Genome-wide investigation to assess copy number variants in the Italian local chicken population

Background Copy number variants(CNV)hold significant functional and evolutionary importance.Numerous ongoing CNV studies aim to elucidate the etiology of human diseases and gain insights into the population structure of livestock.High-density chips have enabled the detection of CNV with increased resolution,leading to the identification of even small CNV.This study aimed to identify CNV in local Italian chicken breeds and investigate their distribution across the genome.Results Copy number variants were mainly distributed across the first six chromosomes and primarily associated with loss type CNV.The majority of CNV in the investigated breeds were of types 0 and 1,and the minimum length of CNV was significantly larger than that reported in previous studies.Interestingly,a high proportion of the length of chromosome 16 was covered by copy number variation regions(CNVR),with the major histocompatibility complex being the likely cause.Among the genes identified within CNVR,only those present in at least five animals across breeds(n=95)were discussed to reduce the focus on redundant CNV.Some of these genes have been associated to functional traits in chickens.Notably,several CNVR on different chromosomes harbor genes related to muscle development,tissue-specific biological processes,heat stress resistance,and immune response.Quantitative trait loci(QTL)were also analyzed to investigate potential overlapping with the identified CNVR:54 out of the 95 gene-containing regions overlapped with 428 QTL associated to body weight and size,carcass characteristics,egg production,egg components,fat deposition,and feed intake.Conclusions The genomic phenomena reported in this study that can cause changes in the distribution of CNV within the genome over time and the comparison of these differences in CNVR of the local chicken breeds could help in preserving these genetic resources.

The first factor affecting dryland winter wheat grain yield under various mulching measures: Spike number

Water is the key factor limiting dryland wheat grain yield.Mulching affects crop yield and yield components by affecting soil moisture.Further research is needed to determine the relationships between yield components and soil moisture with yield,and to identify the most important factor affecting grain yield under various mulching measures.A long-term 9-yearifeld experiment in the Loess Plateau of Northwest China was carried out with three treatments:no mulch (CK),plastic mulch (M_(P)) and straw mulch (M_(S)).Yield factors and soil moisture were measured,and the relationships between them were explored by correlation analysis,structural equation modeling and significance analysis.The results showed that compared with CK,the average grain yields of M_(P) and M_(S) increased by 13.0and 10.6%,respectively.The average annual grain yield of the M_(P) treatment was 134 kg ha^(–1) higher than the M_(S) treatment.There were no significant differences in yield components among the three treatments (P<0.05).Soil water storage of the M_(S) treatment was greater than the M_(P) treatment,although the differences were not statistically signifiant.Soil water storage during the summer fallow period (SWSSF) and soil water storage before sowing (SWSS) of M_(S) were significantly higher than in CK,which increased by 38.5 and 13.6%,respectively.The relationship between M_(P) and CK was not statistically significant for SWSSF,but the SWSS in M_(P) was significantly higher than in CK.In terms of soil water storage after harvest (SWSH) and water consumption in the growth period(ET),there were no signi?cant differences among the three treatments.Based on the three analysis methods,we found that spike number and ET were positively correlated with grain yield.However,the relative importance of spike number to yield was the greatest in the M_(P )and M_(S) treatments,while that of ET was the greatest in CK.Suifcient SWSSF could indirectly increase spike number and ET in the three treatments.Based on these results,mulch can improve yield and soil water storage.The most important factor affecting the grain yield of dryland wheat was spike number under mulching,and ET with CK.These findings may help us to understand the main factors influencing dryland wheat grain yield under mulching conditions compared to CK.

The prediction of donor number and acceptor number of electrolyte solvent molecules based on machine learning

Electrolyte solvents have a critical impact on the design of high performance and safe batteries.Gutmann's donor number(DN) and acceptor number(AN) values are two important parameters to screen and design superior electrolyte solvents. However, it is more time-consuming and expensive to obtain DN and AN values through experimental measurements. Therefore, it is essential to develop a method to predict DN and AN values. This paper presented the prediction models for DN and AN based on molecular structure descriptors of solvents, using four machine learning algorithms such as Cat Boost(Categorical Boosting), GBRT(Gradient Boosting Regression Tree), RF(Random Forest) and RR(Ridge Regression).The results showed that the DN and AN prediction models based on Cat Boost algorithm possesses satisfactory prediction ability, with R^(2) values of the testing set are 0.860 and 0.96. Moreover, the study analyzed the molecular structure parameters that impact DN and AN. The results indicated that TDB02m(3D Topological distance based descriptors-lag 2 weighted by mass) had a significant effect on DN, while HATS1s(leverage-weighted autocorrelation of lag 1/weighted by I-state) plays an important role in AN. The work provided an efficient approach for accurately predicting DN and AN values, which is useful for screening and designing electrolyte solvents.

A novel Effective Panicle Number per Plant 4 haplotype enhances grain yield by coordinating panicle number and grain number in rice

Increasing effective panicle number per plant(EPN)is one approach to increase yield potential in rice.However,molecular mechanisms underlying EPN remain unclear.In this study,we integrated mapbased cloning and genome-wide association analysis to identify the EPN4 gene,which is allelic to NARROW LEAF1(NAL1).Overexpression lines containing the Teqing allele(TQ)of EPN4 had significantly increased EPN.NIL-EPN4^(TQ) in japonica(geng)cultivar Lemont(LT)exhibited significantly improved EPN but decreased grain number and flag leaf size relative to LT.Haplotype analysis indicated that accessions with EPN4-1 had medium EPN,medium grain number,and medium grain weight,but had the highest grain yield among seven haplotypes,indicating that EPN4-1 is an elite haplotype of EPN4 for positive coordination of the three components of grain yield.Furthermore,accessions carrying the combination of EPN4-1 and haplotype GNP1-6 of GNP1 for grain number per panicle showed higher grain yield than those with other allele combinations.Therefore,pyramiding of EPN4-1 and GNP1-6 could be a preferred approach to obtain high yield potential in breeding.

The wheat sucrose synthase gene TaSus1 is a determinant of grain number per spike

Some haplotypes of the sucrose synthase gene TaSus1 are associated with thousand-grain weight(TGW)in wheat(Triticum aestivum L.).However,no mutations have been identified within the gene to test this association.The effects of TaSus1 on grain number per spike(GNS)also are largely unknown.Our previous genome-wide association study identified TaSus-A1 as a candidate gene controlling fertile spikelet number per spike(FSN).In the present study,we generated two independent mutants for the three TaSus1 homoeologs by CRISPR/Cas9-mediated genome editing.The triple mutants displayed lower FSN,GNS,grain number per spikelet(GNST),and TGW than wild-type plants.In 306 hexaploid wheat accessions,two single-nucleotide polymorphisms in TaSus-A1 contributed differently to GNS.Introgression of the two alleles into a wheat genetic background confirmed their effects.The alleles differed in geographical distribution among the accessions.

Impacts of Aggregation Methods and Trophospecies Number on the Structure and Function of Marine Food Webs

Aggregation of species with similar ecological properties is one of the effective methods to simplify food web researches.However,species aggregation will affect not only the complexity of modeling process but also the accuracy of models’outputs.Selection of aggregation methods and the number of trophospecies are the keys to study the simplification of food web.In this study,three aggregation methods,including taxonomic aggregation(TA),structural equivalence aggregation(SEA),and self-organizing maps(SOM),were analyzed and compared with the linear inverse model–Markov Chain Monte Carlo(LIM-MCMC)model.Impacts of aggregation methods and trophospecies number on food webs were evaluated based on the robustness and unitless of ecological net-work indices.Results showed that aggregation method of SEA performed better than the other two methods in estimating food web structure and function indices.The effects of aggregation methods were driven by the differences in species aggregation principles,which will alter food web structure and function through the redistribution of energy flow.According to the results of mean absolute percentage error(MAPE)which can be applied to evaluate the accuracy of the model,we found that MAPE in food web indices will increase with the reducing trophospecies number,and MAPE in food web function indices were smaller and more stable than those in food web structure indices.Therefore,trade-off between simplifying food webs and reflecting the status of ecosystem should be con-sidered in food web studies.These findings highlight the importance of aggregation methods and trophospecies number in the analy-sis of food web simplification.This study provided a framework to explore the extent to which food web models are affected by dif-ferent species aggregation,and will provide scientific basis for the construction of food webs.

Study of baryon number transport dynamics and strangeness conservation effects using Ω-hadron correlations

In nuclear collisions at RHIC energies, an excess of Ω hyperons over ■ is observed, indicating that Ω has a net baryon number despite s and s quarks being produced in pairs. The baryon number in Ω may have been transported from the incident nuclei and/or produced in the baryon-pair production of Ω with other types of anti-hyperons such as Ξ. To investigate these two scenarios, we propose to measure the correlations between Ω and K and between Ω and anti-hyperons. We use two versions, the default and string-melting, of a multiphase transport(AMPT) model to illustrate the method for measuring the correlation and to demonstrate the general shape of the correlation. We present the Ω-hadron correlations from simulated Au+Au collisions at ■ =7.7 and 14.6 Ge V and discuss the dependence on the collision energy and on the hadronization scheme in these two AMPT versions. These correlations can be used to explore the mechanism of baryon number transport and the effects of baryon number and strangeness conservation on nuclear collisions.

Complex Decision Modeling Framework with Fairly Operators and Quaternion Numbers under Intuitionistic Fuzzy Rough Context

The main goal of informal computing is to overcome the limitations of hypersensitivity to defects and uncertainty while maintaining a balance between high accuracy,accessibility,and cost-effectiveness.This paper investigates the potential applications of intuitionistic fuzzy sets(IFS)with rough sets in the context of sparse data.When it comes to capture uncertain information emanating fromboth upper and lower approximations,these intuitionistic fuzzy rough numbers(IFRNs)are superior to intuitionistic fuzzy sets and pythagorean fuzzy sets,respectively.We use rough sets in conjunction with IFSs to develop several fairly aggregation operators and analyze their underlying properties.We present numerous impartial laws that incorporate the idea of proportionate dispersion in order to ensure that the membership and non-membership activities of IFRNs are treated equally within these principles.These operations lead to the development of the intuitionistic fuzzy rough weighted fairly aggregation operator(IFRWFA)and intuitionistic fuzzy rough ordered weighted fairly aggregation operator(IFRFOWA).These operators successfully adjust to membership and non-membership categories with fairness and subtlety.We highlight the unique qualities of these suggested aggregation operators and investigate their use in the multiattribute decision-making field.We use the intuitionistic fuzzy rough environment’s architecture to create a novel strategy in situation involving several decision-makers and non-weighted data.Additionally,we developed a novel technique by combining the IFSs with quaternion numbers.We establish a unique connection between alternatives and qualities by using intuitionistic fuzzy quaternion numbers(IFQNs).With the help of this framework,we can simulate uncertainty in real-world situations and address a number of decision-making problems.Using the examples we have released,we offer a sophisticated and systematically constructed illustrative scenario that is intricately woven with the complexity ofmedical evaluation in order to thoroughly assess the relevance and efficacy of the suggested methodology.

High donor-number and low content electrolyte additive for stabilizing zinc metal anode

The aqueous zinc ion batteries(AZIBs)are thought as promising competitors for electrochemical energy storage,though their wide application is curbed by the uncontrollable dendrite growth and gas evolution side reactions.Herein,to stabilize both zinc anodes and water molecules,we developed a modified electrolyte by adding a trace amount of N,N-diethylformanmide(DEF)into the ZnSO_(4)electrolyte for the first time in zinc ion batteries.The effectiveness of DEF is predicted by the comparison of donor number and its preferential adsorption behavior on the zinc anode is further demonstrated by several spectroscopy characterizations,electrochemical methods,and molecular dynamics simulation.The modified electrolyte with 5%v.t.DEF content can ensure a stable cycling life longer than 3400 h of Zn‖Zn symmetric cells and an ultra-reversible Zn stripping/plating process with a high coulombic efficiency of 99.7%.The Zn‖VO_(2)full cell maintains a capacity retention of 83.5%and a 104 mA h g^(-1)mass capacity after 1000cycles.This work provides insights into the role of interfacial adsorption behavior and the donor number of additive molecules in designing low-content and effective aqueous electrolytes.

Bird specimen number linked with species trait and climate niche breadth

Biological specimens are fundamental for taxonomy and flora/fauna research.More importantly,they also play crucial roles in recording environmental impacts on morphology and behavior,which is vital for biodiversity research and conservation.However,there are few systematic studies on the patterns and drivers of bird specimen number at regional scales.This study is the first attempt to examine the relationships between bird specimen number and species traits as well as climate niche breadth in China,aiming to answer two questions:1)how do species’temperature niche breadth and precipitation niche breadth influence specimen number?2)which trait is most associated with bird specimen number?The associations between bird specimen number and explanatory variables were examined using ordinary least squares,generalized linear models,phylogenetic generalized linear mixed models,and multiple comparisons.The results showed that Muscicapidae was the family with the highest specimen number,and Passeriformes was the order with the highest specimen number.Bird specimen number significantly increased with larger temperature niche breadth and precipitation niche breadth.Specimen number was also positively associated with geographic range size,habitat specificity,hunting vulnerability and clutch size,but negatively associated with body size.These findings suggest that future bird specimen collection should pay more attention to birds with limited ecological niches,large body sizes,and small clutch sizes.This research enhances the use of bird specimen data to study and preserve biodiversity.

Discovery of controllable high Chern number quantum anomalous Hall state in tetragonal lattice FeSIn

Quantum anomalous Hall(QAH) insulators have excellent properties driven by fancy topological physics, but their practical application is greatly hindered by the observed temperature of liquid nitrogen, and the QAH insulator with high Chern number is conducive to spintronic devices with lower energy consumption. Here, we find that monolayer Fe SIn is a good candidate for realizing the QAH phase;it exhibits a high magnetic transition temperature of 221 K and tunable C = ±2 with respect to magnetization orientation in the y–z plane. After the application of biaxial strain, the magnetic axis shifts from the x–y plane to the z direction, and the effect of the high C and ferromagnetic ground state on the stress is robust. Also, the effect of correlation U on C has been examined. These properties are rooted in the large size of the Fe atom that contributes to ferromagnetic kinetic exchange with neighboring Fe atoms. These findings demonstrate monolayer Fe SIn to be a major template for probing novel QAH devices at higher temperatures.

The Turbulent Schmidt Number for Transient Contaminant Dispersion in a Large Ventilated Room Using a Realizable k-εModel

Buildings with large open spaces in which chemicals are handled are often exposed to the risk of explosions.Computational fluid dynamics is a useful and convenient way to investigate contaminant dispersion in such large spaces.The turbulent Schmidt number(Sc_(t))concept has typically been used in this regard,and most studies have adopted a default value.We studied the concentration distribution for sulfur hexafluoride(SF_(6))assuming different emission rates and considering the effect of Sc_(t).Then we examined the same problem for a light gas by assuming hydrogen gas(H_(2))as the contaminant.When SF_(6) was considered as the contaminant gas,a variation in the emission rate completely changed the concentration distribution.When the emission rate was low,the gravitational effect did not take place.For both low and high emission rates,an increase in S_(ct) accelerated the transport rate of SF_(6).In contrast,for H_(2) as the contaminant gas,a larger S_(ct) could induce a decrease in the H_(2) transport rate.

Novel Rifle Number Recognition Based on Improved YOLO in Military Environment

Deep neural networks perform well in image recognition,object recognition,pattern analysis,and speech recog-nition.In military applications,deep neural networks can detect equipment and recognize objects.In military equipment,it is necessary to detect and recognize rifle management,which is an important piece of equipment,using deep neural networks.There have been no previous studies on the detection of real rifle numbers using real rifle image datasets.In this study,we propose a method for detecting and recognizing rifle numbers when rifle image data are insufficient.The proposed method was designed to improve the recognition rate of a specific dataset using data fusion and transfer learningmethods.In the proposed method,real rifle images and existing digit images are fusedas trainingdata,andthe final layer is transferredto theYolov5 algorithmmodel.The detectionand recognition performance of rifle numbers was improved and analyzed using rifle image and numerical datasets.We used actual rifle image data(K-2 rifle)and numeric image datasets,as an experimental environment.TensorFlow was used as the machine learning library.Experimental results show that the proposed method maintains 84.42% accuracy,73.54% precision,81.81% recall,and 77.46% F1-score in detecting and recognizing rifle numbers.The proposed method is effective in detecting rifle numbers.

Analysis of pseudo-random number generators in QMC-SSE method

In the quantum Monte Carlo(QMC)method,the pseudo-random number generator(PRNG)plays a crucial role in determining the computation time.However,the hidden structure of the PRNG may lead to serious issues such as the breakdown of the Markov process.Here,we systematically analyze the performance of different PRNGs on the widely used QMC method known as the stochastic series expansion(SSE)algorithm.To quantitatively compare them,we introduce a quantity called QMC efficiency that can effectively reflect the efficiency of the algorithms.After testing several representative observables of the Heisenberg model in one and two dimensions,we recommend the linear congruential generator as the best choice of PRNG.Our work not only helps improve the performance of the SSE method but also sheds light on the other Markov-chain-based numerical algorithms.

Effect of Sweptback Angle of a Delta Wing on Surface Pressure Distribution at Supersonic Mach Numbers

The purpose of this work is to shed light on the effect of the pivot position on the surface pressure distribution over a 3D wing in different flight conditions.The study is intended to support the design and development of aerospace vehicles where stability analysis,performance optimization,and aircraft design are of primary importance.The following parameters are considered:Mach numbers(M)of 1.3,1.8,2.3,2.8,3.3,and 3.8,angle of incidence(θ)in the range from 5°to 25°,pivot position from h=0.2 to 1.The results of the CFD numerical simulations match available analytical data,thereby providing evidence for the reliability of the used approach.The findings provide valuable insights into the relationship between the surface pressure distribution,the Mach number and the angle of incidence.

Influence of Blade Number on the Performance of Hydraulic Turbines in the Transition Stage

To analyze the effect of blade number on the performance of hydraulic turbines during the transient stage in which theflow rate is not constant,six hydraulic turbines with different blade numbers are considered.The instantaneous hydraulic performance of the turbine and the pressure pulsation acting on the impeller are investigated numerically by using the ANSYS CFX software.The ensuing results are compared with the outcomes of experimental tests.It is shown that thefluctuation range of the pressure coefficient increases with time,but the corresponding range for the transient hydraulic efficiency decreases gradually when theflow velocity transits to larger values.During the transition to smallflow velocity,thefluctuation range of the pressure coefficient gradually decreases as time passes,but the correspondingfluctuation range of its transient hydraulic efficiency gradually becomes larger.Thefluctuation range in the Z9 case is small during the transition.The main frequency of transient hydraulic efficiency pulsation is equal to the blade frequency.At the main frequency,Z7 has the largest amplitude of the hydraulic efficiency pulsation,Z10 has the smallest amplitude,and the difference between Z7 and Z9 is limited.As the number of blades grows,the pressure pulsation during the transition process gradually decreases,but the pressure pulsation of Z10 at the volute tongue is larger.In the steady state,Z9 has the highest efficiency and in the transient stage,the pressure coefficientfluctuation range is small.Accordingly,for the hydraulic turbine Z9,the performance is optimal.

Flow and sound fields of scaled high-speed trains with different coach numbers running in long tunnel

Segregated incompressible large eddy simulation and acoustic perturbation equations were used to obtain the flow field and sound field of 1:25 scale trains with three,six and eight coaches in a long tunnel,and the aerodynamic results were verified by wind tunnel test with the same scale two-coach train model.Time-averaged drag coefficients of the head coach of three trains are similar,but at the tail coach of the multi-group trains it is much larger than that of the three-coach train.The eight-coach train presents the largest increment from the head coach to the tail coach in the standard deviation(STD)of aerodynamic force coefficients:0.0110 for drag coefficient(Cd),0.0198 for lift coefficient(Cl)and 0.0371 for side coef-ficient(Cs).Total sound pressure level at the bottom of multi-group trains presents a significant streamwise increase,which is different from the three-coach train.Tunnel walls affect the acoustic distribution at the bottom,only after the coach number reaches a certain value,and the streamwise increase in the sound pressure fluctuation of multi-group trains is strengthened by coach number.Fourier transform of the turbulent and sound pressures presents that coach number has little influence on the peak frequencies,but increases the sound pressure level values at the tail bogie cavities.Furthermore,different from the turbulent pressure,the first two sound pressure proper orthogonal decomposition(POD)modes in the bogie cavities contain 90%of the total energy,and the spatial distributions indicate that the acoustic distributions in the head and tail bogies are not related to coach number.

GHz photon-number resolving detection with high detection efficiency and low noise by ultra-narrowband interference circuits

We demonstrate the photon-number resolution(PNR)capability of a 1.25 GHz gated InGaAs single-photon avalanche photodiode(APD)that is equipped with a simple,low-distortion ultra-narrowband interference circuit for the rejection of its background capacitive response.Through discriminating the avalanche current amplitude,we are able to resolve up to four detected photons in a single detection gate with a detection efficiency as high as 45%.The PNR capability is limited by the avalanche current saturation,and can be increased to five photons at a lower detection efficiency of 34%.The PNR capability,combined with high efficiency and low noise,will find applications in quantum information processing technique based on photonic qubits.

Combinatorial Identities Concerning Harmonic Numbers

In this paper,we firstly establish a combinatorial identity with a free parameter x,and then by means of derivative operation,several summation formulae concerning classical and generalized harmonic numbers,as well as binomial coefficients are derived.

Origin of Sexy Prime Numbers, Origin of Cousin Prime Numbers, Equations from Supposedly Prime Numbers, Origin of the Mersenne Number, Origin of the Fermat Number

We have found through calculations that the differences between the closest supposed prime numbers other than 2 and 3 defined in the articles are: 2;4: and 6. For those whose difference is equal to 6, we showed their origin then we classified them into two categories according to their classes, we showed in which context two prime numbers which differ from 6 are called sexy and in what context they are said real sexy prime. For those whose difference is equal to 4, we showed their origin then we showed that two prime numbers which differ from 4, that is to say two cousin prime numbers, are successive. We made an observation on the supposed prime numbers then we established two pairs of equations from this observation and deduced the origin of the Mersenne number and that of the Fermat number.