Molecular phylogeny of Hesperiidae (Lepidoptera) with an emphasis on Asian and African genera.

Despite considerable research efforts in recent years, the deeper phylogenetic relationships among skipper butterflies (Hesperiidae) remain unresolved. This is primarily because of limited sampling, especially within Asian and African lineages. In this study, we consolidated previous data and extensively sampled Asian and African taxa to elucidate the phylogenetic relationships within Hesperiidae. The molecular dataset comprised sequences from two mitochondrial and two nuclear gene regions from 563 species that represented 353 genera. Our analyses revealed seven subfamilies within Hesperiidae: Coeliadinae, Euschemoninae, Eudaminae, Pyrginae, Heteropterinae, Trapezitinae, and Hesperiinae. The systematics of most tribes and genera aligned with those of prior studies. However, notable differences were observed in several tribes and genera. Overall, the position of taxa assigned to incertae sedis in Hesperiinae is largely clarified in this study. Our results strongly support the monophyly of the tribe Tagiadini (Pyrginae), and the systematics of some genera are clarified with comprehensive discussion. We recognize 15 tribes within the subfamily Hesperiinae. Of these, nine tribes are discussed in detail: Aeromachini, Astictopterini, Erionotini, Unkanini (new status), Ancistroidini, Ismini (confirmed status), Plastingini (new status), Gretnini (confirmed status), and Eetionini (confirmed status). We propose four subtribes within Astictopterini: Hypoleucina subtrib.n., Aclerosina, Cupithina, and Astictopterina. Furthermore, we describe a new genus (Hyarotoidesgen.n.) and reinstate two genera (Zeareinst.stat. and Separeinst.stat.) as valid. Additionally, we propose several new combinations: Zea mythecacomb.n.,Sepa bononiacomb.n. & reinst.stat., and Sepa umbrosacomb.n. This study, with extensive sampling of Asian and African taxa, greatly enhances the understanding of the knowledge of the skipper tree of life.

Nonreciprocal reflection based on asymmetric graphene metasurfaces.

We propose a scheme to achieve controllable nonreciprocal behavior in asymmetric graphene metasurfaces composed of a continuous graphene sheet and a poly crystalline silicon slab with periodic grooves of varying depths on each side. The proposed structure exhibits completely asymmetric reflection in opposite directions in the near-infrared range, which is attributed to the pronounced structural asymmetry and its accompanying nonlinear effects. The obtained nonreciprocal reflection ratio, reaching an impressive value of 21.27 dB, combined with a minimal insertion loss of just -0.76 dB, highlights the remarkable level of nonreciprocal efficiency achieved by this design compared to others in its category. More importantly, the proposed design can achieve dynamic tunability by controlling the incident field intensity and the graphene Fermi level. Our design highlights a potential means for creating miniaturized and integratable nonreciprocal optical components in reflection mode, which can promote the development of the integrated isolators, optical logic circuits, and bias-free nonreciprocal photonics.

Temperature-Dependent Terahertz Spectra of Isonicotinamide in the Form I Studied Using the Quasi-Harmonic Approximation.

Anharmonicity of molecular vibrational motions is closely associated with the thermal property of crystals. However, the origin of anharmonicity is still not fully understood. Low-frequency vibrations, which are usually defined in the terahertz (THz) range, show excellent sensitivity to anharmonicity. In this work, anharmonicity of isonicotinamide in the form I was investigated by using temperature-dependent terahertz time-domain spectroscopy and the quasi-harmonic approximation (QHA) approach at PBE-D3 and PBE-MBD levels. Both DFT calculations suggest the variation of π-π stacking conformation dominates in the thermal expansion of the unit cell. Frequency shifts of the modes in THz range obtained by QHA approach are found to be qualitatively consistent with experimental observations, demonstrating QHA approach is a useful tool for the interpretation of frequency shifts of modes induced by temperature.

Metagenomic insight into the microbial degradation of organic compounds in fermented plant leaves.

Microbial degradation of organic compounds is an environmentally benign and energy efficient part in product processing. Fermentation of plant leaves involves enzymatic actions of many microorganisms. However, microbes and enzymes discovered from natural degradation communities were still limited by cultural methods. In this study, we used a metagenomics sequence-guided strategy to identify the microbes and enzymes involved in compound degradation and explore the potential synergy among community members in fermented tobacco leaves. The results showed that contents of protein, starch, pectin, lignin, and cellulose varied in fermented leaves from different growing sites. The different compound contents were closely related to taxonomic composition and functional profiles of foliar microbial communities. Microbial communities showed significant correlations with protein, lignin, and cellulose. Vital species for degradations of protein (Bacillus cereus and Terribacillus aidingensis), lignin (Klebsiella pneumoniae and Pantoea ananatis) and cellulose (Pseudomonas putida and Sphingomonas sp. Leaf20) were identified and relating hydrolytic enzymes were annotated. Further, twenty-two metagenome-assembled genomes (MAGs) were assembled from metagenomes and six potential cellulolytic genomes were used to reconstruct the cellulose-degrading process, revealing the potential metabolic cooperation related to cellulose degradation. Our work should deepen the understanding of microbial roles in plant fermentation and provide a new viewpoint for applying microbial consortia to convert plant organic components to small molecules.

Insights into Allosteric Mechanisms of the Lung-Enriched p53 Mutants V157F and R158L.

Lung cancer is a leading fatal malignancy in humans. p53 mutants exhibit not only loss of tumor suppressor capability but also oncogenic gain-of-function, contributing to lung cancer initiation, progression and therapeutic resistance. Research shows that p53 mutants V157F and R158L occur with high frequency in lung squamous cell carcinomas. Revealing their conformational dynamics is critical for developing novel lung therapies. Here, we used all-atom molecular dynamics (MD) simulations to investigate the effect of V157F and R158L substitutions on the structural properties of the p53 core domain (p53C). Compared to wild-type (WT) p53C, both V157F and R158L mutants display slightly lesser ß-sheet structure, larger radius of gyration, larger volume and larger exposed surface area, showing aggregation-prone structural characteristics. The aggregation-prone fragments (residues 249-267 and 268-282) of two mutants are more exposed to water solution than that of WT p53C. V157F and R158L mutation sites can affect the conformation switch of loop 1 through long-range associations. Simulations also reveal that the local structure and conformation around the V157F and R158L mutation sites are in a dynamic equilibrium between the misfolded and properly folded conformations. These results provide molecular mechanistic insights into allosteric mechanisms of the lung-enriched p53 mutants.

Dynamic control of magnetization spot arrays with three-dimensional orientations.

We report a new paradigm for achieving magnetization spot arrays with controllable three-dimensional (3D) orientations. Toward this aim, we subtly design a tailored incident beam containing three parts and further demonstrate that the designed incident beam is phase-modulated radial polarization. Based on the raytracing model under tight focusing condition and the inverse Faraday effect on the magneto-optic (MO) film, the magnetization field components along the y-axis and z-axis directions are generated through the focus. In particular, we are able to garner orientation-tunable 3D magnetization under different numerical apertures of the focusing objectives by adjusting the ratios between the three parts of incident beam. Apart from a single magnetization spot, magnetization spot arrays capable of dynamically controlling 3D orientation in each spot can also be achieved by multi-zone plate (MZP) phase filter. Such a robust magnetization pattern is attributed to not only the constructive interferences of three orthogonal focal field components, but also the position translation of each magnetization spot resulting from shifting phase of the MZP phase filter. It is expected that the research outcomes can be beneficial to spintronics, magnetic encryption and multi-value MO parallelized storage.

Molecular dynamics study on the inhibition mechanisms of ReACp53 peptide for p53-R175H mutant aggregation.

p53 mutant aggregation can lead to loss-of-function (LoF), dominant-negative (DN) and gain-of-function (GoF) effects, involving in tumor growth. Finding inhibition methods of p53 mutant aggregation is a key step for developing new therapeutics against aggregation-associated cancers. Recent studies have shown that a cell-permeable peptide, ReACp53, can inhibit aggregation of the p53 mutant and restore p53 nuclear function as a transcriptional factor, showing extraordinary therapeutic potential. However, the molecular mechanism underlying the inhibition of p53 mutant aggregation by the ReAp53 peptide is unclear. In this work, we used all-atom molecular dynamics (MD) simulations to investigate the effect of ReACp53 peptide on the structural and dynamic properties of the p53 core domain (p53C) of the aggregation-prone R175H mutant. Our simulations revealed that the ReACp53 peptide can stabilize the ordered secondary structure and decrease the flexibility of disordered loops of the R175H mutant through increasing the intra-interactions of p53C. Moreover, we found that ReACp53 peptide specifically binds to the fragment (residues 180-233) of the R175H mutant through strong hydrophobic interactions with residues L188 and L201 and a salt bridge or hydrogen bond formation with residues D186, E198, D204, E221 and E224. The specific binding pattern protects the aggregation-prone fragment (residues 182-213) from exposure to water. Hence, we suggested that the ReACp53 peptide inhibits aggregation of the R175H mutant by restoring the wild-type conformation from an aggregation-prone state and reducing the exposure of the aggregation-prone segment. These results provide molecular mechanistic insight into inhibition of the ReACp53 peptide on amyloid aggregation of the R175H mutant.

Shared paternal ancestry of Han, Tai-Kadai-speaking, and Austronesian-speaking populations as revealed by the high resolution phylogeny of O1a-M119 and distribution of its sub-lineages within China.

OBJECTIVES: The aim of this research was to explore the origin, diversification, and demographic history of O1a-M119 over the past 10,000 years, as well as its role during the formation of East Asian and Southeast Asian populations, particularly the Han, Tai-Kadai-speaking, and Austronesian-speaking populations. MATERIALS AND METHODS: Y-chromosome sequences (n = 141) of the O1a-M119 lineage, including 17 newly generated in this study, were used to reconstruct a revised phylogenetic tree with age estimates, and identify sub-lineages. The geographic distribution of 12 O1a-M119 sub-lineages was summarized, based on 7325 O1a-M119 individuals identified among 60,009 Chinese males. RESULTS: A revised phylogenetic tree, age estimation, and distribution maps indicated continuous expansion of haplogroup O1a-M119 over the past 10,000 years, and differences in demographic history across geographic regions. We propose several sub-lineages of O1a-M119 as founding paternal lineages of Han, Tai-Kadai-speaking, and Austronesian-speaking populations. The sharing of several young O1a-M119 sub-lineages with expansion times less than 6000 years between these three population groups supports a partial common ancestry for them in the Neolithic Age; however, the paternal genetic divergence pattern is much more complex than previous hypotheses based on ethnology, archeology, and linguistics. DISCUSSION: Our analyses contribute to a better understanding of the demographic history of O1a-M119 sub-lineages over the past 10,000 years during the emergence of Han, Austronesians, Tai-Kadai-speaking populations. The data described in this study will assist in understanding of the history of Han, Tai-Kadai-speaking, and Austronesian-speaking populations from ethnology, archeology, and linguistic perspectives in the future.

Paternal gene pool of Malays in Southeast Asia and its applications for the early expansion of Austronesians.

OBJECTIVES: The origin and differentiation of Austronesian populations and their languages have long fascinated linguists, archeologists, and geneticists. However, the founding process of Austronesians and when they separated from their close relatives, such as the Daic and Austro-Asiatic populations in the mainland of Asia, remain unclear. In this study, we explored the paternal origin of Malays in Southeast Asia and the early differentiation of Austronesians. MATERIALS AND METHODS: We generated whole Y-chromosome sequences of 50 Malays and co-analyzed 200 sequences from other Austronesians and related populations. We generated a revised phylogenetic tree with time estimation. RESULTS: We identified six founding paternal lineages among the studied Malays samples. These founding lineages showed a surprisingly coincident expansion age at 5000 to 6000 years ago. We also found numerous mostly close related samples of the founding lineages of Malays among populations from Mainland of Asia. CONCLUSION: Our analyses provided a refined phylogenetic resolution for the dominant paternal lineages of Austronesians found by previous studies. We suggested that the co-expansion of numerous founding paternal lineages corresponds to the initial differentiation of the most recent common ancestor of modern Austronesians. The splitting time and divergence pattern in perspective of paternal Y-chromosome evidence are highly consistent with the previous theories of ethnologists, linguists, and archeologists.

Broadband one-way propagation and rainbow trapping of terahertz radiations.

Surface magnetoplasmon (SMP) supported at an interface between magnetized plasmonic and dielectric materials has been widely explored; however, it suffers with narrow bandwidth for one-way propagation. Here we propose a novel metal-semiconductor-dielectricmetal (MSDM) structure showing the large bandwidth for the complete one-way propagation (COWP). Because of the compression of the zone for two-way propagating modes in the semiconductor layer by reducing semiconductor thickness, the bandwidth is significantly increased by several times. More importantly, in such MSDM structure, the SMP dispersion can be engineered by controlling the semiconductor thickness, and based on this, slowing wave and trapping rainbow can be realized in a tapered system at terahertz frequencies.

Magnetoplasmons in monolayer black phosphorus structures.

Two-dimensional materials supporting deep-subwavelength plasmonic modes can also exhibit strong magneto-optical responses. Here, we theoretically investigate magnetoplasmons (MPs) in monolayer black phosphorus (BP) structures under moderate static magnetic fields. We consider three different structures, namely, a continuous BP monolayer, an edge formed by a semi-infinite sheet, and finally, a triangular wedge configuration. Each of these structures shows strongly anisotropic magneto-optical responses induced both by the external magnetic field and by the intrinsic anisotropy of the BP lattice. Starting from the magneto-optical conductivity of a single layer of BP, we derive the dispersion relation of the MPs in the considered geometries, using a combination of analytical, semi-analytical, and numerical methods. We fully characterize the MP dispersions and the properties of the corresponding field distributions, and we show that these structures sustain strongly anisotropic subwavelength modes that are highly tunable. Our results demonstrate that MPs in monolayer BP, with its inherent lattice anisotropy as well as magnetically induced anisotropy, hold potential for tunable anisotropic materials operating below the diffraction limit, thereby paving the way for tailored nanophotonic devices at the nanoscale.

The paternal genetic structure of Jingpo and Dai in southwest China.

Yunnan province harbours substantial genetic, cultural and linguistic diversity, with the largest number of Aborigines in China, but the relationship among these Aborigines remains enigmatic. This study genotyped 45 Y chromosomal single nucleotide polymorphisms (SNPs) of 500 males from two aboriginal cross-border populations, Jingpo and Dai, from Dehong, Yunnan. It is reported that Haplogroup O2a2b1a1-M117 is the dominant lineage in both Jingpo and Dai. The Jingpo people show affinity with Tibeto-Burman speaking populations with a relatively high frequency of Haplogroup D-M174, and the Dai people are generally genetically similar with Tai-Kadai speaking populations with high frequencies of Haplogroup O1a-M119 and O1b1a1a-M95, which is consistent with their language classification.

Phylogeography of Y-chromosome haplogroup Q1a1a-M120, a paternal lineage connecting populations in Siberia and East Asia.

Background: Previous studies have suggested that the human Y-chromosome haplogroup Q1a1a-M120, a widespread paternal lineage in East Asian populations, originated in South Siberia. However, much uncertainty remains regarding the origin, diversification, and expansion of this paternal lineage.Aim: To explore the origin and diffusion of paternal Q-M120 lineages in East Asia.Subjects and methods: The authors generated 26 new Y chromosome sequences of Q-M120 males and co-analysed 45 Y chromosome sequences of this haplogroup. A highly-revised phylogenetic tree of haplogroup Q-M120 with age estimates was reconstructed. Additionally, a comprehensive phylogeographic analysis of this lineage was performed including 15,007 samples from 440 populations in eastern Eurasia.Results: An ancient connection of this lineage with populations in Siberia was revealed. However, this paternal lineage experienced an in-situ expansion between 5000 and 3000 years ago in northwestern China. Ancient populations with high frequencies of Q-M120 were involved in the formation of ancient Huaxia populations before 2000 years ago; this haplogroup eventually became one of the founding paternal lineages of modern Han populations.Conclusion: This study provides a clear pattern of the origin and diffusion process of haplogroup Q1a1a-M120, as well as the role of this paternal lineage during the formation of ancient Huaxia populations and modern Han populations.

Investigation of Parameter Effects on Virtual-Spring-Force Algorithm for Wireless-Sensor-Network Applications.

Virtual-force algorithms (VFAs) have been widely studied for accurate node deployment in wireless-sensor-network (WSN) applications. Their main purpose is to achieve the maximum coverage area with the minimum number of sensor nodes in the target area. Recently, we reported a new VFA based on virtual spring force (VFA-SF) and discussed in detail the corresponding efficiency via statistical analysis. The optimized strategy by adding an external central force (VFA-SF-OPT) was presented, which effectively eliminates the coverage hole or twisted structure in the final network distribution. In this paper, the parameter effects on VFA-SF and the VFA-SF-OPT were further investigated: (1) Node velocity dramatically affects the convergence rate of the node-deployment process. (2) A suitable external central force improves equilibrium distance and reduces energy consumption. (3) The effects of VFA-SF and VFA-SF-OPT for different types of obstacles are discussed. Generally, by choosing suitable parameters, both VFA-SF and VFA-SF-OPT can effectively improve node deployment and energy consumption for the whole sensor network. The results give important insight in parameter selection and information fusion in the application of a large-scale WSN.

An Optimized Node Deployment Solution Based on a Virtual Spring Force Algorithm for Wireless Sensor Network Applications.

How to effectively deploy all wireless sensors and save a system's energy consumption is a key issue in current wireless sensor network (WSN) applications. Theoretical analysis has proven that a hexagonal structure is the best topology in the two-dimensional network, which can provide the maximum coverage area with the minimum number of sensor nodes and minimum energy consumption. Recently, many scientists presented their self-deployment strategies based on different virtual forces and discussed the corresponding efficiency via several case studies. However, according to our statistical analysis, some virtual force algorithms, e.g., virtual spring force, can still cause holes or twisted structure in a small region of the final network distribution, which cannot achieve the ideal network topology and will waste the system energy in real applications. In this paper, we first statistically analyzed the convergence and deployment effect of the virtual spring force algorithm to derive our question. Then we presented an optimized strategy that sensor deployment begins from the center of the target region by adding an external central force. At the early stage, the external force will be added to the most peripheral nodes to promote the formation of hexagonal topology and avoid covering holes or unusual structure. Finally, a series of independent simulation experiments and corresponding statistical results proved that our optimized deployment solution is very stable and effective, which can improve the energy consumption of the whole sensor network and be used in the application of a large scale WSN.

Stopping terahertz radiation without backscattering over a broad band.

We present an approach to completely stop terahertz radiation in an optical system with a gyroelectric semiconductor. This system is composed of guiding and stopping parts formed by the semiconductor with different cladding structures. Because the dispersion properties of surface magnetoplasmons (SMPs) in the semiconductor closely depend on its cladding structure, robust one-way SMPs sustained by the guiding part are prohibited in the stopping part, thereby stopping terahertz radiation without any backscattering. For incident continuous waves, trapped spots with strongly enhanced fields occur on a subwavelength scale. For incident pulses, the wave packets can be completely trapped and simultaneously compressed to subwavelength sizes.

Backscattering-immune one-way surface magnetoplasmons at terahertz frequencies.

Surface magnetoplasmons (SMPs) in a basic physical model for the terahertz regime, which consists of a semi-infinite magnetized semiconductor with dielectric cladding terminated by a metal slab, are theoretically investigated. The dispersion properties of such SMPs are analyzed and examined in detail. It is shown that SMPs may follow three different kinds of dispersion diagrams, depending on the applied dc magnetic field intensity. Complete one-way propagation that operates within the band gap of the semiconductor is available for SMPs, and the one-way bandwidth reaches a maximum at a certain magnetic field intensity. Regular modes guided by the dielectric layer are also analyzed. These modes may cause the (complete) SMP one-way region to be compressed or even removed, but they can be suppressed by reducing the dielectric layer thickness. Owing to the mirror effect of the metal slab, one-way propagating and backscattering-immune basic SMPs can exhibit a larger propagation length than those sustained by a single dielectric-semiconductor interface.

Complete trapping of electromagnetic radiation using surface magnetoplasmons.

Because the dispersion properties of surface magnetoplasmons (SMPs) in a magnetized plasmonic material closely depend on its cladding dielectric, it is possible to completely trap SMPs in a system consisting of a plasmonic material with cladding of a dielectric heterostructure. By using a semiconductor, our finite element simulation (performed using the software COMSOL) shows that terahertz one-way SMPs in such a system can be completely trapped at the interface of the heterostructure and hence, a focused subwavelength-scale hotspot with dramatically enhanced field is generated. Moreover, a one-way SMP pulse in this system can also be completely trapped, and the wave packet can be compressed into a stable hotspot on the subwavelength scale.

One-way regular electromagnetic mode immune to backscattering.

In this paper, we present a basic model of robust one-way electromagnetic modes at microwave frequencies, which is formed by a semi-infinite gyromagnetic yttrium-iron-garnet with dielectric cladding terminated by a metal plate. It is shown that this system supports not only one-way surface magnetoplasmons (SMPs) but also a one-way regular mode, which is guided by the mechanism of total internal reflection. Like one-way SMPs, the one-way regular mode can be immune to backscattering, and two types of one-way modes together make up a complete dispersion band for the system.

Impact of photonic crystal boundary shape on the existence of one-way edge mode.

The band structure of a two-dimensional photonic crystal (PhC) formed by a triangular lattice of air columns in a gyromagnetic material is investigated in the case when an external dc magnetic field is applied to it. It is shown that large magnetic-field-induced (MFI) bandgap is obtainable by optimizing the parameters of the PhC. The interface between a PhC with MFI bandgap and air may support unidirectional or bidirectional propagating edge modes, or even no mode, closely depending on the boundary shape of the truncated PhC. The transmission property of one-way mode sustained by the gyromagnetic PhC boundary is discussed through numerical simulation.