Star-like Pattern Research Articles

Population genetics analysis based on mitochondrial cytochrome c oxidase subunit I (CO1) gene sequences of Cottus koreanus in South Korea.

The freshwater sculpin Cottus koreanus is endemic to the Korean Peninsula and has a fluvial life history. However, its population has been greatly reduced and it is now listed as an endangered class II species. To obtain important information for its conservation, we examine the genetic diversity, population structure, and demographic history of C. koreanus through mitochondrial cytochrome c oxidase subunit I (CO1) gene sequence analysis. We analyzed the CO1 gene sequences of 430 individuals of C. koreanus from 23 populations in South Korea. In all, 32 haplotypes were defined by 124 variable nucleotide sites, of which 28 were unique haplotypes not shared with other regional populations. All sampled populations had high haplotype diversity (Hd = 0.941) and low nucleotide diversity (π = 0.0146). Median-joining network analysis identified two divergent clusters: cluster I that had unique haplotype patterns assigned to each population and cluster II that had a star-like pattern. Each was supported by pairwise FST values and hierarchical analysis of molecular variance. The results of the mismatch distribution, goodness-of-fit test, and extended Bayesian skyline plot analysis showed that cluster I has experienced a gradual population expansion since the last glacial maximum, while cluster II experienced a sudden one. The results of neutrality testing supported the results for cluster II but the signal was weak. C. koreanus inhabits the upper reaches of rivers and has extremely low dispersal ability, resulting in unique genetic structure patterns among populations. Therefore, all populations should be managed and conserved separately.

Image segmentation and classification for fission track analysis for nuclear forensics using U-net model

AbstractThis study introduces a novel methodology for the detection and classification of fission track (FT) clusters in microscope images, employing state-of-the-art deep learning techniques for segmentation and classification (Elgad in nuclear forensics—fission track analysis—star segmentation and classification using deep learning, Ben-Gurion University, 2022). The U-Net model, a fully convolutional network, was used to carry out the segmentation of various star-like patterns in both single-class and multi-class scenarios.

Phenotypic variations among Laudakia stellio populations in Anatolia: Colour, colour pattern, and phylogeny (Reptilia: Agamidae)

We examined the phenotypical intra- and inter-populational variation of Laudakia stellio, one of the most-studied agamids, which is widely distributed in Anatolia in order to reveal the qualitative and quantitative aspects of the morphological differences among populations. We used for the quantification of colouration of different body parts colour palettes with the RGB (Red-Green-Blue) colour scale and prepared colour histograms. The populations were compared with Principal Component Analyses (PCA). We found that the 1st dorsal pattern which is the first of 4-5 star-like pattern throughout the vertebral line, provides information about the sex of the individual and the geographic location of the population. PCA graphs revealed the colouration differences between localities of dorsal, lateral, ventral head and dorsal body regions. A phylogenetic analysis of the mitochondrial ND4 marker revealed four different lineages, namely Hatay, Adana-Mersin-Konya, Burdur-Denizli and Manisa-İzmir-Çanakkale. Noting the need for new studies with different genes, our results show that colouration and quantitative morphology are supported by phylogeny in L. stellio populations, especially in terms of subspeciation.

Pinch-points to half-moons and up in the stars: The kagome skymap

Pinch point singularities, associated with flat band magnetic excitations, are tell-tale signatures of Coulomb spin liquids. While their properties in the presence of quantum fluctuations have been widely studied, the fate of the complementary non-analytic features -- shaped as half-moons and stars -- arising from adjacent shallow dispersive bands has remained unexplored. Here, we address this question for the spin $S=1/2$ Heisenberg antiferromagnet on the kagome lattice with second and third neighbor couplings, which allows one to tune the classical ground state from flat bands to being governed by shallow dispersive bands for intermediate coupling strengths. Employing the complementary strengths of variational Monte Carlo, pseudo-fermion functional renormalization group, and density-matrix renormalization group, we establish the quantum phase diagram. The U(1) Dirac spin liquid ground state of the nearest-neighbor antiferromagnet remains remarkably robust till intermediate coupling strengths when it transitions into a pinwheel valence bond crystal displaying signatures of half-moons in its structure factor. Our work thus identifies a microscopic setting that realizes one of the proximate orders of the Dirac spin liquid identified in a recent work [Song, Wang, Vishwanath, He, Nat. Commun. 10, 4254 (2019)]. For larger couplings, we obtain a collinear magnetically ordered ground state characterized by star-like patterns.

Hyporthodus griseofasciatus (Perciformes: Epinephelidae), a new species of deep-water grouper from the west coast of Australia.

A new species of deep-water epinephelid fish is described from the west coast of Australia based on 14 specimens, 99-595 mm standard length. Hyporthodus griseofasciatus sp. nov. is endemic to Western Australia from Barrow Island to Two Peoples Bay in depths of 76-470 m. It has a series of eight grey bands alternating with eight brown bands along the body and the soft dorsal, soft anal and caudal fin margins are pale cream to white. It is distinguished from its nearest congener, H. ergastularius, by the presence of a star-like pattern of radiating lines on the head versus an overall brownish colour in the latter as well as significant differences in the quantitative analyses of 25 morphological characters. The two species have allopatric distributions on either side of the Australian continent. H. griseofasciatus is distinguished from H. octofasciatus by several grey bands being distinctly narrower than other grey bands (vs. all grey bands subequal in the latter) and the presence of broad white margins on the dorsal, caudal and anal fins (vs. narrow or absent in the latter). Some scale counts appear to also differ. Analyses of mitochondrial cytochrome oxidase subunit 1 sequences revealed reciprocally monophyletic clades with fixed differences and genetic distances typical of recently diverged species of fishes.

MAKING SENSE OF THE NOISE: INTEGRATING MULTIPLE ANALYSES FOR STOP AND TRIP CLASSIFICATION

Abstract. Mobility research is mainly concerned with understanding mobility on a higher level, including environmental factors, e.g., measuring the time out of home or tracking revisited places. This requires preprocessing the raw data obtained from GPS sensors, like clustering significant locations and distinguishing these from periods on the go. We introduce a new stop and trip detection algorithm to transform a list of position records into intervals of dwelling and transit. The system is based on geometrical analyses of the signal noise: Imperfect GPS data tends to scatter around an actual dwell position in a star-like pattern, and this imperfection is what we leverage for our classification. The system contains four independent classification methods, comparing different aspects of the geometrical properties of a given trajectory. If available, accelerometer readings can be used to improve the system’s accuracy further. To evaluate the classifier’s performance, we recorded a large dataset containing gold-standard labels and compared the classification results of our system with the results of Scikit Mobility and Moving Pandas. Our Stop Go Classifier outperforms the traditional distance/time-threshold-based systems. The described system is available as free software.

Genetic interrelationships of Spirometra erinaceieuropaei (Cestoda: Diphyllobothriidea), the causative agent of sparganosis in Europe.

The geographic distribution of Spirometra erinaceieuropaei (Cestoda: Diphyllobothriidea), the causative agent of food/water-borne sparganosis, is restricted to Europe, where infected canids, felids, mustelids, suids, and reptiles have been documented from Poland, Ukraine, Belarus, Russia, Serbia, Estonia, Latvia, and Finland. The main objective of the current study was to map the molecular divergence of S. erinaceieuropaei from Finland using the complete sequences of the mitochondrial cytochrome c oxidase subunit 1 gene (cox1 mtDNA). Seven cox1 haplotypes were determined in 15 tapeworms from Eurasian lynx (Lynx lynx) from three localities in southern Finland. In addition, the first inter-population study of S. erinaceieuropaei based on currently obtained data on cox1 from Finland and previously published data from Finland, Latvia, Ukraine, and Poland, was performed. The haplotype network showed a star-like pattern without specific subdivision of lineages according to the locality. Samples from Finland, Latvia, and Poland shared several haplotypes and formed the common Baltic lineage. The haplotype of S. erinaceieuropaei from Ukraine was unique and placed on a separate mutational pathway, suggesting a different lineage of the parasite.

A large renal bullet that resembles a large renal stone. A rare case scenario.

IntroductionGenitourinary trauma secondary to a gunshot wound is uncommon as it only occurs in about 10% of cases. We present a case of a gentleman who suffered a gunshot wound to the kidney.Presentation of caseA 28 year old man presented with irritative lower urinary tract symptoms (LUTs) since three months. The medical history was irrelevant. He is known case of neurogenic bladder maintained on regular clean intermittent catheterization (CIC). He has history of gunshot to the back since few years that resulted in spinal injury. CTUT showed retained bullet inside the right kidney that look alike hyperdense renal stone, Moreover, multiple vesical stones. The vesical stones were treated with cystolitholapaxy. Given that the patient is asymptomatic, conservative management for the retained right renal bullet is the feasible option.DiscussionBased on the ASST classification, renal gunshot injury results in a grade IV injury. Abdominal exploration was reserved only in selected scenarios. Gunshot injuries to the kidney are commonly associated with thoracic and abdominal injuries. Gunshot injuries may be caused by low-velocity or high-velocity bullets. Given the paucity of cases reported in the literature, it is not obvious what is the optimum management of such patients with a retained renal bullet? We present the radiological findings and a clinical case summary as well for those who have Grade IV kidney injury and retained bullet managed conservatively.ConclusionRetained renal bullet post gunshot injury to the back is unusual presentation. A characteristic star-like pattern produced by lead shots and not by “stone,” consisting of plastic detonating cap will aid the urologist to differentiate retained renal bullet from renal stone. In such scenario, asymptomatic renal bullet look alike renal stone doesn't necessitate treatment.

Lichtenberg figures presenting electrostatic discharge patterns at different humidity

Electrostatic discharge (ESD) is a phenomenon that commonly exists on the insulation surface in electrical and electronic devices at different environmental conditions. In this letter, the surface charge pattern of PMMA subject to ESD at different relative humidity (RH) is presented by Lichtenberg figures. The influence of RH on discharge processes is discussed. The results show that the voltage amplitude, polarity, and the shape of the electrode during ESD all have a significant influence on the surface discharge process. The surface discharge pattern at positive ESD is plum blossom-like while at negative ESD, the surface discharge pattern presents a star-like pattern. The ESD process can be suppressed under high RH conditions. This study provides direct evidence on how the ESD process is mitigated at different RH.

The desert exploiter: An overabundant crow species exhibits a neighborhood diffusion pattern into the southern region of Israel

Abstract Understanding the causes of spread of overabundant species plays a key role in deciphering their invasion mechanisms, while providing managers with targeted management actions to control their spread. The objective of this research was to quantify the spread of Hooded Crow (Corvus cornix) in Israel and to elucidate the causes of its spread. Long-term occurrence data of Hooded Crow sightings were used to analyze the species range expansion rate. This dataset was analyzed with a range of climatic, normalized difference vegetation index (NDVI), and land-use variables. Analysis of opportunistic presence-only data, corrected for possible sampling biases, illustrated traveling waves of eastward expansion, from the Mediterranean coast into Israel’s central mountain range, and a star-like pattern of spread southward into the northwestern Negev desert. A diffusion equation model revealed an expansion rate of 1.60 km year–1. Land-use analysis revealed an affinity of sighted individuals toward urban and low vegetation land types. Hooded Crow sightings were positively correlated with annual precipitation, with the remaining variation being negatively correlated with precipitation during the wettest quarter. Species distribution modeling suggested that the species has established new populations and is currently expanding its range. The slow rate of dispersal is consistent with a neighborhood diffusion pattern, corresponding to the species life-history traits. Human-managed environments, including low-cover agricultural fields, provide constant available food and nesting trees, allowing the Hooded Crow to thrive all year-round. Precipitation may aid in enhancing Hooded Crow tolerance toward other unfavorable physical conditions. In light of these new findings, management plans ought to recognize centers of Hooded Crow activity as indicators of highly disturbed native wildlife communities. Also, our findings emphasize the need to establish agri-environmental schemes (AES) in such areas, which would raise community resistance to overabundant species. As AES are currently not in place on a national scale, and since their creation has the power to improve landscape connectivity of native species, this last component is especially necessary.

Dancing on the top: phylogeography and genetic diversity of high-altitude freshwater fairy shrimps (Branchiopoda, Anostraca) with a focus on the Tibetan Plateau

Fairy shrimp are the most divergent taxon of large branchiopod crustaceans and have a worldwide distribution. Yet the diversity and distribution of fairy shrimps in the “Roof of the World” remain poorly known. Here, based on morphology, we identified three species of fairy shrimp (Branchinecta orientalis, Chirocephalus graziellae and Branchipodopsis affinis), among 14 fairy-shrimp populations from the Tibetan Plateau, China. Their phylogenetic relationships were verified based on mitochondrial DNA sequences (cytochrome c oxidase subunit I gene) and two nuclear markers (18S ribosomal RNA gene and internal transcribed spacer 2). Syntopy of different species of fairy shrimp was observed. Some haplotypes were shared among populations, and sequences from B. affinis exhibited a star-like pattern in haplotype networks, suggesting a recent rapid expansion. Finally, a high genetic diversity of fairy shrimp was detected on the Tibetan Plateau. Obtained results contribute to a better knowledge of the diversity of high-altitude fairy shrimps.

Population Genetic Structures of the Jellyfish Aurelia coerulea Polyps along Korean Coasts and Implications as Revealed by Mitochondrial COI.

The moon jellyfish, Aurelia coerulea, is is globally distributed, and its blooms have been responsible for severe environmental impacts. Benthic polyp populations are important for forming and maintaining medusa populations; however, their genetic structures are mostly unknown. Here, we analysed the genetic structure and phylogeographic pattern of A. coerulea polyps using the mitochondrial COI of 229 specimens collected from four different coastal regions of Korea. Molecular discrimination by COI assigned all polyps to A. coruelea. Population genetics revealed 53 haplotypes with high diversity and significant genetic structure, distinguishing two haplogroups (A and B) that coexist in all regions. Haplogroup A exhibited a star-like haplotype network pattern, while haplogroup B demonstrated a branched haplotype network pattern. Our results suggest that, the two haplogroups detected have existed in sympatry along Korean coasts. However, haplogroup A may have been established by a recent population expansion, while haplogroup B may have been established a long time ago. The strong genetic structure found within the polyp population of A. coerulea may have an effect on the moon jellyfish blooms on Korean coasts.

The Characteristics of Selective 3D Metal Additive Process Using Electrochemical Deposition and Nozzle Fluid Dynamics

In this study, we investigated the characteristics of the three-dimensional (3D) additive printing process of pure copper(Cu) on metal substrates through the localized electroplating with precisely controlled nozzle fluid dynamics. In addition, we analyzed the characteristics of 3D shape formations in relation to the changes in the main electroplating factors, such as electrolyte temperature, applied current, nozzle pressure and distance between the working electrode and the nozzle. The variations of the surface texture and growth rate owing to these factors were confirmed and optimum condition was investigated. Finally, the successful fabrication of complicated 3D structures, such as micro coils and star-like pattern were demonstrated through the proposed method.

Influence of Interlink Topology on Multilayer Network Robustness

Cascading failures between interdependent multilayer networks are being widely studied, especially the trend of robustness caused by the interlinks between networks. However, few researchers pay attention to the effect of the interlink topology on the robustness of coupled networks, which is a critical interlink factor of multilayer networks. In this study, the method frame of multilayer network experiment simulation is given. Through numerical simulation and actual network simulation, the exhaustive method is used to enumerate all the patterns of interlink topological relations of multilayer networks (three-layer or more). The research verifies that the interlink topology affects the global robustness and that there exists a fragile interlink pattern in the patterns of interlink topologies. The star-like interlink pattern with the most uneven interlink-degree distribution leads to the weakest robustness; the pattern with average interlink-degree distribution reveals good global stability as a loop-like pattern or entire interlink pattern. In addition, the influence of interlink topology is independent. The simulation results are not affected by the network layer number and intraparameters (including the network-generated form, each layer of network node number, and average degree of each layer of network). Thus, ignoring the interlink topology may result in the actual system suddenly becoming vulnerable before the theoretical calculation point. Interlink topology as an independent factor affecting the robustness of multilayer networks should be paid more attention.

Bacillus anthracis evolutionary history: taking advantage of the topology of the phylogenetic tree and of human history to propose dating points

This review expands on a talk I gave during the Biology of Anthrax meeting held in Bari, Italy (September 3 rd-6 th , 2019). The talk was a synthesis of recent investigations taking advantage of the topology of the Bacillus anthracis phylogenetic tree to propose tentative dating points and scenarios. Currently available whole-genome sequence (WGS) data allowed identifying single nucleotide polymorphisms (SNPs) among B. anthracis strains and drawing phylogenetic trees. The geographic origin of the strains and the topology of the tree were used to infer spreading events. Five star-like patterns in the tree (polytomies), each containing at least six branches, were detected. The analysis of the geographic distribution of the strains constituting one such polytomy suggests that it emerged not more than a few centuries ago. The key observation allowing this dating is the finding that the polytomy is anchored into Western Europe and that the main North-American lineage emerged from one of its branches, indicative of a post-Columbian export. From this point, I propose additional working hypotheses which may allow dating key nodes along the phylogeny of B. anthracis corresponding to four Out-of-Africa events. While trade of contaminated animal products seems to be the predominant driving force underlying modern long-distance spreading of B. anthracis, invasive military operations and more generally borders instabilities may have played an important role in earlier times. The testing of these hypotheses will require the sequencing of a significant number of additional strains from many countries.

Reactive-infiltration instability in radial geometry: From dissolution fingers to star patterns.

We consider the process of chemical erosion of a porous medium infiltrated by a reactive fluid in a thin-front limit, in which the width of the reactive front is negligible with respect to the diffusive length. We show that in the radial geometry the advancing front becomes unstable only if the flow rate in the system is sufficiently high. The existence of such a stable region in parameter space is in contrast to the Saffman-Taylor instability in radial geometry, where for a given flow rate the front always eventually becomes unstable, after reaching a certain critical radius. We also examine the similarities between the reactive-infiltration instability and the similar instability in the heat transfer, which is driving the formation of star-like patterns on frozen lakes.

A new species of Physaloptera (Nematoda: Spirurida) from Proechimys gardneri (Rodentia: Echimyidae) from the Amazon rainforest and molecular phylogenetic analyses of the genus.

Nematodes of the genus Physaloptera are globally distributed and more than 100 species are known. Their life cycle involves insects, including beetles, cockroaches and crickets, as intermediate hosts. This study describes a new species of Physaloptera and reports molecular phylogenetic analyses to determine its relationships within the family Physalopteridae. Physaloptera amazonica n. sp. is described from the stomach of the caviomorph rodent Proechimys gardneri collected in the Amazon rainforest in the state of Acre, Brazil. The species is characterized by the male having the first and second pair of sessile papillae asymmetrically placed, lacking a median papilla-like protuberance between the third pairs of sessile papillae, differentiated by size and shape of the spicules, while females have four uterine branches. For both nuclear 18S rRNA and MT-CO1 gene-based phylogenies, we recovered Turgida sequences forming a clade nested within Physaloptera, thus making Physaloptera paraphyletic to the exclusion of Turgida, suggesting that the latter may have evolved from the former monodelphic ancestral state to a derived polydelphic state, or that some species of Physaloptera may belong to different genera. Relationships between most taxa within Physaloptera were poorly resolved in our phylogenies, producing multifurcations or a star phylogeny. The star-like pattern may be attributed to evolutionary processes where past simultaneous species diversification events took place. Physaloptera amazonica n. sp. formed an independent lineage, separately from the other species of Physaloptera, thus supporting the status of a new species. However, all molecular data suggested a closer relationship with other Neotropical species. In conclusion, we added a new species to this already largely diverse genus Physaloptera, bringing new insights to its phylogenetic relationships. Further analyses, adding more species and markers, should provide a better understanding of the evolutionary history of physalopterids.

Thermophysical Fingerprinting of Probiotic-Based Products

Variability in efficacy and safety is a worldwide concern with commercial probiotics for their growing and inevitable use in food and health sectors. Here, we introduce a probiotic thermophysical fingerprinting methodology using a coupling thermogravimetry and differential scanning calorimetry. Qualitative and quantitative information on the material decomposition and transition phases is provided under heating conditions. By monitoring the changes in both mass and internal energy over temperature and time, a couple of thermal data at the maximum decomposition steps allow the creation of a unique and global product identity, depending on both strain and excipient components. We demonstrate that each powder formulation of monostrain and multistrain from different lots and origins have a unique thermophysical profile. Our approach also provides information on the formulation thermostability and additive/excipient composition. An original fingerprint form is proposed by converting the generated thermal data sequence into a star-like pattern for a perspective library construction.

Paralogs vs. genotypes? Variability of Babesia canis assessed by 18S rDNA and two mitochondrial markers

Canine babesiosis caused by Babesia canis sensu stricto became an emerging disease of dogs across Europe calling for attention also in countries where it was an only rare imported disease. An easy accessibility of molecular methods and the growing amount of sequencing data led to the description of intraspecific variability in 18S rDNA sequences designated as "genotypes". Using material from a homogenous cohort of dogs with microscopically confirmed canine babesiosis caused by B. canis, we evaluated Babesia intraspecific variability and amplification sensitivity of three different genes (18S rDNA, COI, Cytb) to assess their potential as diagnostic or phylogenetic markers. In raw sequencing data obtained, we observed at least 3 ambiguous positions in up to 86% of chromatograms within the ∼560 bp fragment of 18S rDNA suggesting the existence of several, not identical copies of this gene. Our COI haplotype analysis resulted in a star-like pattern indicating a recent origin of most haplotypes, but not supporting the existence of two dominant haplotypes. Similarly, the Cytb sequences obtained from samples with all variants of 18S rDNA were identical. We corroborate previous observations from three other European countries and bring the evidence of the existence of 18S rDNA paralogs in B. canis genome replacing currently used “genotype” theory.

Mitochondrial phylogeography of the Mediterranean horseshoe bat on the Balkan Peninsula

The Balkan Peninsula is identified as one of the major glacial refugia in Europe during the Pleistocene, and it has served as a genetic source for post-glacial recolonization for many temperate species. The aim of this study was to investigate the genetic diversity and phylogeographic patterns of the Mediterranean horseshoe bat, Rhinolophus euryale Blasius 1853, on the Balkan Peninsula. We also analyzed its demographic history and tested the hypothesis that this region was a glacial refugium for this species. We collected 82 samples from 20 localities in the Balkans and Italy and sequenced the mitochondrial D-loop region. Our results revealed low nucleotide but high haplotype diversity, with 20 out of 24 haplotypes reported for the first time. All Balkan and Italian samples belonged to a single genetic clade in the phylogenetic reconstruction, where they clustered together with previously published samples from Turkey, southern France and North Africa. The haplotype network had a star-like pattern that is indicative of recent population expansion. Both mismatch distribution and shallow genetic differentiation also supported the scenario of a sudden demographic expansion. We estimated that expansion within this lineage commenced in the Late Pleistocene. We suggest that the Balkan Peninsula was a glacial refugium for R. euryale.