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Type 2 diabetes (T2D) has a complex etiology which is not yet fully elucidated. The identification of gene perturbations and hub genes of T2D may deepen our understanding of its genetic basis. We aimed to identify highly perturbed genes and hub genes associated with T2D via an extensive bioinformatics analytic workflow consisting of five steps: systematic review of Gene Expression Omnibus and associated literature; identification and classification of differentially expressed genes (DEGs); identification of highly perturbed genes via meta-analysis; identification of hub genes via network analysis; and downstream analysis of highly perturbed genes and hub genes. Three meta-analytic strategies, random effects model, vote-counting approach, and p value combining approach, were applied. Hub genes were defined as those nodes having above-average betweenness, closeness, and degree in the network. Downstream analyses included gene ontologies, Kyoto Encyclopedia of Genes and Genomes pathways, metabolomics, COVID-19-related gene sets, and Genotype-Tissue Expression profiles. Analysis of 27 eligible microarrays identified 6284 DEGs (4592 downregulated and 1692 upregulated) in four tissue types. Tissue-specific gene expression was significantly greater than tissue non-specific (shared) gene expression. Analyses revealed 79 highly perturbed genes and 28 hub genes. Downstream analyses identified enrichments of shared genes with certain other diabetes phenotypes; insulin synthesis and action-related pathways and metabolomics; mechanistic associations with apoptosis and immunity-related pathways; COVID-19-related gene sets; and cell types demonstrating over- and under-expression of marker genes of T2D. Our approach provided valuable insights on T2D pathogenesis and pathophysiological manifestations. Broader utility of this pipeline beyond T2D is envisaged.

AimAs species' ranges shift poleward in response to anthropogenic change, they may lose antagonistic interactions if they move into less diverse communities, fail to interact with novel populations or species effectively, or if ancestral interacting populations or species fail to shift synchronously. We leveraged a poleward range expansion in a tractable insect host–enemy community to uncover mechanisms by which altered antagonistic interactions between native and recipient communities contributed to ‘high niche opportunities’ (limited biotic resistance) for a range-expanding insect.LocationNorth America, Pacific Northwest.MethodsWe created quantitative insect host–enemy interaction networks by sampling oak gall wasps on 400 trees of a dominant oak species in the native and expanded range of a range-expanding gall wasp species. We compared host–enemy network structure between regions. We measured traits (phenology, morphology) of galls and interacting parasitoids, predicting greater trait divergence in the expanded range. We measured function relating to host control and explored if altered interactions and traits contributed to reduced function, or biotic resistance.ResultsInteraction networks had fewer species in the expanded range and lower complementarity of parasitoid assemblages among host species. While networks were more generalized, interactions with the range-expanding species were more specialized in the expanded range. Specialist enemies effectively tracked the range-expanding host, and there was reduced apparent competition with co-occurring hosts by shared generalist enemies. Phenological divergence of enemy assemblages interacting with the range-expanding and co-occurring hosts was greater in the expanded range, potentially contributing to weak apparent competition. Biotic resistance was lower in the expanded range, where fewer parasitoids emerged from galls of the range-expanding host.Main ConclusionsChanges in interactions with generalist enemies created high niche opportunities, and limited biotic resistance, suggesting weak apparent competition may be a mechanism of enemy release for range-expanding insects embedded within generalist enemy networks.

A photonic equivalent to disclination in crystals has been used to produce orbital angular momentum laser light directly on-chip, ushering in compact and efficient twisted-light lasers.

All light has structure, but only recently has it been possible to control it in all its degrees of freedom and dimensions, fuelling fundamental advances and applications alike. Here we review the recent advances in ‘pushing the limits’ with structured light, from traditional two-dimensional transverse fields towards four-dimensional spatiotemporal structured light and multidimensional quantum states, beyond orbital angular momentum towards control of all degrees of freedom, and beyond a linear toolkit to include nonlinear interactions, particularly for high-harmonic structured light. Using a simple interference argument, centuries old, we weave a story that highlights the common nature of seemingly diverse structures, presenting a modern viewpoint on the classes of structured light, and outline the possible future trends and open challenges.Recent effort in controlling the structure of light in all its degrees of freedom and dimensions has pushed the limits of structured light and broadened its potential beyond orbital angular momentum, two-dimensional fields, qubits and biphotons, and linear optical manipulation.

The limited control of electrons by light has resulted in photonic-driven circuits lagging far behind their electronic counterparts. Now, a technique exploiting coherent control with structured light has been used to sculpt the spatial distribution of electric currents, ushering in vectorized optoelectronic control in semiconductors.

Structured light refers to the arbitrarily tailoring of optical fields in all their degrees of freedom (DoFs), from spatial to temporal. Although orbital angular momentum (OAM) is perhaps the most topical example, and celebrating 30 years since its connection to the spatial structure of light, control over other DoFs is slowly gaining traction, promising access to higher-dimensional forms of structured light. Nevertheless, harnessing these new DoFs in quantum and classical states remains challenging, with the toolkit still in its infancy. In this perspective, we discuss methods, challenges, and opportunities for the creation, detection, and control of multiple DoFs for higher-dimensional structured light. We present a roadmap for future development trends, from fundamental research to applications, concentrating on the potential for larger-capacity, higher-security information processing and communication, and beyond.It is the first perspective or review that considers the dimensionality that may be reached with structured light, as well as the opportunities and challenges in pursuing this.

Optical modes that carry orbital angular momentum (OAM) are routinely produced external to the laser cavity and have found a variety of applications, thus increasing the demand for integrated solutions for their production. Yet such modes are notoriously difficult to produce from lasers due to the strict symmetry requirements for their creation, together with the need to break the degeneracy in helicity. Here, we review the progress made since 1992 in producing such twisted light modes directly at the source, from gas to solid-state lasers, bulk to integrated on-chip solutions, through to generic devices for on-demand OAM in both scalar and vector forms. This article is part of the themed issue ‘Optical orbital angular momentum’.

Customizing the output beam shape from a laser invariably involves specialized optical elements in the form of apertures, diffractive optics and free-form mirrors. Such optics require considerable design and fabrication effort and suffer from the further disadvantage of being immutably connected to the selection of a particular spatial mode. Here we overcome these limitations with the first digital laser comprising an electrically addressed reflective phase-only spatial light modulator as an intra-cavity digitally addressed holographic mirror. The phase and amplitude of the holographic mirror may be controlled simply by writing a computer-generated hologram in the form of a grey-scale image to the device, for on-demand laser modes. We show that we can digitally control the laser modes with ease, and demonstrate real-time switching between spatial modes in an otherwise standard solid-state laser resonator. Our work opens new possibilities for the customizing of laser modes at source. Customizing the output from a laser is typically done by appropriate optical elements. Here Ngcobo et al. show that a digitally controlled holographic mirror placed within the laser cavity can be used to dynamically select the desired laser output modes.

In the early 1960s, inspired by developing notions of topological structure, Tony Skyrme suggested that sub-atomic particles can be described as natural excitations of a single quantum field. Although never adopted for its intended purpose, the notion of a skyrmion as a topologically stable field configuration has proven to be highly versatile, finding application in condensed-matter physics, acoustics and more recently, optics, but it has been realized as localized fields and particles in all instances. Here we report the first non-local quantum entangled state with a non-trivial topology that is skyrmionic in nature, even though each individual photon has no salient topological structure. We demonstrate how the topology makes such quantum states robust to smooth deformations of the wavefunction, remaining intact until the entanglement itself vanishes. Our work points to a nascent connection between entanglement classes and topology, opens exciting questions into the nature of map-preserving quantum channels and offers a promising avenue for the preservation of quantum information by topologically engineered quantum states that persist even when entanglement is fragile. A skyrmion is a topologically stable field configuration. A non-local skyrmion, which has been hitherto elusive in condensed-matter physics, is realized by using entangled photons with a non-trivial topology. The connection between the notions of topology and entanglement is investigated, revealing topological invariance even when entanglement is fragile.

A well-known defect introduced during the fabrication of GRIN lenses can be exploited for the creation, detection and wave-guiding of exotic forms of vectorial structured light, bringing the toolkit into the realm of common laboratory optics.