A novel design of multiplex differential voltage comparators(MDVC) is presented for reducing current and power dissipation. According to the special properties of relational operation and logical operation, parts of t...A novel design of multiplex differential voltage comparators(MDVC) is presented for reducing current and power dissipation. According to the special properties of relational operation and logical operation, parts of the comparators are redundant in some instances, and thus can be turned off. By selecting and switching the current routes, several effective differential pairs are biased by a single tail current stage-by-stage and the redundant comparators are turned off by cutting their tail currents. As a result, the quiescent current and power consumption are greatly decreased. The switching of current is achieved by the input differential pair transistors themselves and hence no extra switches are required. When a MDVC is used in a flash analog-to-digital converter(ADC), its current dissipation is much lower than that of the conventional comparators. This architecture can also be used in window-comparators, maximum or minimum comparators, and comparators for logical operations. The power dissipation in all these cases could be reduced significantly.展开更多
Understanding gene expression variations between species is pivotal for deciphering the evolutionary diversity in phenotypes. Rhesus macaques(Macaca mulatta, MMU)and crab-eating macaques(M. fascicularis, MFA) serve as...Understanding gene expression variations between species is pivotal for deciphering the evolutionary diversity in phenotypes. Rhesus macaques(Macaca mulatta, MMU)and crab-eating macaques(M. fascicularis, MFA) serve as crucial nonhuman primate biomedical models with different phenotypes. To date, however, large-scale comparative transcriptome research between these two species has not yet been fully explored. Here, we conducted systematic comparisons utilizing newly sequenced RNA-seq data from84 samples(41 MFA samples and 43 MMU samples)encompassing 14 common tissues. Our findings revealed a small fraction of genes(3.7%) with differential expression between the two species, as well as 36.5% of genes with tissue-specific expression in both macaques. Comparison of gene expression between macaques and humans indicated that 22.6% of orthologous genes displayed differential expression in at least two tissues. Moreover,19.41% of genes that overlapped with macaque-specific structural variants showed differential expression between humans and macaques. Of these, the FAM220A gene exhibited elevated expression in humans compared to macaques due to lineage-specific duplication. In summary,this study presents a large-scale transcriptomic comparison between MMU and MFA and between macaques and humans. The discovery of gene expression variations not only enhances the biomedical utility of macaque models but also contributes to the wider field of primate genomics.展开更多
Geological maps encode vast amounts of data about rock types,ages,chemistry,orogenic architecture and deep-time history or different tectonic units,yet these are often difficult to extract because of the way different...Geological maps encode vast amounts of data about rock types,ages,chemistry,orogenic architecture and deep-time history or different tectonic units,yet these are often difficult to extract because of the way different geologists portray their results at various scales.To understand orogenesis in 4D,it is essential to uniformly integrate map data,together with geophysical data and deep geochemical mapping(Wang et al.,2023).展开更多
Rice and wheat provide nearly 40%of human calorie and protein requirements.They share a common ancestor and belong to the Poaceae(grass)family.Characterizing their genetic homology is crucial for developing new cultiv...Rice and wheat provide nearly 40%of human calorie and protein requirements.They share a common ancestor and belong to the Poaceae(grass)family.Characterizing their genetic homology is crucial for developing new cultivars with enhanced traits.Several wheat genes and gene families have been characterized based on their rice orthologs.Rice–wheat orthology can identify genetic regions that regulate similar traits in both crops.Rice–wheat comparative genomics can identify candidate wheat genes in a genomic region identified by association or QTL mapping,deduce their putative functions and biochemical pathways,and develop molecular markers for marker-assisted breeding.A knowledge of gene homology facilitates the transfer between crops of genes or genomic regions associated with desirable traits by genetic engineering,gene editing,or wide crossing.展开更多
Horseshoe bats(genus Rhinolophus,family Rhinolophidae)represent an important group within chiropteran phylogeny due to their distinctive traits,including constant high-frequency echolocation,rapid karyotype evolution,...Horseshoe bats(genus Rhinolophus,family Rhinolophidae)represent an important group within chiropteran phylogeny due to their distinctive traits,including constant high-frequency echolocation,rapid karyotype evolution,and unique immune system.Advances in evolutionary biology,supported by high-quality reference genomes and comprehensive whole-genome data,have significantly enhanced our understanding of species origins,speciation mechanisms,adaptive evolutionary processes,and phenotypic diversity.However,genomic research and understanding of the evolutionary patterns of Rhinolophus are severely constrained by limited data,with only a single published genome of R.ferrumequinum currently available.In this study,we constructed a high-quality chromosome-level reference genome for the intermediate horseshoe bat(R.affinis).Comparative genomic analyses revealed potential genetic characteristics associated with virus tolerance in Rhinolophidae.Notably,we observed expansions in several immune-related gene families and identified various genes functionally associated with the SARS-CoV-2 signaling pathway,DNA repair,and apoptosis,which displayed signs of rapid evolution.In addition,we observed an expansion of the major histocompatibility complex class II(MHC-II)region and a higher copy number of the HLA-DQB2 gene in horseshoe bats compared to other chiropteran species.Based on whole-genome resequencing and population genomic analyses,we identified multiple candidate loci(e.g.,GLI3)associated with variations in echolocation call frequency across R.affinis subspecies.This research not only expands our understanding of the genetic characteristics of the Rhinolophus genus but also establishes a valuable foundation for future research.展开更多
Unraveling the phylogeographic histories of species remains a key endeavor for comprehending the evolutionary processes contributing to the rich biodiversity and high endemism found in East Asia.In this study,we explo...Unraveling the phylogeographic histories of species remains a key endeavor for comprehending the evolutionary processes contributing to the rich biodiversity and high endemism found in East Asia.In this study,we explored the phylogeographic patterns and demographic histories of three endemic fishfly and dobsonfly species(Neochauliodes formosanus,Protohermes costalis,and Neoneuromus orientalis)belonging to the holometabolan order Megaloptera.These species,which share a broad and largely overlapping distribution,were analyzed using comprehensive mitogenomic data.Our findings revealed a consistent influence of vicariance on the population isolation of Neoc.formosanus and P.costalis between Hainan,Taiwan,and the East Asian mainland during the early Pleistocene,potentially hindering subsequent colonization of the later diverged Neon.orientalis to these islands.Additionally,we unveiled the dual function of the major mountain ranges in East Asia,serving both as barriers and conduits,in shaping the population structure of all three species.Notably,we demonstrated that these co-distributed species originated from Southwest,Southern,and eastern Central China,respectively,then subsequently migrated along multi-directional routes,leading to their sympatric distribution on the East Asian mainland.Furthermore,our results highlighted the significance of Pleistocene land bridges along the eastern coast of East Asia in facilitating the dispersal of mountain-dwelling insects with low dispersal ability.Overall,this study provides novel insight into the synergistic impact of Pleistocene geological and climatic events in shaping the diversity and distribution of aquatic insects in East Asia.展开更多
Hapalogenys analis(order Lobotiformes)is an economically and ecologically significant fish species.It is a typical sedentary rocky reef fish and is primarily found in the northern Pacific Ocean.Here,we used Hi-C and P...Hapalogenys analis(order Lobotiformes)is an economically and ecologically significant fish species.It is a typical sedentary rocky reef fish and is primarily found in the northern Pacific Ocean.Here,we used Hi-C and PacBio sequencing technique to assemble a high-quality,chromosome-level genome for this species.The 539 Mb genome had a contig N50 with a size of 3.43 Mb,while 755 contigs clustered into 24 chromosomal groups with an anchoring rate of 99.02%.Of the total genomic sequence,132.74Mb(24.39%)were annotated as repeat elements.A total of 21360 protein-coding genes were identified,of which 20787 genes(97.32%)were successfully annotated to public databases.The BUSCO evaluation indicated that 96.90%of the total orthologous genes were matched.The phylogenetic tree representing H.analis and 14 other bony fish species indicated that the H.analis genome contained 364 expanded gene families related to olfactory receptor activity,compared with the common ancestor of H.analis and Sciaenidae.Comparative genomic analysis further identified 3584 contracted gene families.Branch-site modeling identified 277 genes experiencing positive selection,which may facilitate the adaptation to rocky reef environments.The genome reported here is helpful for ecological and evolutionary studies of H.analis.展开更多
Multi-modal fusion technology gradually become a fundamental task in many fields,such as autonomous driving,smart healthcare,sentiment analysis,and human-computer interaction.It is rapidly becoming the dominant resear...Multi-modal fusion technology gradually become a fundamental task in many fields,such as autonomous driving,smart healthcare,sentiment analysis,and human-computer interaction.It is rapidly becoming the dominant research due to its powerful perception and judgment capabilities.Under complex scenes,multi-modal fusion technology utilizes the complementary characteristics of multiple data streams to fuse different data types and achieve more accurate predictions.However,achieving outstanding performance is challenging because of equipment performance limitations,missing information,and data noise.This paper comprehensively reviews existing methods based onmulti-modal fusion techniques and completes a detailed and in-depth analysis.According to the data fusion stage,multi-modal fusion has four primary methods:early fusion,deep fusion,late fusion,and hybrid fusion.The paper surveys the three majormulti-modal fusion technologies that can significantly enhance the effect of data fusion and further explore the applications of multi-modal fusion technology in various fields.Finally,it discusses the challenges and explores potential research opportunities.Multi-modal tasks still need intensive study because of data heterogeneity and quality.Preserving complementary information and eliminating redundant information between modalities is critical in multi-modal technology.Invalid data fusion methods may introduce extra noise and lead to worse results.This paper provides a comprehensive and detailed summary in response to these challenges.展开更多
Recent research on the genome of Bifidobacterium bifidum has mainly focused on the isolation sources(intestinal tract niche)recently,but reports on the isolation region are limited.This study analyzed the differences ...Recent research on the genome of Bifidobacterium bifidum has mainly focused on the isolation sources(intestinal tract niche)recently,but reports on the isolation region are limited.This study analyzed the differences in the genome of B.bifidum isolated from different geographical populations by comparative genomic analysis.Results at the genome level indicated that the GC content of American isolates was significantly higher than that of Chinese and Russian isolates.The phylogenetic tree,based on 919 core genes showed that B.bifidum might be related to the geographical characteristics of isolation region.Furthermore,functional annotation analysis demonstrated that copy numbers of carbohydrate-active enzymes(CAZys)involved in the degradation of polysaccharide from plant and host sources in B.bifidum were high,and 18 CAZys showed significant differences across different geographical populations,indicating that B.bifidum had adapted to the human intestinal environment,especially in the groups with diets rich in fiber.Dietary habits were one of the main reasons for the differences of B.bifidum across different geographical populations.Additionally,B.bifidum exhibited high diversity,evident in glycoside hydrolases,the CRISPR-Cas system,and prophages.This study provides a genetic basis for further research and development of B.bifidum.展开更多
Streptococcus thermophilus is one of the most prevalent species in stool samples of westernized populations due to continuous exposure to fermented dairy products.However,few studies have explored the effect on host p...Streptococcus thermophilus is one of the most prevalent species in stool samples of westernized populations due to continuous exposure to fermented dairy products.However,few studies have explored the effect on host physiology by multiple S.thermophilus strains and considered the inter-strain differences in regulating host.In the present study,we investigated how four S.thermophilus strains influenced the gut microbiota,mucin changes,and host metabolism after 28 days of intervention in conventional mice.The results indicated that the consumption of S.thermophilus affected the host with strain specificity.Among four S.thermophilus strains,DYNDL13-4 and DQHXNQ38M61,especially DQHXNQ38M61,had more effect on host physiology by modulating gut microbiota and host metabolism than LMD9 and 4M6.Ingestion of strains DYNDL13-4 and DQHXNQ38M61 resulted in more remarkable changes in amino acid metabolism and lipid metabolism than that of strains LMD9 and 4M6,which may be related to the elevation of intestinal Bifidobacterium by DYNDL13-4 and DQHXNQ38M61.The enriched Coriobacteriaceae UCG-002,Rikenellaceae RC9 gut group,and Lactobacillus only in the DQHXNQ38M61 group,had a close relationship with the prominent effect of DQHXNQ38M61 on regulating amino acid and lipid metabolism.In addition,DQHXNQ38M61 had a strong influence on degrading colonic mucin fucose by decreasedα-fucosidase activity in feces,and improving mucin sulfation by upregulated Gal3ST2 expression.Comparative genomic analysis revealed that the four S.thermophilus strains belonged to different branches in the phylogenetic tree,and DYNDL13-4 and DQHXNQ38M61 had more genes involved in carbohydrate metabolism,amino acid metabolism,membrane transport,and signal transduction,which may confer the capacity of nutrient utilization and gastrointestinal adaptation of the strains and be associated with their strong regulation in host.Our study provides valuable information for understanding the regulation of host metabolism after consuming different S.thermophilus strains and could facilitate potential personalized applications of S.thermophilus based on strain varieties.展开更多
The wild Lepista sordida is a kind of precious and rare edible fungus.An excellent strain of it by artificial domestication was obtained,which was high-yield and high in iron content.In this study,high-throughput comp...The wild Lepista sordida is a kind of precious and rare edible fungus.An excellent strain of it by artificial domestication was obtained,which was high-yield and high in iron content.In this study,high-throughput comparative proteomics was used to reveal the regulatory mechanism of its primordium differentiation in the early fruiting body formation.The mycelium before the primordium differentiation mainly expressed high levels of mitochondrial functional proteins and carbon dioxide concentration regulatory proteins.In young mushrooms,the highly expressed proteins were mainly involved in cell component generation,cell proliferation,nitrogen compound metabolism,nucleotide metabolism,glutathione metabolism,and purine metabolism.The differential regulation patterns of pileus and stipe growth to maturity were also revealed.The highly expressed proteins related to transcription,RNA splicing,the production of various organelles,DNA conformational change,nucleosome organization,protein processing,maturation and transport,and cell detoxification regulated the pileus development and maturity.The proteins related to carbohydrate and energy metabolism,large amounts of obsolete cytoplasmic parts,nutrient deprivation,and external stimuli regulated the stipe development and maturity.Multiple CAZymes regulated nutrient absorption,morphogenesis,spore production,stress response,and other life activities at different growth and development stages.展开更多
The high intraspecies heterogeneity of Baciillus coagulans leads to significant phenotypic differences among different strains.Thus,6 B.coagulans strains were tested in the present study using an irritable bowel syndr...The high intraspecies heterogeneity of Baciillus coagulans leads to significant phenotypic differences among different strains.Thus,6 B.coagulans strains were tested in the present study using an irritable bowel syndrome(IBS)animal model to determine whether the IBS-alleviating effects of B.coagulans strains are strain-specific.The results of this study showed that the ingestion of B.coagulans GBI-30,6086,and B.coagulans CCFM1041 significantly alleviated IBS symptoms in mice.In contrast,other B.coagulans strains showed no or limited alleviating effects on IBS symptoms.According to our experimental results,the two main common features of these strains were as follows:1)The resistance of vegetative cells to bile salts,and 2)ability to synthesize specific lipids and secondary metabolites.Screening strains based on these two indicators may greatly reduce costs and provide a basis for mining new functional B.coagulans strains.Our results also suggest that administration of B.coagulans could significantly regulate microbiota dysbiosis in animal models.Moreover,the close relationships between the gut microbiota,gut microbiota metabolites,and IBS were further confirmed in this study.展开更多
Deterministic compartment models(CMs)and stochastic models,including stochastic CMs and agent-based models,are widely utilized in epidemic modeling.However,the relationship between CMs and their corresponding stochast...Deterministic compartment models(CMs)and stochastic models,including stochastic CMs and agent-based models,are widely utilized in epidemic modeling.However,the relationship between CMs and their corresponding stochastic models is not well understood.The present study aimed to address this gap by conducting a comparative study using the susceptible,exposed,infectious,and recovered(SEIR)model and its extended CMs from the coronavirus disease 2019 modeling literature.We demonstrated the equivalence of the numerical solution of CMs using the Euler scheme and their stochastic counterparts through theoretical analysis and simulations.Based on this equivalence,we proposed an efficient model calibration method that could replicate the exact solution of CMs in the corresponding stochastic models through parameter adjustment.The advancement in calibration techniques enhanced the accuracy of stochastic modeling in capturing the dynamics of epidemics.However,it should be noted that discrete-time stochastic models cannot perfectly reproduce the exact solution of continuous-time CMs.Additionally,we proposed a new stochastic compartment and agent mixed model as an alternative to agent-based models for large-scale population simulations with a limited number of agents.This model offered a balance between computational efficiency and accuracy.The results of this research contributed to the comparison and unification of deterministic CMs and stochastic models in epidemic modeling.Furthermore,the results had implications for the development of hybrid models that integrated the strengths of both frameworks.Overall,the present study has provided valuable epidemic modeling techniques and their practical applications for understanding and controlling the spread of infectious diseases.展开更多
Rosaceae represents a vast and complex group of species,with its classification being intricate and contentious.The taxonomic placement of many species within this family has been a subject of ongoing debate.The study ...Rosaceae represents a vast and complex group of species,with its classification being intricate and contentious.The taxonomic placement of many species within this family has been a subject of ongoing debate.The study utilized the Illumina platform to sequence 19 plant species from 10 genera in the Rosaceae.The cp genomes,vary-ing in size from 153,366 to 159,895 bp,followed the typical quadripartite organization consisting of a large single-copy(LSC)region(84,545 to 87,883 bp),a small single-copy(SSC)region(18,174 to 19,259 bp),and a pair of inverted repeat(IR)regions(25,310 to 26,396 bp).These genomes contained 132–138 annotated genes,including 87 to 93 protein-coding genes(PCGs),37 tRNA genes,and 8 rRNA genes using MISA software,52 to 121 simple sequence repeat(SSR)loci were identified.D.arbuscular contained the least of SSRs and did not have hexanotides,A.lineata contained the richest SSRs.Long terminal repeats(LTRs)were primarily composed of palindromic and forward repeat sequences,meanwhile,The richest LTRs were found in Argentina lineata.Except for Argentina lineata,Fragariastrum eriocarpum,and Prunus trichostoma,which varied in gene type and position on both sides of the boundary,the remaining species were found to be mostly conserved according to IR boundary analysis.The examination of the Ka/Ks ratio revealed that only the infA gene had a value greater than 1,indicating that this gene was primarily subjected to positive selection during evolution.Additionally,9 hotspots of variation were identified in the LSC and SSC regions.Phylogenetic analysis confirmed the scientific validity of the genus Prunus L.sensu lato(s.l.)within the Rosaceae family.The separation of the three genera Argentina Hill,Fragariastrum Heist.ex Fabr.and Dasiphora Raf.from Potentilla L.may be a more scientific classification.These results offer fresh perspectives on the taxonomy of the Rosaceae.展开更多
This study is trying to address the critical need for efficient routing in Mobile Ad Hoc Networks(MANETs)from dynamic topologies that pose great challenges because of the mobility of nodes.Themain objective was to del...This study is trying to address the critical need for efficient routing in Mobile Ad Hoc Networks(MANETs)from dynamic topologies that pose great challenges because of the mobility of nodes.Themain objective was to delve into and refine the application of the Dijkstra’s algorithm in this context,a method conventionally esteemed for its efficiency in static networks.Thus,this paper has carried out a comparative theoretical analysis with the Bellman-Ford algorithm,considering adaptation to the dynamic network conditions that are typical for MANETs.This paper has shown through detailed algorithmic analysis that Dijkstra’s algorithm,when adapted for dynamic updates,yields a very workable solution to the problem of real-time routing in MANETs.The results indicate that with these changes,Dijkstra’s algorithm performs much better computationally and 30%better in routing optimization than Bellman-Ford when working with configurations of sparse networks.The theoretical framework adapted,with the adaptation of the Dijkstra’s algorithm for dynamically changing network topologies,is novel in this work and quite different from any traditional application.The adaptation should offer more efficient routing and less computational overhead,most apt in the limited resource environment of MANETs.Thus,from these findings,one may derive a conclusion that the proposed version of Dijkstra’s algorithm is the best and most feasible choice of the routing protocol for MANETs given all pertinent key performance and resource consumption indicators and further that the proposed method offers a marked improvement over traditional methods.This paper,therefore,operationalizes the theoretical model into practical scenarios and also further research with empirical simulations to understand more about its operational effectiveness.展开更多
Steel-concrete composite structures(SCCS)have been widely used as primary load-bearing components in large-scale civil infrastructures.As the basis of the co-working ability of steel plate and concrete,the bonding sta...Steel-concrete composite structures(SCCS)have been widely used as primary load-bearing components in large-scale civil infrastructures.As the basis of the co-working ability of steel plate and concrete,the bonding status plays an essential role in guaranteeing the structural performance of SCCS.Accordingly,efficient non-destructive testing(NDT)on interfacial debondings in SCCS has become a prominent research area.Multi-channel analysis of surface waves(MASW)has been validated as an effective NDT technique for interfacial debonding detection for SCCS.However,the feasibility of MASW must be validated using experimental measurements.This study establishes a high-frequency data synchronous acquisition system with 32 channels to perform comparative verification experiments in depth.First,the current sensing approaches for high-frequency vibration and stress waves are summarized.Secondly,three types of contact sensors,namely,piezoelectric lead-zirconate-titanate(PZT)patches,accelerometers,and ultrasonic transducers,are selected for MASW measurement.Then,the selection and optimization of the force hammer head are performed.Comparative experiments are carried out for the optimal selection of ultrasonic transducers,PZT patches,and accelerometers for MASW measurement.In addition,the influence of different pasting methods on the output signal of the sensor array is discussed.Experimental results indicate that optimized PZT patches,acceleration sensors,and ultrasonic transducers can provide efficient data acquisition for MASW-based non-destructive experiments.The research findings in this study lay a solid foundation for analyzing the recognition accuracy of contact MASW measurement using different sensor arrays.展开更多
In its new development stage,China seeks to derive new dynamism from reform and opening up at a higher level to boost consumption and services.This process coincides with a further differentiation of comparative advan...In its new development stage,China seeks to derive new dynamism from reform and opening up at a higher level to boost consumption and services.This process coincides with a further differentiation of comparative advantages across regions.Economic activity and population will continue to concentrate in clusters in coastal and central cities amid a continuous outflow of population from remote areas.Development expansion from coastal to interior regions and from central cities to the periphery will promote a new regional development paradigm of“dual centers and periphery”.Therefore,China’s regional development strategy should follow the new theory of seeking relative equilibrium amid development,identify regions of population inflow and outflow,and explore a new development path of regional specialization and coordination.By deepening market reforms and increasing central government coordination,the country is poised to improve the spatial allocation of resources and unleash institutional dividends in the process of developing a unified national market.展开更多
Researchers around the world strive to communicate new knowledge,primarily via publication,with the abstract being crucial in conveying core insights.Previous research has generally analyzed the discourse features of ...Researchers around the world strive to communicate new knowledge,primarily via publication,with the abstract being crucial in conveying core insights.Previous research has generally analyzed the discourse features of abstracts from a macro perspective and often employed either outdated texts,such as those over a decade old,or papers written by authors with lower English academic writing proficiency as research material.In this study,we analyzed forty abstracts from leading journals in applied linguistics,evenly split between Chinese and international journals.It revealed that the use of nominalization in abstracts by Chinese and international scholars showed similarities due to the universal academic requirement for conciseness.However,due to cultural and educational differences,each group differed in their respective language choices and nominalization usage.By analyzing the application of nominalization in different cultural contexts,the results of our study offered practical suggestions for crafting abstracts that effectively convey information,thereby,contributing to the broader academic community.展开更多
基金National Natural Science Foundation of China(60172004)PhD Subject Research Foundation of Ministry of Education of China(20010701003)
文摘A novel design of multiplex differential voltage comparators(MDVC) is presented for reducing current and power dissipation. According to the special properties of relational operation and logical operation, parts of the comparators are redundant in some instances, and thus can be turned off. By selecting and switching the current routes, several effective differential pairs are biased by a single tail current stage-by-stage and the redundant comparators are turned off by cutting their tail currents. As a result, the quiescent current and power consumption are greatly decreased. The switching of current is achieved by the input differential pair transistors themselves and hence no extra switches are required. When a MDVC is used in a flash analog-to-digital converter(ADC), its current dissipation is much lower than that of the conventional comparators. This architecture can also be used in window-comparators, maximum or minimum comparators, and comparators for logical operations. The power dissipation in all these cases could be reduced significantly.
基金supported by the National Natural Science Foundation of China (82021001 and 31825018 to Q.S., 32370658 to Y.M.,82001372 to X.Y.)National Key Research and Development Program of China (2022YFF0710901)+2 种基金National Science and Technology Innovation2030 Major Program (2021ZD0200900) to Q.S.Shanghai Pujiang Program (22PJ1407300)Shanghai Jiao Tong University 2030 Initiative (WH510363001-7) to Y.M。
文摘Understanding gene expression variations between species is pivotal for deciphering the evolutionary diversity in phenotypes. Rhesus macaques(Macaca mulatta, MMU)and crab-eating macaques(M. fascicularis, MFA) serve as crucial nonhuman primate biomedical models with different phenotypes. To date, however, large-scale comparative transcriptome research between these two species has not yet been fully explored. Here, we conducted systematic comparisons utilizing newly sequenced RNA-seq data from84 samples(41 MFA samples and 43 MMU samples)encompassing 14 common tissues. Our findings revealed a small fraction of genes(3.7%) with differential expression between the two species, as well as 36.5% of genes with tissue-specific expression in both macaques. Comparison of gene expression between macaques and humans indicated that 22.6% of orthologous genes displayed differential expression in at least two tissues. Moreover,19.41% of genes that overlapped with macaque-specific structural variants showed differential expression between humans and macaques. Of these, the FAM220A gene exhibited elevated expression in humans compared to macaques due to lineage-specific duplication. In summary,this study presents a large-scale transcriptomic comparison between MMU and MFA and between macaques and humans. The discovery of gene expression variations not only enhances the biomedical utility of macaque models but also contributes to the wider field of primate genomics.
基金supported by the National Natural Science Foundation of China(Grant Nos.41888101,41890834,91755213)the Most Special Fund(MSFGPMR02-3)from the State Key Laboratory of Geological Processes and Mineral Resources,China University of Geosciences,Wuhana contribution to the IUGS International Lithosphere Program(2023-TF1)“Formation,Character,History and Behavior of Earth’s Oldest Lithospheres”。
文摘Geological maps encode vast amounts of data about rock types,ages,chemistry,orogenic architecture and deep-time history or different tectonic units,yet these are often difficult to extract because of the way different geologists portray their results at various scales.To understand orogenesis in 4D,it is essential to uniformly integrate map data,together with geophysical data and deep geochemical mapping(Wang et al.,2023).
文摘Rice and wheat provide nearly 40%of human calorie and protein requirements.They share a common ancestor and belong to the Poaceae(grass)family.Characterizing their genetic homology is crucial for developing new cultivars with enhanced traits.Several wheat genes and gene families have been characterized based on their rice orthologs.Rice–wheat orthology can identify genetic regions that regulate similar traits in both crops.Rice–wheat comparative genomics can identify candidate wheat genes in a genomic region identified by association or QTL mapping,deduce their putative functions and biochemical pathways,and develop molecular markers for marker-assisted breeding.A knowledge of gene homology facilitates the transfer between crops of genes or genomic regions associated with desirable traits by genetic engineering,gene editing,or wide crossing.
基金supported by the China Postdoctoral Science Foundation(2022M722020)to Z.L.Key Project of Scientific Research Program of Shaanxi Provincial Education Department(23JY020)to Z.L.+5 种基金Natural Science Basic Research Program of Shaanxi(2024JCYBMS-152)to Z.L.Key Projects of Shaanxi University of Technology(SLGKYXM2302)to Z.L.Opening Foundation of Shaanxi University of Technology(SLGPT2019KF02-02)to Z.L.Natural Science Basic Research Program of Shaanxi(2020JM-280)to G.L.Fundamental Research Funds for the Central Universities(GK201902008)to G.LNational Natural Science Foundation of China(31570378)to X.M.
文摘Horseshoe bats(genus Rhinolophus,family Rhinolophidae)represent an important group within chiropteran phylogeny due to their distinctive traits,including constant high-frequency echolocation,rapid karyotype evolution,and unique immune system.Advances in evolutionary biology,supported by high-quality reference genomes and comprehensive whole-genome data,have significantly enhanced our understanding of species origins,speciation mechanisms,adaptive evolutionary processes,and phenotypic diversity.However,genomic research and understanding of the evolutionary patterns of Rhinolophus are severely constrained by limited data,with only a single published genome of R.ferrumequinum currently available.In this study,we constructed a high-quality chromosome-level reference genome for the intermediate horseshoe bat(R.affinis).Comparative genomic analyses revealed potential genetic characteristics associated with virus tolerance in Rhinolophidae.Notably,we observed expansions in several immune-related gene families and identified various genes functionally associated with the SARS-CoV-2 signaling pathway,DNA repair,and apoptosis,which displayed signs of rapid evolution.In addition,we observed an expansion of the major histocompatibility complex class II(MHC-II)region and a higher copy number of the HLA-DQB2 gene in horseshoe bats compared to other chiropteran species.Based on whole-genome resequencing and population genomic analyses,we identified multiple candidate loci(e.g.,GLI3)associated with variations in echolocation call frequency across R.affinis subspecies.This research not only expands our understanding of the genetic characteristics of the Rhinolophus genus but also establishes a valuable foundation for future research.
基金supported by the National Natural Science Foundation of China(32170448,32130012,32300374)Beijing Natural Science Foundation(5212011)2115 Talent Development Program of China Agricultural University,and National Animal Collection Resource Center,China。
文摘Unraveling the phylogeographic histories of species remains a key endeavor for comprehending the evolutionary processes contributing to the rich biodiversity and high endemism found in East Asia.In this study,we explored the phylogeographic patterns and demographic histories of three endemic fishfly and dobsonfly species(Neochauliodes formosanus,Protohermes costalis,and Neoneuromus orientalis)belonging to the holometabolan order Megaloptera.These species,which share a broad and largely overlapping distribution,were analyzed using comprehensive mitogenomic data.Our findings revealed a consistent influence of vicariance on the population isolation of Neoc.formosanus and P.costalis between Hainan,Taiwan,and the East Asian mainland during the early Pleistocene,potentially hindering subsequent colonization of the later diverged Neon.orientalis to these islands.Additionally,we unveiled the dual function of the major mountain ranges in East Asia,serving both as barriers and conduits,in shaping the population structure of all three species.Notably,we demonstrated that these co-distributed species originated from Southwest,Southern,and eastern Central China,respectively,then subsequently migrated along multi-directional routes,leading to their sympatric distribution on the East Asian mainland.Furthermore,our results highlighted the significance of Pleistocene land bridges along the eastern coast of East Asia in facilitating the dispersal of mountain-dwelling insects with low dispersal ability.Overall,this study provides novel insight into the synergistic impact of Pleistocene geological and climatic events in shaping the diversity and distribution of aquatic insects in East Asia.
基金supported by the Province Key Research and Development Program of Zhejiang (No.2021C02047)the Special Projects of Zhejiang Provincial Science and Technology Department (Nos.HYS-CZ-004,HYS-CZ-202208)the‘San Nong Jiu Fang’Science and Technology Cooperation Project of Zhejiang Province (No.2022 SN JF073)。
文摘Hapalogenys analis(order Lobotiformes)is an economically and ecologically significant fish species.It is a typical sedentary rocky reef fish and is primarily found in the northern Pacific Ocean.Here,we used Hi-C and PacBio sequencing technique to assemble a high-quality,chromosome-level genome for this species.The 539 Mb genome had a contig N50 with a size of 3.43 Mb,while 755 contigs clustered into 24 chromosomal groups with an anchoring rate of 99.02%.Of the total genomic sequence,132.74Mb(24.39%)were annotated as repeat elements.A total of 21360 protein-coding genes were identified,of which 20787 genes(97.32%)were successfully annotated to public databases.The BUSCO evaluation indicated that 96.90%of the total orthologous genes were matched.The phylogenetic tree representing H.analis and 14 other bony fish species indicated that the H.analis genome contained 364 expanded gene families related to olfactory receptor activity,compared with the common ancestor of H.analis and Sciaenidae.Comparative genomic analysis further identified 3584 contracted gene families.Branch-site modeling identified 277 genes experiencing positive selection,which may facilitate the adaptation to rocky reef environments.The genome reported here is helpful for ecological and evolutionary studies of H.analis.
基金supported by the Natural Science Foundation of Liaoning Province(Grant No.2023-MSBA-070)the National Natural Science Foundation of China(Grant No.62302086).
文摘Multi-modal fusion technology gradually become a fundamental task in many fields,such as autonomous driving,smart healthcare,sentiment analysis,and human-computer interaction.It is rapidly becoming the dominant research due to its powerful perception and judgment capabilities.Under complex scenes,multi-modal fusion technology utilizes the complementary characteristics of multiple data streams to fuse different data types and achieve more accurate predictions.However,achieving outstanding performance is challenging because of equipment performance limitations,missing information,and data noise.This paper comprehensively reviews existing methods based onmulti-modal fusion techniques and completes a detailed and in-depth analysis.According to the data fusion stage,multi-modal fusion has four primary methods:early fusion,deep fusion,late fusion,and hybrid fusion.The paper surveys the three majormulti-modal fusion technologies that can significantly enhance the effect of data fusion and further explore the applications of multi-modal fusion technology in various fields.Finally,it discusses the challenges and explores potential research opportunities.Multi-modal tasks still need intensive study because of data heterogeneity and quality.Preserving complementary information and eliminating redundant information between modalities is critical in multi-modal technology.Invalid data fusion methods may introduce extra noise and lead to worse results.This paper provides a comprehensive and detailed summary in response to these challenges.
基金the National Key R&D Program of China(2022YFD21007002)the National Natural Science Foundation of China(32325040)+1 种基金Inner Mongolia Science&Technology planning project(2022YFSJ0017)the earmarked fund for CARS36.
文摘Recent research on the genome of Bifidobacterium bifidum has mainly focused on the isolation sources(intestinal tract niche)recently,but reports on the isolation region are limited.This study analyzed the differences in the genome of B.bifidum isolated from different geographical populations by comparative genomic analysis.Results at the genome level indicated that the GC content of American isolates was significantly higher than that of Chinese and Russian isolates.The phylogenetic tree,based on 919 core genes showed that B.bifidum might be related to the geographical characteristics of isolation region.Furthermore,functional annotation analysis demonstrated that copy numbers of carbohydrate-active enzymes(CAZys)involved in the degradation of polysaccharide from plant and host sources in B.bifidum were high,and 18 CAZys showed significant differences across different geographical populations,indicating that B.bifidum had adapted to the human intestinal environment,especially in the groups with diets rich in fiber.Dietary habits were one of the main reasons for the differences of B.bifidum across different geographical populations.Additionally,B.bifidum exhibited high diversity,evident in glycoside hydrolases,the CRISPR-Cas system,and prophages.This study provides a genetic basis for further research and development of B.bifidum.
基金supported by the National Natural Science Foundation of China(31871829,31820103010,and 32021005)the Collaborative Innovation Centre of Food Safety and Quality Control in Jiangsu Province(Jiangsu,China).
文摘Streptococcus thermophilus is one of the most prevalent species in stool samples of westernized populations due to continuous exposure to fermented dairy products.However,few studies have explored the effect on host physiology by multiple S.thermophilus strains and considered the inter-strain differences in regulating host.In the present study,we investigated how four S.thermophilus strains influenced the gut microbiota,mucin changes,and host metabolism after 28 days of intervention in conventional mice.The results indicated that the consumption of S.thermophilus affected the host with strain specificity.Among four S.thermophilus strains,DYNDL13-4 and DQHXNQ38M61,especially DQHXNQ38M61,had more effect on host physiology by modulating gut microbiota and host metabolism than LMD9 and 4M6.Ingestion of strains DYNDL13-4 and DQHXNQ38M61 resulted in more remarkable changes in amino acid metabolism and lipid metabolism than that of strains LMD9 and 4M6,which may be related to the elevation of intestinal Bifidobacterium by DYNDL13-4 and DQHXNQ38M61.The enriched Coriobacteriaceae UCG-002,Rikenellaceae RC9 gut group,and Lactobacillus only in the DQHXNQ38M61 group,had a close relationship with the prominent effect of DQHXNQ38M61 on regulating amino acid and lipid metabolism.In addition,DQHXNQ38M61 had a strong influence on degrading colonic mucin fucose by decreasedα-fucosidase activity in feces,and improving mucin sulfation by upregulated Gal3ST2 expression.Comparative genomic analysis revealed that the four S.thermophilus strains belonged to different branches in the phylogenetic tree,and DYNDL13-4 and DQHXNQ38M61 had more genes involved in carbohydrate metabolism,amino acid metabolism,membrane transport,and signal transduction,which may confer the capacity of nutrient utilization and gastrointestinal adaptation of the strains and be associated with their strong regulation in host.Our study provides valuable information for understanding the regulation of host metabolism after consuming different S.thermophilus strains and could facilitate potential personalized applications of S.thermophilus based on strain varieties.
基金funded by the Shandong Edible Fungus Agricultural Technology System(SDAIT-07-02)the National Natural Science Foundation of China(Grant No.32000041 and 32272789)+2 种基金the Shandong Provincial Natural Science Foundation,China(ZR2020QC005)the Qingdao Agricultural University Scientific Research Foundation(6631120076)horizontal project:Breeding and property protection of new varieties of factory produced Hypsizygus marmoreus(20183702012614).
文摘The wild Lepista sordida is a kind of precious and rare edible fungus.An excellent strain of it by artificial domestication was obtained,which was high-yield and high in iron content.In this study,high-throughput comparative proteomics was used to reveal the regulatory mechanism of its primordium differentiation in the early fruiting body formation.The mycelium before the primordium differentiation mainly expressed high levels of mitochondrial functional proteins and carbon dioxide concentration regulatory proteins.In young mushrooms,the highly expressed proteins were mainly involved in cell component generation,cell proliferation,nitrogen compound metabolism,nucleotide metabolism,glutathione metabolism,and purine metabolism.The differential regulation patterns of pileus and stipe growth to maturity were also revealed.The highly expressed proteins related to transcription,RNA splicing,the production of various organelles,DNA conformational change,nucleosome organization,protein processing,maturation and transport,and cell detoxification regulated the pileus development and maturity.The proteins related to carbohydrate and energy metabolism,large amounts of obsolete cytoplasmic parts,nutrient deprivation,and external stimuli regulated the stipe development and maturity.Multiple CAZymes regulated nutrient absorption,morphogenesis,spore production,stress response,and other life activities at different growth and development stages.
基金supported by the Natural Science Foundation of Jiangsu Province(BK20200084)the National Natural Science Foundation of China(31871773 and 31820103010)+1 种基金the Collaborative Innovation Center of Food Safety and Quality Control in Jiangsu Province and Key Talents Project of“Strengthening Health through Science and Education”of Wuxi Health and Family Planning Commission(ZDRC039)Top Talents Project of“Six-one Project”for High-level Health Talents in Jiangsu Province(LGY2018016)。
文摘The high intraspecies heterogeneity of Baciillus coagulans leads to significant phenotypic differences among different strains.Thus,6 B.coagulans strains were tested in the present study using an irritable bowel syndrome(IBS)animal model to determine whether the IBS-alleviating effects of B.coagulans strains are strain-specific.The results of this study showed that the ingestion of B.coagulans GBI-30,6086,and B.coagulans CCFM1041 significantly alleviated IBS symptoms in mice.In contrast,other B.coagulans strains showed no or limited alleviating effects on IBS symptoms.According to our experimental results,the two main common features of these strains were as follows:1)The resistance of vegetative cells to bile salts,and 2)ability to synthesize specific lipids and secondary metabolites.Screening strains based on these two indicators may greatly reduce costs and provide a basis for mining new functional B.coagulans strains.Our results also suggest that administration of B.coagulans could significantly regulate microbiota dysbiosis in animal models.Moreover,the close relationships between the gut microbiota,gut microbiota metabolites,and IBS were further confirmed in this study.
基金supported by the National Natural Science Foundation of China(Grant Nos.82173620 to Yang Zhao and 82041024 to Feng Chen)partially supported by the Bill&Melinda Gates Foundation(Grant No.INV-006371 to Feng Chen)Priority Academic Program Development of Jiangsu Higher Education Institutions.
文摘Deterministic compartment models(CMs)and stochastic models,including stochastic CMs and agent-based models,are widely utilized in epidemic modeling.However,the relationship between CMs and their corresponding stochastic models is not well understood.The present study aimed to address this gap by conducting a comparative study using the susceptible,exposed,infectious,and recovered(SEIR)model and its extended CMs from the coronavirus disease 2019 modeling literature.We demonstrated the equivalence of the numerical solution of CMs using the Euler scheme and their stochastic counterparts through theoretical analysis and simulations.Based on this equivalence,we proposed an efficient model calibration method that could replicate the exact solution of CMs in the corresponding stochastic models through parameter adjustment.The advancement in calibration techniques enhanced the accuracy of stochastic modeling in capturing the dynamics of epidemics.However,it should be noted that discrete-time stochastic models cannot perfectly reproduce the exact solution of continuous-time CMs.Additionally,we proposed a new stochastic compartment and agent mixed model as an alternative to agent-based models for large-scale population simulations with a limited number of agents.This model offered a balance between computational efficiency and accuracy.The results of this research contributed to the comparison and unification of deterministic CMs and stochastic models in epidemic modeling.Furthermore,the results had implications for the development of hybrid models that integrated the strengths of both frameworks.Overall,the present study has provided valuable epidemic modeling techniques and their practical applications for understanding and controlling the spread of infectious diseases.
基金funded by the Jiangxi Provincial Natural Science Foundation,Grant Number 20232BAB216119.
文摘Rosaceae represents a vast and complex group of species,with its classification being intricate and contentious.The taxonomic placement of many species within this family has been a subject of ongoing debate.The study utilized the Illumina platform to sequence 19 plant species from 10 genera in the Rosaceae.The cp genomes,vary-ing in size from 153,366 to 159,895 bp,followed the typical quadripartite organization consisting of a large single-copy(LSC)region(84,545 to 87,883 bp),a small single-copy(SSC)region(18,174 to 19,259 bp),and a pair of inverted repeat(IR)regions(25,310 to 26,396 bp).These genomes contained 132–138 annotated genes,including 87 to 93 protein-coding genes(PCGs),37 tRNA genes,and 8 rRNA genes using MISA software,52 to 121 simple sequence repeat(SSR)loci were identified.D.arbuscular contained the least of SSRs and did not have hexanotides,A.lineata contained the richest SSRs.Long terminal repeats(LTRs)were primarily composed of palindromic and forward repeat sequences,meanwhile,The richest LTRs were found in Argentina lineata.Except for Argentina lineata,Fragariastrum eriocarpum,and Prunus trichostoma,which varied in gene type and position on both sides of the boundary,the remaining species were found to be mostly conserved according to IR boundary analysis.The examination of the Ka/Ks ratio revealed that only the infA gene had a value greater than 1,indicating that this gene was primarily subjected to positive selection during evolution.Additionally,9 hotspots of variation were identified in the LSC and SSC regions.Phylogenetic analysis confirmed the scientific validity of the genus Prunus L.sensu lato(s.l.)within the Rosaceae family.The separation of the three genera Argentina Hill,Fragariastrum Heist.ex Fabr.and Dasiphora Raf.from Potentilla L.may be a more scientific classification.These results offer fresh perspectives on the taxonomy of the Rosaceae.
基金supported by Northern Border University,Arar,Kingdom of Saudi Arabia,through the Project Number“NBU-FFR-2024-2248-03”.
文摘This study is trying to address the critical need for efficient routing in Mobile Ad Hoc Networks(MANETs)from dynamic topologies that pose great challenges because of the mobility of nodes.Themain objective was to delve into and refine the application of the Dijkstra’s algorithm in this context,a method conventionally esteemed for its efficiency in static networks.Thus,this paper has carried out a comparative theoretical analysis with the Bellman-Ford algorithm,considering adaptation to the dynamic network conditions that are typical for MANETs.This paper has shown through detailed algorithmic analysis that Dijkstra’s algorithm,when adapted for dynamic updates,yields a very workable solution to the problem of real-time routing in MANETs.The results indicate that with these changes,Dijkstra’s algorithm performs much better computationally and 30%better in routing optimization than Bellman-Ford when working with configurations of sparse networks.The theoretical framework adapted,with the adaptation of the Dijkstra’s algorithm for dynamically changing network topologies,is novel in this work and quite different from any traditional application.The adaptation should offer more efficient routing and less computational overhead,most apt in the limited resource environment of MANETs.Thus,from these findings,one may derive a conclusion that the proposed version of Dijkstra’s algorithm is the best and most feasible choice of the routing protocol for MANETs given all pertinent key performance and resource consumption indicators and further that the proposed method offers a marked improvement over traditional methods.This paper,therefore,operationalizes the theoretical model into practical scenarios and also further research with empirical simulations to understand more about its operational effectiveness.
基金National Natural Science Foundation of China under Grant (Nos.52192662,52020105005,51908320)the Beijing Nova Program under Grant No.20220484012+1 种基金the Interdisciplinary Research Project for Young Teachers of USTB (Fundamental Research Funds for the Central Universities,FRF-IDRY-22-013)the Key Laboratory for Intelligent Infrastructure and Monitoring of Fujian Province (Huaqiao University,IIM-01-05)。
文摘Steel-concrete composite structures(SCCS)have been widely used as primary load-bearing components in large-scale civil infrastructures.As the basis of the co-working ability of steel plate and concrete,the bonding status plays an essential role in guaranteeing the structural performance of SCCS.Accordingly,efficient non-destructive testing(NDT)on interfacial debondings in SCCS has become a prominent research area.Multi-channel analysis of surface waves(MASW)has been validated as an effective NDT technique for interfacial debonding detection for SCCS.However,the feasibility of MASW must be validated using experimental measurements.This study establishes a high-frequency data synchronous acquisition system with 32 channels to perform comparative verification experiments in depth.First,the current sensing approaches for high-frequency vibration and stress waves are summarized.Secondly,three types of contact sensors,namely,piezoelectric lead-zirconate-titanate(PZT)patches,accelerometers,and ultrasonic transducers,are selected for MASW measurement.Then,the selection and optimization of the force hammer head are performed.Comparative experiments are carried out for the optimal selection of ultrasonic transducers,PZT patches,and accelerometers for MASW measurement.In addition,the influence of different pasting methods on the output signal of the sensor array is discussed.Experimental results indicate that optimized PZT patches,acceleration sensors,and ultrasonic transducers can provide efficient data acquisition for MASW-based non-destructive experiments.The research findings in this study lay a solid foundation for analyzing the recognition accuracy of contact MASW measurement using different sensor arrays.
基金This paper is a result of the Major Project for the Research and Development of Marxist Theory and Major Project of the National Social Science Foundation of China(NSSFC)“Study on the In-Depth Implementation of the Coordinated Regional Development Strategy”(Grant No.2001MZD011)General Project of the National Natural Science Foundation of China(NSFC)“Spatial Structure and Effective Governance of Cities under the Big Data Horizon”(Grant No.72073094)and Key Project of the NSFC“Study on the Transformative Development and Governance of Small Towns in China”(Grant No.71834005).
文摘In its new development stage,China seeks to derive new dynamism from reform and opening up at a higher level to boost consumption and services.This process coincides with a further differentiation of comparative advantages across regions.Economic activity and population will continue to concentrate in clusters in coastal and central cities amid a continuous outflow of population from remote areas.Development expansion from coastal to interior regions and from central cities to the periphery will promote a new regional development paradigm of“dual centers and periphery”.Therefore,China’s regional development strategy should follow the new theory of seeking relative equilibrium amid development,identify regions of population inflow and outflow,and explore a new development path of regional specialization and coordination.By deepening market reforms and increasing central government coordination,the country is poised to improve the spatial allocation of resources and unleash institutional dividends in the process of developing a unified national market.
文摘Researchers around the world strive to communicate new knowledge,primarily via publication,with the abstract being crucial in conveying core insights.Previous research has generally analyzed the discourse features of abstracts from a macro perspective and often employed either outdated texts,such as those over a decade old,or papers written by authors with lower English academic writing proficiency as research material.In this study,we analyzed forty abstracts from leading journals in applied linguistics,evenly split between Chinese and international journals.It revealed that the use of nominalization in abstracts by Chinese and international scholars showed similarities due to the universal academic requirement for conciseness.However,due to cultural and educational differences,each group differed in their respective language choices and nominalization usage.By analyzing the application of nominalization in different cultural contexts,the results of our study offered practical suggestions for crafting abstracts that effectively convey information,thereby,contributing to the broader academic community.