This paper studies the offspring＇s genotype frequency of the selfing population on multiple alleles with limited loci.A recursive algorithm is given for it.It is discovered that the genotype frequency of homozygous g...This paper studies the offspring＇s genotype frequency of the selfing population on multiple alleles with limited loci.A recursive algorithm is given for it.It is discovered that the genotype frequency of homozygous gene of limited loci increases by generations.Relative increment reduces by generations and the genotype frequency tends to a definite value finally.The genotype frequency of limited loci with hybrid gene tends to 0 finally.But it is possibility that the genotype frequency increases in previous generations then reduces later.It is found that the number of the hybrid gene are more,the speeds tending to 0 are quicker.展开更多
To improve the anti-noise performance of the time-domain Bregman iterative algorithm,an adaptive frequency-domain Bregman sparse-spike deconvolution algorithm is proposed.By solving the Bregman algorithm in the freque...To improve the anti-noise performance of the time-domain Bregman iterative algorithm,an adaptive frequency-domain Bregman sparse-spike deconvolution algorithm is proposed.By solving the Bregman algorithm in the frequency domain,the influence of Gaussian as well as outlier noise on the convergence of the algorithm is effectively avoided.In other words,the proposed algorithm avoids data noise effects by implementing the calculations in the frequency domain.Moreover,the computational efficiency is greatly improved compared with the conventional method.Generalized cross validation is introduced in the solving process to optimize the regularization parameter and thus the algorithm is equipped with strong self-adaptation.Different theoretical models are built and solved using the algorithms in both time and frequency domains.Finally,the proposed and the conventional methods are both used to process actual seismic data.The comparison of the results confirms the superiority of the proposed algorithm due to its noise resistance and self-adaptation capability.展开更多
Inflorescences structures in context of their evolution have been conducted for 60 genera and 170 species of Celastrales （according to APG （Angiosperm Phylogeny Group） III 2009, almost 60% of genera and 15% of spec...Inflorescences structures in context of their evolution have been conducted for 60 genera and 170 species of Celastrales （according to APG （Angiosperm Phylogeny Group） III 2009, almost 60% of genera and 15% of species from this taxon of the world flora）. There are two big groups of inflorescences in Celastrales-intercalary （more often） and terminal. For many genera of Celastrales both types of inflorescences can be observed, although the frequency of their occurrence varies. There is an important difference between two types of inflorescences： character of completion of the main axis （the terminal flower present or absent）. Flower opening can be in basipetal （Celastraceae, Brexia） or acropetal （Stackhousiaceae） order. Partial inflorescence types included： simple, compound or umbrellate dichasia, spike, raceme, thyrse. Simple flowers of Parnassia are large, nested on long reproductive shoots, emerging from a rosette, with amplexicaule leaf.展开更多
In this paper, we address one of the issues in the frequency assignment problem for cellular mobile networks in which we intend to minimize the interference levels when assigning frequencies from a limited frequency s...In this paper, we address one of the issues in the frequency assignment problem for cellular mobile networks in which we intend to minimize the interference levels when assigning frequencies from a limited frequency spectrum. In order to satisfy the increasing demand in such cellular mobile networks, we use a hybrid approach consisting of a Particle Swarm Optimization(PSO) combined with a Tabu Search(TS) algorithm. This approach takes both advantages of PSO efficiency in global optimization and TS in avoiding the premature convergence that would lead PSO to stagnate in a local minimum. Moreover, we propose a new efficient, simple, and inexpensive model for storing and evaluating solution's assignment. The purpose of this model reduces the solution's storage volume as well as the computations required to evaluate thesesolutions in comparison with the classical model. Our simulation results on the most known benchmarking instances prove the effectiveness of our proposed algorithm in comparison with previous related works in terms of convergence rate, the number of iterations, the solution storage volume and the running time required to converge to the optimal solution.展开更多
During the early mid-1990s, a number of rural farmers across central China were employed to the unregulated plasma- selling-activity and many of them were infected by HIV-1. However, AIDS progression in the former blo...During the early mid-1990s, a number of rural farmers across central China were employed to the unregulated plasma- selling-activity and many of them were infected by HIV-1. However, AIDS progression in the former blood donors （FBDs） is various. The aim of this study is to assess human leukocyte antigen （HLA） class I allele distribution in FBDs and evaluate its association with HIV-1 infection and disease progression. A total of 353 FBDs were enrolled in the cohort including 294 ART na＇fve HIV-1 seropositive and 59 HIV-1 seronegative age-matched subjects. The viral load and CD4/CD8 T cell counts were assessed in all subjects. Compared with HIV-seropositive group, the frequency of HLA-A＊03 in control was significantly higher. After classifying the HLA-B alleles of the subjects according to the presence of Bw4/Bw6 serological epitopes, detri- mental effect of HLA Bw6/Bw6 homozygosity was also confirmed in the HIV-seropositive subjects. This study provides nov- el evidence on HLA class I allele distribution and association of HLA-A＊03 frequency with HIV-1 infection and viremia in the HIV-1 infected FBDs, which may throw light on intervention strategy for the HIV-1 infection and our understanding how host immunity and genetic background affect HIV infection and AIDS progression.展开更多
Highly fecund marine species with dispersive life-history stages often display large population sizes and wide geographic distribution ranges. Consequently, they are expected to experience reduced genetic drift, effic...Highly fecund marine species with dispersive life-history stages often display large population sizes and wide geographic distribution ranges. Consequently, they are expected to experience reduced genetic drift, efficient selection fueled by frequent adaptive mutations, and high migration loads. This has important consequences for understanding how local adaptation proceeds in the sea. A key issue in this regard, relates to the genetic architecture underlying fitness traits. Theory predicts that adaptation may involve many genes but with a high variance in effect size. Therefore, the effect of selection on allele frequencies may be substantial for the largest effect size loci, but insignificant for small effect genes. In such a context, the performance of population genomic methods to unravel the genetic basis of adaptation depends on the fraction of adaptive genetic variance explained by the cumulative effect of outlier loci. Here, we address some methodological challenges associated with the detection of local adaptation using molecular approaches. We provide an overview of genome scan methods to detect selection, including those assuming complex demographic models that better describe spatial population structure. We then focus on quantitative genetics approaches that search for genotype-phenotype associations at different genomic scales, including genome-wide methods evaluating the cumulative effect of variants. We argue that the limited power of single locus tests can be alleviated by the use of polygenic scores to estimate the joint contribution of candidate variants to phenotypic variation.展开更多
Invasive species are considered one of the greatest threats to native ecosystems, second only to habitat loss and frag- mentation. Despite this, the temporal dynamics of invasions are poorly understood, with most stud...Invasive species are considered one of the greatest threats to native ecosystems, second only to habitat loss and frag- mentation. Despite this, the temporal dynamics of invasions are poorly understood, with most studies focusing on a single time point, providing us with only a snapshot of the biology and genetics of the invader. We investigated the invasion of Lord Howe Island by the delicate skink Lampropholis delicata and assessed the introduction history and genetic structure of this species over a 5-year period. Using genetic data taken from 2007, and again in 2011/12, we examined changes in the population genetic struc- ture （whether new haplotypes had been introduced to the island, and shifts in haplotype frequencies） of the species on the island between these two time points. No new haplotypes were introduced to the island between 2007 and 2011/12; however, significant shifts in haplotype frequencies across the island were detected. We conclude that the delicate skink is expanding its range into the southern regions of the island and that the haplotype frequencies on Lord Howe Island are still in a state of highly dynamic flux. Our study highlights the importance of considering invasions as dynamic and studying them in such a way that enable us to better manage their impacts展开更多
When selection increases the frequency of a beneficial gene substitution it can also increase the frequencies of linked neutral alleles through a process called genetic hitchhiking. A model built to investigate reduce...When selection increases the frequency of a beneficial gene substitution it can also increase the frequencies of linked neutral alleles through a process called genetic hitchhiking. A model built to investigate reduced genetic diversity in Pleistocene hominins shows that genetic hitchhiking can have a strong effect on neutral diversity in the presence of culturally mediated mi- gration. Under conditions in which genetic and cultural variants are transmitted symmetrically, neutral genes may also hitchhike to higher frequencies on the coattails of adaptive cultural traits through a process called cultural hitchhiking. Cultural hitchhiking has been proposed to explain why some species of matrilineal whales display relatively low levels of mitochondrial DNA diver- sity, and it may be applicable to humans as well. This paper provides a critical review of recent models of both types of hitch- hiking in socially structured populations. The models＇ assumptions and predictions are compared and discussed in the hope that studies of reduced genetic diversity in humans might improve our understanding of reduced genetic diversity in other species, and vice versa展开更多
基金Supported by Research Project from Education Department of Guangxi(200807MS065)Mathematical Modeling in Population Genetics from Talents Scheme of Universities in Guangxi~~
文摘This paper studies the offspring＇s genotype frequency of the selfing population on multiple alleles with limited loci.A recursive algorithm is given for it.It is discovered that the genotype frequency of homozygous gene of limited loci increases by generations.Relative increment reduces by generations and the genotype frequency tends to a definite value finally.The genotype frequency of limited loci with hybrid gene tends to 0 finally.But it is possibility that the genotype frequency increases in previous generations then reduces later.It is found that the number of the hybrid gene are more,the speeds tending to 0 are quicker.
基金supported by the National Natural Science Foundation of China(No.NSFC 41204101)Open Projects Fund of the State Key Laboratory of Oil and Gas Reservoir Geology and Exploitation(No.PLN201733)+1 种基金Youth Innovation Promotion Association of the Chinese Academy of Sciences(No.2015051)Open Projects Fund of the Natural Gas and Geology Key Laboratory of Sichuan Province(No.2015trqdz03)
文摘To improve the anti-noise performance of the time-domain Bregman iterative algorithm,an adaptive frequency-domain Bregman sparse-spike deconvolution algorithm is proposed.By solving the Bregman algorithm in the frequency domain,the influence of Gaussian as well as outlier noise on the convergence of the algorithm is effectively avoided.In other words,the proposed algorithm avoids data noise effects by implementing the calculations in the frequency domain.Moreover,the computational efficiency is greatly improved compared with the conventional method.Generalized cross validation is introduced in the solving process to optimize the regularization parameter and thus the algorithm is equipped with strong self-adaptation.Different theoretical models are built and solved using the algorithms in both time and frequency domains.Finally,the proposed and the conventional methods are both used to process actual seismic data.The comparison of the results confirms the superiority of the proposed algorithm due to its noise resistance and self-adaptation capability.
文摘Inflorescences structures in context of their evolution have been conducted for 60 genera and 170 species of Celastrales （according to APG （Angiosperm Phylogeny Group） III 2009, almost 60% of genera and 15% of species from this taxon of the world flora）. There are two big groups of inflorescences in Celastrales-intercalary （more often） and terminal. For many genera of Celastrales both types of inflorescences can be observed, although the frequency of their occurrence varies. There is an important difference between two types of inflorescences： character of completion of the main axis （the terminal flower present or absent）. Flower opening can be in basipetal （Celastraceae, Brexia） or acropetal （Stackhousiaceae） order. Partial inflorescence types included： simple, compound or umbrellate dichasia, spike, raceme, thyrse. Simple flowers of Parnassia are large, nested on long reproductive shoots, emerging from a rosette, with amplexicaule leaf.
文摘In this paper, we address one of the issues in the frequency assignment problem for cellular mobile networks in which we intend to minimize the interference levels when assigning frequencies from a limited frequency spectrum. In order to satisfy the increasing demand in such cellular mobile networks, we use a hybrid approach consisting of a Particle Swarm Optimization(PSO) combined with a Tabu Search(TS) algorithm. This approach takes both advantages of PSO efficiency in global optimization and TS in avoiding the premature convergence that would lead PSO to stagnate in a local minimum. Moreover, we propose a new efficient, simple, and inexpensive model for storing and evaluating solution's assignment. The purpose of this model reduces the solution's storage volume as well as the computations required to evaluate thesesolutions in comparison with the classical model. Our simulation results on the most known benchmarking instances prove the effectiveness of our proposed algorithm in comparison with previous related works in terms of convergence rate, the number of iterations, the solution storage volume and the running time required to converge to the optimal solution.
基金supported by NIAID,NIH,USA(1 U19 AI51915-02)the National Basic Research Program of China(2006CB504200)National Natural Science Foundation of China(30623009)
文摘During the early mid-1990s, a number of rural farmers across central China were employed to the unregulated plasma- selling-activity and many of them were infected by HIV-1. However, AIDS progression in the former blood donors （FBDs） is various. The aim of this study is to assess human leukocyte antigen （HLA） class I allele distribution in FBDs and evaluate its association with HIV-1 infection and disease progression. A total of 353 FBDs were enrolled in the cohort including 294 ART na＇fve HIV-1 seropositive and 59 HIV-1 seronegative age-matched subjects. The viral load and CD4/CD8 T cell counts were assessed in all subjects. Compared with HIV-seropositive group, the frequency of HLA-A＊03 in control was significantly higher. After classifying the HLA-B alleles of the subjects according to the presence of Bw4/Bw6 serological epitopes, detri- mental effect of HLA Bw6/Bw6 homozygosity was also confirmed in the HIV-seropositive subjects. This study provides nov- el evidence on HLA class I allele distribution and association of HLA-A＊03 frequency with HIV-1 infection and viremia in the HIV-1 infected FBDs, which may throw light on intervention strategy for the HIV-1 infection and our understanding how host immunity and genetic background affect HIV infection and AIDS progression.
文摘Highly fecund marine species with dispersive life-history stages often display large population sizes and wide geographic distribution ranges. Consequently, they are expected to experience reduced genetic drift, efficient selection fueled by frequent adaptive mutations, and high migration loads. This has important consequences for understanding how local adaptation proceeds in the sea. A key issue in this regard, relates to the genetic architecture underlying fitness traits. Theory predicts that adaptation may involve many genes but with a high variance in effect size. Therefore, the effect of selection on allele frequencies may be substantial for the largest effect size loci, but insignificant for small effect genes. In such a context, the performance of population genomic methods to unravel the genetic basis of adaptation depends on the fraction of adaptive genetic variance explained by the cumulative effect of outlier loci. Here, we address some methodological challenges associated with the detection of local adaptation using molecular approaches. We provide an overview of genome scan methods to detect selection, including those assuming complex demographic models that better describe spatial population structure. We then focus on quantitative genetics approaches that search for genotype-phenotype associations at different genomic scales, including genome-wide methods evaluating the cumulative effect of variants. We argue that the limited power of single locus tests can be alleviated by the use of polygenic scores to estimate the joint contribution of candidate variants to phenotypic variation.
文摘Invasive species are considered one of the greatest threats to native ecosystems, second only to habitat loss and frag- mentation. Despite this, the temporal dynamics of invasions are poorly understood, with most studies focusing on a single time point, providing us with only a snapshot of the biology and genetics of the invader. We investigated the invasion of Lord Howe Island by the delicate skink Lampropholis delicata and assessed the introduction history and genetic structure of this species over a 5-year period. Using genetic data taken from 2007, and again in 2011/12, we examined changes in the population genetic struc- ture （whether new haplotypes had been introduced to the island, and shifts in haplotype frequencies） of the species on the island between these two time points. No new haplotypes were introduced to the island between 2007 and 2011/12; however, significant shifts in haplotype frequencies across the island were detected. We conclude that the delicate skink is expanding its range into the southern regions of the island and that the haplotype frequencies on Lord Howe Island are still in a state of highly dynamic flux. Our study highlights the importance of considering invasions as dynamic and studying them in such a way that enable us to better manage their impacts
文摘When selection increases the frequency of a beneficial gene substitution it can also increase the frequencies of linked neutral alleles through a process called genetic hitchhiking. A model built to investigate reduced genetic diversity in Pleistocene hominins shows that genetic hitchhiking can have a strong effect on neutral diversity in the presence of culturally mediated mi- gration. Under conditions in which genetic and cultural variants are transmitted symmetrically, neutral genes may also hitchhike to higher frequencies on the coattails of adaptive cultural traits through a process called cultural hitchhiking. Cultural hitchhiking has been proposed to explain why some species of matrilineal whales display relatively low levels of mitochondrial DNA diver- sity, and it may be applicable to humans as well. This paper provides a critical review of recent models of both types of hitch- hiking in socially structured populations. The models＇ assumptions and predictions are compared and discussed in the hope that studies of reduced genetic diversity in humans might improve our understanding of reduced genetic diversity in other species, and vice versa
