Gapless genome assembly of azalea and multi-omics investigation into divergence between two species with distinct f lower color

The genus Rhododendron(Ericaceae),with more than 1000 species highly diverse in f lower color,is providing distinct ornamental values and a model system for f lower color studies.Here,we investigated the divergence between two parental species with different f lower color widely used for azalea breeding.Gapless genome assembly was generated for the yellow-f lowered azalea,Rhododendron molle.Comparative genomics found recent proliferation of long terminal repeat retrotransposons(LTR-RTs),especially Gypsy,has resulted in a 125 Mb(19%)genome size increase in species-specific regions,and a significant amount of dispersed gene duplicates(13402)and pseudogenes(17437).Metabolomic assessment revealed that yellow f lower coloration is attributed to the dynamic changes of carotenoids/f lavonols biosynthesis and chlorophyll degradation.Time-ordered gene co-expression networks(TO-GCNs)and the comparison confirmed the metabolome and uncovered the specific gene regulatory changes underpinning the distinct f lower pigmentation.B3 and ERF TFs were found dominating the gene regulation of carotenoids/f lavonols characterized pigmentation in R.molle,while WRKY,ERF,WD40,C2H2,and NAC TFs collectively regulated the anthocyanins characterized pigmentation in the red-f lowered R simsii.This study employed a multi-omics strategy in disentangling the complex divergence between two important azaleas and provided references for further functional genetics and molecular breeding.

Pangenome of water caltrop reveals structural variations and asymmetric subgenome divergence after allopolyploidization

Water caltrop(Trapa spp.,Lythraceae)is a traditional but currently underutilized non-cereal crop.Here,we generated chromosome-level genome assemblies for the two diploid progenitors of allotetraploid Trapa.natans(4x,AABB),i.e.,diploid T.natans(2x,AA)and Trapa incisa(2x,BB).In conjunction with four published(sub)genomes of Trapa,we used gene-based and graph-based pangenomic approaches and a pangenomic transposable element(TE)library to develop Trapa genomic resources.The pangenome displayed substantial gene-content variationwith dispensable and private gene clusters occupying a large proportion(51.95%)of the total cluster sets in the six(sub)genomes.Genotyping of presence-absence variation(PAVs)identified 40453 PAVs associated with 2570 genes specific to A-or B-lineages,of which 1428were differentially expressed,andwere enriched in organ development process,organic substancemetabolic process and response to stimulus.Comparative genome analyses showed that the allotetraploid T.natans underwent asymmetric subgenome divergence,with the B-subgenome being more dominant than the A-subgenome.Multiple factors,including PAVs,asymmetrical amplification of TEs,homeologous exchanges(HEs),and homeolog expression divergence,together affected genome evolution after polyploidization.Overall,this study sheds lights on the genome architecture and evolution of Trapa,and facilitates its functional genomic studies and breeding program.

Evaluation of Genetic Divergence in Various Potato Genotypes Grown in Bangladesh through Different Traits Assessment

The goal of the study was to quantify the genetic diversity of different potato varieties. Five groups were named to classify the 25 genres of potatoes as: Cluster I (Lalpakri, Diamond), Cluster II (Hagrai, Green Mountain, G.M.O., Elvera), Cluster III (Atlantic, Shepody, Raja, Fundy, Multa, Granulla, Shibilati, Japanese Red), Cluster IV (Atlas, Brondy, Yucon Gold, Monona, Petrones, Cheroki), and Cluster V (Calwhite, Prelude, Allblue, Russet, Burbank, TPS-67). The highest and lowest genotypes are found in Clusters III and I, respectively. The two groups’ maximum inter-cluster distance (the cluster’s distance between them) demonstrates the enormous diversity between Clusters II & III. Cluster III had the greatest intra-cluster distance (distance within a set), whereas Cluster V had the smallest. In most cases, the distance between gaps was more significant than the distance within the holes, showing greater genetic diversity between different groups’ genotypes. The highest, second highest, and third highest eigenvalues, accompanying the positive canonical values for Vectors I and II of three characteristics: average tuber weight in each plant, the tubers number in each plant, and the eyes number in each tuber, showed the most outstanding contribution to the complete difference between genotypes. Of the nine features, the smaller leaves number in each plant, the shorter plant height, the more minor genotypes, the fewer eyes per tube generated from Cluster I, the maximum height of the plants, the high-quality tubers in each plant, the tubers number in each plant, the fresh weight in each plant, and the leaf number in each plant from Cluster II could be chosen in the role of parents in this program for hybridization. Given the size of the genetic distance, the various characteristics that contribute to the overall difference, and the average population size, Hagrai, Green Mountain, O.M.G., Elvera Cluster II and Cluster I, Lalpakri, and Diamond genotypes can be regarded as parents of hybridization programs in the future. Thus, producers can get guidance to enhance genetic diversity by selecting materials from different relatives and reducing their vulnerability to diseases and climate change.

Model-Free Ultra-High-Dimensional Feature Screening for Multi-Classified Response Data Based on Weighted Jensen-Shannon Divergence

In ultra-high-dimensional data, it is common for the response variable to be multi-classified. Therefore, this paper proposes a model-free screening method for variables whose response variable is multi-classified from the point of view of introducing Jensen-Shannon divergence to measure the importance of covariates. The idea of the method is to calculate the Jensen-Shannon divergence between the conditional probability distribution of the covariates on a given response variable and the unconditional probability distribution of the covariates, and then use the probabilities of the response variables as weights to calculate the weighted Jensen-Shannon divergence, where a larger weighted Jensen-Shannon divergence means that the covariates are more important. Additionally, we also investigated an adapted version of the method, which is to measure the relationship between the covariates and the response variable using the weighted Jensen-Shannon divergence adjusted by the logarithmic factor of the number of categories when the number of categories in each covariate varies. Then, through both theoretical and simulation experiments, it was demonstrated that the proposed methods have sure screening and ranking consistency properties. Finally, the results from simulation and real-dataset experiments show that in feature screening, the proposed methods investigated are robust in performance and faster in computational speed compared with an existing method.

Phylogenetic diversity of eastern Asia-eastern North America disjunct plants is mainly associated with divergence time

The underlying causes of biodiversity disparities among geographic regions have long been a fundamental theme in ecology and evolution.However,the patterns of phylogenetic diversity(PD) and phylogenetic beta diversity(PBD) of congeners that are disjunctly distributed between eastern Asia-eastern North America(EA-ENA disjuncts) and their associated factors remain unknown.Here we investigated the standardized effect size of PD(SES-PD),PBD,and potentially associated factors in 11natural mixed forest sites(five in EA and six in ENA) where abundant EA-ENA disjuncts occur.We found that the disjuncts in ENA possessed higher SES-PD than those in EA at the continental scale(1.96vs-1.12),even though the number of disjunct species in ENA is much lower than in EA(128 vs 263).SESPD of the EA-ENA disjuncts tended to decrease with increasing latitude in 11 sites.The latitudinal diversity gradient of SES-PD was stronger in EA sites than in ENA sites.Based on the unweighted unique fraction metric(UniFrac) distance and the phylogenetic community dissimilarity,PBD showed that the two northern sites in EA were more similar to the six-site ENA group than to the remaining southern EA sites.Based on the standardized effect size of mean pairwise distances(SES-MPD),nine of eleven studied sites showed a neutral community structure(-1.96 ≤SES-MPD ≤1.96).Both Pearson’s r and structural equation modeling suggested that SES-PD of the EA-ENA disjuncts was mostly associated with mean divergence time.Moreover,SES-PD of the EA-ENA disjuncts was positively correlated with temperaturerelated climatic factors,although negatively correlated with mean diversification rate and community structure.By applying approaches from phylogenetics and community ecology,our work sheds light on historical patterns of the EA-ENA disjunction and paves the way for further research.

Study of beam divergence and thrust vector eccentricity characteristics of the Hall thruster based on dual Faraday probe array planes and its applications

The accurate knowledge of the thrust vector eccentricity and beam divergence characteristics of Hall thrusters are of significant engineering value for the beneficial integration and successful application of Hall thrusters on spacecraft.For the characteristics of the plume bipolar diffusion due to the annular discharge channel of the Hall thruster,a Gaussian-fitted method for thrust vector deviation angle and beam divergence of Hall thrusters based on dual Faraday probe array planes was proposed in respect of the Hall thruster beam characteristics.The results show that the ratios of the deviation between the maximum and minimum values of the beam divergence angle and the thrust vector eccentricity angle using a Gaussian fit to the optimized Faraday probe dual plane to the mean value are 1.4%and 11.5%,respectively.The optimized thrust vector eccentricity angle obtained has been substantially improved,by approximately 20%.The beam divergence angle calculated using a Gaussian fitting to the optimized Faraday probe dual plane is approximately identical to the non-optimized one.The beam divergence and thrust vector eccentricity angles for different anode mass flow rates were obtained by averaging the beam divergence and thrust vector eccentricity angles calculated by the dual-plane,Gaussian-fitted ion current density method for different cross-sections.The study not only allows for an immediate and effective tool for determining the design of thrust vector adjustment mechanisms of spacecraft with different power Hall thrusters but also for characterizing the 3D spatial distribution of the Hall thruster plume.

A test of genetic divergence of a bird existing in the Sichuan Basin and its surrounding mountain ranges

Island ecosystems,serving as natural laboratories,facilitate geographical isolation,ecological specialization,and species divergence.The Sichuan Basin,surrounded by mountain ranges,represents a typical continental island due to its marked environmental spatial heterogeneity.This heterogeneity may contribute to geographical isolation and habitat heterogeneity,resulting in genetic divergence within populations.Therefore,we used the White-browed Laughingthrush(Garrulax sannio)as a model specimen to investigate the genetic divergence in the Sichuan Basin and its surrounding mountain ranges,given its presence in various habitats within and beyond this basin.Employing a RAD-seq dataset of 140 G.sannio individuals from 17 distinct ecological zones in the Sichuan Basin and its surrounding mountain ranges,we conducted PCA,population structure analysis,phylogenetic tree construction,and gene flow analysis to comprehensively analyze G.sannio groups.Additionally,in conjunction with geographical and ecological data,we performed isolation by distance,isolation by environment,PCA,and latent factor mixed model analysis to identify factors influencing the genetic divergence among these G.sannio groups.In summary,the 17 G.sannio groups were categorized into high-elevation,medium-elevation,and lowelevation groups.Genetic divergence in G.sannio may be attributed to both geographical distance and key ecological factors,particularly elevation and key climatic variables.Notably,the high-elevation group exhibited a greater number of SNPs and selected genes associated with the key ecological factors compared to the lowelevation group.The ADCY9 gene and several associated key pathways were identified as crucial elements driving ecological adaptation(elevation and key climatic variables)in the high-elevation group.Furthermore,climate changes during the glacial cycles may have facilitated gene flow among these groups residing in the Sichuan Basin and its surrounding mountain ranges.Our findings provide evidence of genetic divergence in G.sannio influenced by the geographical distance and key ecological factors between the Sichuan Basin and its surrounding mountain ranges.These results lay the groundwork for future research on the molecular systematics of continental islands.

How Classical, Quantum-Mechanical, and Relativistic Wave and Field Equations Are Uniformly Generated by Velocity-Field Divergence Equations

We expand previously established results concerning the uniform representability of classical and relativistic gravitational field equations by means of velocity-field divergence equations by demonstrating that conservation equations for (probability) density functions give rise to velocity-field divergence equations the solutions of which generate—by way of superposition—the totality of solutions of various well-known classical and quantum-mechanical wave equations.

RIGHT MEAN FOR THEα-z BURES-WASSERSTEIN QUANTUM DIVERGENCE

The optimization problem to minimize the weighted sum ofα-z Bures-Wasserstein quantum divergences to given positive definite Hermitian matrices has been solved.We call the unique minimizer theα-z weighted right mean,which provides a new non-commutative version of generalized mean(H?lder mean).We investigate its fundamental properties,and give many interesting operator inequalities with the matrix power mean including the Cartan mean.Moreover,we verify the trace inequality with the Wasserstein mean and provide bounds for the Hadamard product of two right means.

Long-read genome assemblies reveal a cis-regulatory landscape associated with phenotypic divergence in two sister Siniperca fish species

Due to the difficulty in accurately identifying structural variants(SVs) across genomes,their impact on cisregulato ry diverge n ce of closely related species,especially fish,remains to be explored.Recently identified broad H3K4me3 domains are essential for the regulation of genes involved in several biological processes.However,the role of broad H3K4me3 domains in phenotypic divergence remains poorly understood.Siniperca chuatsi and S.scherzeri are closely related but divergent in several phenotypic traits,making them an ideal model to study cis-regulatory evolution in sister species.Here,we generated chromosome-level genomes of S.chuatsi and S.scherzeri,with assembled genome sizes of 716.35 and740.54 Mb,respectively.The evolutionary histories of S.chuatsi and S.scherzeri were studied by inferring dynamic changes in ancestral population sizes.To explore the genetic basis of adaptation in S.chuatsi and S.scherzeri,we performed gene family expansion and contraction analysis and identified positively selected genes(PSGs).To investigate the role of SVs in cis-regulatory divergence of closely related fish species,we identified high-quality SVs as well as divergent H3K27ac and H3K4me3 domains in the genomes of S.chuatsi and S.scherzeri.Integrated analysis revealed that cis-regulatory divergence caused by SVs played an essential role in phenotypic divergence between S.chuatsi and S.scherzeri.Additionally,divergent broad H3K4me3 domains were mostly associated with cancer-related genes in S.chuatsi and S.scherzeri and contributed to their phenotypic divergence.

The Meaning of Divergence

The concept of the divergence is fundamental in electromagnetic field theory, yet they are especially difficult mathematical concepts. Understanding this concept requires strong spatial and abstract thinking. When teaching, through the graphical and quantitative methods presented herein, the significance of the divergence is displayed by a quantitative method for the first time. Through these methods, the concepts of the divergence can be grasped more easily. These explanations will be helpful for students to strengthen the understanding of this concept and has a certain reference significance.

Hard life for sons in the nest?Sex-dependent offspring mortality in Great Tits in urban and forest areas

Sex-biased mortality can occur in birds during development,for example due to sexual differences in energy requirement and/or environmental sensitivity,or the effects of sex hormones or sex differences in the expression of mutations linked to sex chromosomes.The extent of sex-bias in mortality may also be related to environmental conditions that influence offspring development and survival.Urban areas often provide poorer conditions for nestling development resulting in higher offspring mortality compared to natural areas,which may accelerate sex differences in offspring mortality in cities.To test this hypothesis,we examined the sex ratio of dead offspring in Great Tits(Parus major),using 427 samples of unhatched eggs and dead nestlings collected in two urban and two forest sites between 2013 and 2019.The ratio of males in the whole sample of dead offspring(56.9%)was significantly higher than expected by an 1:1 ratio,and the strongest sex biases were detected in urban areas(57.6%males)and in young nestlings(<14 days old,59.0%males).However,the sex ratios of dead offspring did not differ significantly among study sites and between offspring developmental stages.29.3%of unhatched eggs contained a visible embryo,and the proportion of embryo-containing unhatched eggs did not differ significantly between urban and forest study sites.These results suggest male-biased offspring mortality in Great Tits,and highlight the need of large datasets to detect subtle differences between habitats and developmental stages.

Evidence of the Great Attractor and Great Repeller from Artificial Neural Network Imputation of Sloan Digital Sky Survey

The Sloane Digital Sky Survey (SDSS) has been in the process of creating a 3D digital map of the Universe, since 2000AD. However, it has not been able to map that portion of the sky which is occluded by the dust gas and stars of our own Milkyway Galaxy. This research builds on work from a previous paper that sought to impute this missing galactic information using Inpainting, polar transforms and Linear Regression ANNs. In that paper, the author only attempted to impute the data in the Northern hemisphere using the ANN model, which subsequently confirmed the existence of the Great Attractor and the homogeneity of the Universe. In this paper, the author has imputed the Southern Hemisphere and discovered a region that is mostly devoid of stars. Since this area appears to be the counterpart to the Great Attractor, the author refers to it as the Great Repeller and postulates that it is an area of physical repulsion, inline with the work of GerdPommerenke and others. Finally, the paper investigates large scale structures in the imputed galaxies.

Case Report: Surgical Correction of Transposition of the Great Arteries with Aortopulmonary Window

Introduction:Transposition of the great arteries(TGA)with aortopulmonary window is a rare type of congenital heart disease with limited experience.We reported a neonate aged 25 days receiving the arterial switch operation and assisted with extracorporeal membrane oxygenation.Conclusion:TGA with aortopulmonary window can be safely correctly with the arterial switch operation.

A 63-Year-Old Male with D-Transposition of the Great Arteries Who Had an Early Form of the Arterial Switch Operation

We describe a 63-year-old male who appears to have undergone an early form of the arterial switch operation for D-transposition of the great arteries performed in the mid-1960s.We review the clinical and imaging data that support our conclusion.He had a diagnostic cardiac catheterization which demonstrated severe pulmonary hypertension responsive to epoprostenol and oxygen.Our case may represent one example of the experimental surgical work done prior to Dr.Adibe Jatene’s description of thefirst successful arterial switch performed in 1975.

Asia-Pacific Security Situation and Strategic Response Under Great Changes

Our world today is going through accelerated transformation unseen in a century.The new round of scientific and technological revolution and industrial transformation is gaining steam,the international balance of power is undergoing profound adjustment,and China’s development is facing new strategic opportunities.

Celebrate Chinese New Year with Great Joy

Series of Activities for 2024 Chinese New Year Launched by the Ministry of Cultureand Tourism From January 18 to March 11, the Ministry of Culture and Tourism ofthe People's Republic of China organizes the 2024 Chinese New Yearthemedcultural and tourist activities "Celebrate the Chinese New Year withGreat Joy", which includes 25 main activities in 7 major sections, coveringpeople-benefit art performances, public service activities, demonstration ofintangible cultural heritage experience, tourism and leisure consumption,ice & snow research and tourism, cultural exhibitions, international anddomestic interaction and other fields, with supply of high-quality cultural andtourist products, so as to enrich the holiday life of the people and to meet thepeople's requirements for a happy New Year.

Consumer Culture in The Great Gatsby

F.Scott Fitzgerald’s The Great Gatsby successfully portrays the“Jazz Age”.In the early 20th century,the United States transitioned from a production-based society to a consumer-based society,leading to an era of unparalleled prosperity.However,in the context of consumer culture,individuals often transition from being masters of their possessions to becoming enslaved by them.As a result,their behaviours and values become increasingly associated with extravagance and consumption.This paper uses Baudrillard’s theory of consumer society and textual analysis to explore the impact of consumer culture on human beings through the symbolization of men and objectification of women in The Great Gatsby.The meanings embedded in the novel are revealed from a different perspective.

Spatial-temporal distribution and geochemistry of highly evolved Mesozoic granites in Great Xing’an Range,NE China:Discriminant criteria and geological significance

Highly evolved granite is an important sign of the mature continent crust and closely associated with deposits of rare metals.In this work,the authors undertake systematically zircon U-Pb ages and whole rock elemental data for highly evolved granitic intrusions from the Great Xing’an Range(GXR),NE China,to elucidate their discriminant criteria,spatial-temporal distribution,differentiation and geodynamic mecha-nism.Geochemical data of these highly evolved granites suggest that high w(SiO_(2))(>70%)and differentiation index(DI>88)could be quantified indicators,while strong Eu depletion,high TE_(1,3),lowΣREE and low Zr/Hf,Nb/Ta,K/Rb could only be qualitative indicators.Zircon U-Pb ages suggest that the highly evolved gran-ites in the GXR were mainly formed in Late Mesozoic,which can be divided into two major stages:Late Ju-rassic-early Early Cretaceous(162-136 Ma,peak at 138 Ma),and late Early Cretaceous(136-106 Ma,peak at 126 Ma).The highly evolved granites are mainly distributed in the central-southern GXR,and display a weakly trend of getting younger from northwest to southeast,meanwhile indicating the metallogenic potential of rare metals within the central GXR.The spatial-temporal distribution,combined with regional geological data,indicates the highly evolved Mesozoic granites in the GXR were emplaced in an extensional environ-ment,of which the Late Jurassic-early Early Cretaceous extension was related to the closure of the Mongol-Okhotsk Ocean and roll-back of the Paleo-Pacific Plate,while the late Early Cretaceous extension was mainly related to the roll-back of the Paleo-Pacific Plate.

Exploring the Path of Party Building Leading League Construction in Colleges and Universities under the Pattern of Great Ideological and Political Education

In accordance with the pattern of"great ideology and politics",the Party and youth League organizations assume the role of vanguard in the organization of colleges and universities.Simultaneously,they serve as a pivotal force in ideological and political education.In order to construct a comprehensive ideological and political framework encompassing the entire educational process,it is of paramount importance to identify an efficacious methodology for Party building leading League construction.This paper employs a comprehensive analysis to elucidate the pivotal role of Party building leading League construction in facilitating ideological and political education.It also illuminates the practical challenges encountered in the implementation of Party building leading League construction initiatives within colleges and universities.The article proposes a specific path for Party building leading League construction in colleges and universities based on three key aspects:cohesion of the consensus of Party building leading League building,establishment of the institutional system of Party building leading League construction,and creation of the model brand of Party building leading League construction.The aim is to promote in-depth development of Party building in colleges and universities and enhance the quality and effect of ideological and political education.