dependencies in Music with Diverse Instruments

Existing approaches for generating multitrack music with transformer models have been limited to either a small set of instruments or short music segments. This is partly due to the memory requirements of the lengthy input sequences necessitated by existing representations for multitrack music. In this work, we propose a compact representation that allows a diverse set of instruments while keeping a short sequence length. Using our proposed representation, we present the Multitrack Music Transformer (MTMT) for learning long-term dependencies in multitrack music. In a subjective listening test, our proposed model achieves competitive quality on unconditioned generation against two baseline models. We also show that our proposed model can generate samples that are twice as long as those produced by the baseline models, and, further, can do so in half the inference time. Moreover, we propose a new measure for analyzing musical self-attentions and show that the trained model learns to pay less attention to notes that form a dissonant interval with the current note, yet attending more to notes that are 4N beats away from current. Finally, our findings provide a novel foundation for future work exploring longer-form multitrack music generation and improving self-attentions for music. All source code and audio samples can be found at https://salu133445.github.io/mtmt/

Bound States in Time-Dependent Quantum Transport: Oscillations and Memory Effects in Current and Density

The presence of bound states in a nanoscale electronic system attached to two biased, macroscopic electrodes is shown to give rise to persistent, non-decaying, localized current oscillations which can be much larger than the steady part of the current. The amplitude of these oscillations depends on the entire history of the applied potential. The bound-state contribution to the {\em static} density is history-dependent as well. Moreover, the time-dependent formulation leads to a natural definition of the bound-state occupations out of equilibrium.Comment: 4 pages, 3 figure