This paper studies the clan temples in four periods,namely,the development period(early Ming Dynasty and before),the shaping period(mid-Ming Dynasty to early Qing Dynasty),the maturity period(mid-Qing Dynasty),and the...This paper studies the clan temples in four periods,namely,the development period(early Ming Dynasty and before),the shaping period(mid-Ming Dynasty to early Qing Dynasty),the maturity period(mid-Qing Dynasty),and the programmed period(late Qing Dynasty),analyzes and summarizes their prototypical planform features and attempts to summarize and construct a genealogy of the architectural characteristics of the plane shape of clan temples.During the Ming and Qing dynasties,Guangfu ancestral halls in general showed a journey of development from a centripetal-single-linear-multi-linear-grid pattern,forming the unique Guangsanlu classic pattern in the Guangfu area.展开更多
This paper discusses ancestral hall architecture within the context of the Cantonese folk lineage in the Pearl River Delta.Using a typological research approach and chronological analysis,various factors that have inf...This paper discusses ancestral hall architecture within the context of the Cantonese folk lineage in the Pearl River Delta.Using a typological research approach and chronological analysis,various factors that have influenced the evolution of ancestral hall architecture are analyzed.The study specifically investigates the features of ancestral halls during the Ming and Qing dynasties.Three periods of ancient China are analyzed:The transition from Ming to Qing,the mid-Qing dynasty,and the late Qing dynasty.The variables of each period and how they influence the evolution of architectural typological features are identified.Based on our analysis,architectural features are related to economic and social factors,materials available,and craftsmanship of the construction workers.展开更多
Traditional ancestral halls play an important role in the inheritance of the clan system.They carry strong clan ritual culture and are the hall of the clan spirit.In China’s traditional society,the clan concept was v...Traditional ancestral halls play an important role in the inheritance of the clan system.They carry strong clan ritual culture and are the hall of the clan spirit.In China’s traditional society,the clan concept was very deep,and a village was often formed by a single clan.An ancestral hall is a place where people sacrifice their ancestors and thus is given the most important significance,which is related to the rise and fall of the clan.Based on the instinct of biological benefit and avoidance,the site selection of ancestral halls must be the most favorable.In this paper,the site selection of Yu Ancestral Hall in Wangkou Village,Wuyuan County,Jiangxi Province was surveyed and analyzed,and the layout modes and artistic characteristics of site selection of traditional ancestral halls in Jiangxi were studied to provide reference for the protection and sustainable development of traditional ancestral halls.展开更多
As the most important sacrificial architecture in rural China, ancestral halls are material expressions of the traditional social, cultural and artistic spirit, which contain rich historical and cultural value. Taking...As the most important sacrificial architecture in rural China, ancestral halls are material expressions of the traditional social, cultural and artistic spirit, which contain rich historical and cultural value. Taking the Wan Clan Ancestral Hall of Sanjiang Town, Nanchang County, Nanchang City, Jiangxi Province for example, this study analyzed its spatial sequence, the planar shape and the facade form, and explained the connotation of "respecting law and discipline rites and advocating moral integrity" contained in the spirit of ancestral halls.展开更多
To explore the correlation between ancestor temple sacrifice culture and clan etiquettes in traditional settlements of Jiangxi Province, this paper analyzed origination and development of ancestor temple, focused on t...To explore the correlation between ancestor temple sacrifice culture and clan etiquettes in traditional settlements of Jiangxi Province, this paper analyzed origination and development of ancestor temple, focused on the patriarchal thought that respects ancestors and unifies the clan, the relationship between clan power and political power, sacrifice and patriarchy. The research found that the plain clan etiquettes were significant for unifying the clansmen, inheriting historical context, and stabilizing primarylevel organizations in rural areas.展开更多
In this article, three Guangdong’s ancestral temples are taken as case studies to explore strategies for cultural heritage conservation. Heritage conservation is very important not only for our missing of past, but i...In this article, three Guangdong’s ancestral temples are taken as case studies to explore strategies for cultural heritage conservation. Heritage conservation is very important not only for our missing of past, but in order that our own cultural identity can be formed today. In China, different stakeholders hold various views on heritage protection and conflicts often take place. Particularly, many folk religion’s cultural heritages face a dangerous scenario and could even be damaged or destroyed for a variety of “reason”. This article tries to re-examine fundamental values and assessment criteria for cultural heritage conservation. The authenticity is a core concept involved with those of issues. Based on the views of culture place, the author puts forward the concept of “emic culture authenticity” as a hinge to explore authentic culture ecology of heritage and its model, to facilitate the cultural heritage conservation and reuse by the strategies of classification and adaptation.展开更多
Ancestral temple culture is the core part of village culture,which infl uences the spatial pattern of villages from various aspects,occupying an important position in traditional villages.Facing the loss of village cu...Ancestral temple culture is the core part of village culture,which infl uences the spatial pattern of villages from various aspects,occupying an important position in traditional villages.Facing the loss of village culture and the dissipation of cohesion,it is particularly important to study village culture.The impacts of ancestral temple on village layout,building orientation and street pattern are analyzed,which will guide the construction of modern beautiful countryside by using rational planning methods.展开更多
Local cattle breeds continue to decline in numbers partly due to the use of high performing breeds in advanced production systems where genetic material of elite animals is widely spread. The objective of this study w...Local cattle breeds continue to decline in numbers partly due to the use of high performing breeds in advanced production systems where genetic material of elite animals is widely spread. The objective of this study was to assess the within and across breed genetic diversity of the Angler and Red-and-White dual-purpose (DP) cattle breeds applying different inbreeding concepts. Classical and ancestral inbreeding coefficients were computed from pedigree data using the gene dropping method. Effective population size was calculated based on the increase of classical inbreeding, and based on ancestral inbreeding to obtain what was termed as ancestral effective population size. Furthermore, the effective number of founders and ancestors were computed to assess the disequilibrium of founder contribution in the reference populations. The analyses were performed separately for each breed and for a combined dataset. The Angler pedigree was more complete (88%) in the first parental generation but completeness declined with increasing pedigree depth. Average classical inbreeding coefficients of inbred individuals were 2.19%, 1.94% and 2.07%, while average Ballou’s ancestral inbreeding coefficients were 3.69%, 1.39% and 2.21% for the Angler, Red-and-White DP and the combined breed pedigree analyses, respectively. Ancestral history coefficient is a novel coefficient and its estimates were similar and strongly correlated to Ballou’s coefficients (r = 0.99, p < 0.001). The effective population size estimates ranged from 156 to 170 for the classical inbreeding based method, and as low as from 50 to 54 for the ancestral history coefficient based method. The effective number of founders and ancestors ranged from 310 to 532, and 90 to 189, respectively. Our results show that the Red Holstein breed is a key progenitor of the breed populations under study. This highlights cross breeding schemes introduced to improve the milk trait performance of the Angler and Red-and-White DP breeds some decades ago.展开更多
Evidence of whole-genome duplications(WGDs)and subsequent karyotype changes has been detected in most major lineages of living organisms on Earth.To clarify the complex resulting multi-layered patterns of gene colline...Evidence of whole-genome duplications(WGDs)and subsequent karyotype changes has been detected in most major lineages of living organisms on Earth.To clarify the complex resulting multi-layered patterns of gene collinearity in genome analyses,there is a need for convenient and accurate toolkits.To meet this need,we developed WGDI(Whole-Genome Duplication Integrated analysis),a Python-based command-line tool that facilitates comprehensive analysis of recursive polyploidization events and cross-species genome alignments.WGDI supports three main workflows(polyploid inference,hierarchical inference of genomic homology,and ancestral chromosome karyotyping)that can improve the detection of WGD and characterization of WGD-related events based on high-quality chromosome-level genomes.Significantly,it can extract complete synteny blocks and facilitate reconstruction of detailed karyotype evolution.This toolkit is freely available at GitHub(https://github.com/SunPengChuan/wgdi).As an example of its application,WGDI convincingly clarified karyotype evolution in Aquilegia coerulea and Vitis vinifera following WGDs and rejected the hypothesis that Aquilegia contributed as a parental lineage to the allopolyploid origin of core dicots.展开更多
Necessary and sufficient conditions for a maximal ancestral graph (MAnG)to be Markov equivalent to another MAnG and to a DAG are provided respectively. Also a polynomial-time algorithm for converting a MAnG into its e...Necessary and sufficient conditions for a maximal ancestral graph (MAnG)to be Markov equivalent to another MAnG and to a DAG are provided respectively. Also a polynomial-time algorithm for converting a MAnG into its equivalent DAG is given for the first time.展开更多
Identification of population structure can help trace population histories and identify disease genes. Structured association (SA) is a commonly used approach for population structure identification and association ma...Identification of population structure can help trace population histories and identify disease genes. Structured association (SA) is a commonly used approach for population structure identification and association mapping. A major issue with SA is that its performance greatly depends on the informa-tiveness and the numbers of ancestral informative markers (AIMs). Present major AIM selection meth-ods mostly require prior individual ancestry information, which is usually not available or uncertain in practice. To address this potential weakness, we herein develop a novel approach for AIM selection based on principle component analysis (PCA), which does not require prior ancestry information of study subjects. Our simulation and real genetic data analysis results suggest that, with equivalent AIMs, PCA-based selected AIMs can significantly increase the accuracy of inferred individual ancestries compared with traditionally randomly selected AIMs. Our method can easily be applied to whole genome data to select a set of highly informative AIMs in population structure, which can then be used to identify potential population structure and correct possible statistical biases caused by population stratification.展开更多
Our current understanding of how species have evolved is mainly based on comparative phylogenetic methods,which use phylogenies to infer the evolution of traits.The development of ancestral state reconstruction(ASR)me...Our current understanding of how species have evolved is mainly based on comparative phylogenetic methods,which use phylogenies to infer the evolution of traits.The development of ancestral state reconstruction(ASR)methods has provided the tools to reconstruct trait evolution,which are widely used in fields like evolutionary biology,macroecology and paleontology.As there are different elements involved in those analyses,with different levels of uncertainty(i.e.relating to branch length estimation,trait coding,statistical framework,taxon sampling or software),the various combinations of these elements likely have a strong impact on the reconstruction of the evolution of traits,potentially leading to opposite conclusions.To assess the impact of these different elements in ASR,we performed a set of analyses,including all possible combinations of such elements and using the evolution of migratory behavior in Sylvia warblers as a case study,which was coded as a continuous or as a discrete character.Our results show that taxon sampling,character coding,tree shape,statistical framework and software all significantly affect ASR,both individually and in combination.Not all reconstructed tree nodes show discrepancies,but in the critical ones most pairwise comparisons between analyses lead to conflicting and unexpectedly antagonistic results(zero migration vs fully migratory),thus challenging interpretations of trait evolution.We propose some possible solutions to partly inform decisions,involving the method selection and the incorporation of biological or fossil evidence regarding how traits evolve,but our results demand serious rethinking about how the research community currently uses ASR.展开更多
SHEXIAN, located in the southern foothills of Huangshan Mountain in Anhui Province, is an ancient county which was once the seat of Huizhou Prefecture. The area is also known as the birthplace of Anhui merchants. With...SHEXIAN, located in the southern foothills of Huangshan Mountain in Anhui Province, is an ancient county which was once the seat of Huizhou Prefecture. The area is also known as the birthplace of Anhui merchants. With a long history, favorable geographic position and a unique culture created mainly by those rich Anhui merchants, Shexian has retained a large number of cultural relics, especially ancient archways,展开更多
The stone archway in the style of the Ming Dynasty also has more than 400 years of history. Located by a busy street, the old and new buildings of the ancient county set each other off radiantly.
After more than 30 years of scientific and social development, surveying and mapping technology by leaps and bounds, engineering surveying technology has undergone tremendous changes. In the process of protecting anci...After more than 30 years of scientific and social development, surveying and mapping technology by leaps and bounds, engineering surveying technology has undergone tremendous changes. In the process of protecting ancient buildings, it is necessary to obtain the precise dimensions of architectural details. In this study, the path of 3D laser scanning combined with BIM technology is explored. Taking the observation and protection of the ancestral hall of the Liu family as an example, this study aims to draw drawings that reflect the relevant information about the ancient buildings, the accurate three-dimensional model of ancient buildings is established with BIM technology, which provides new methods and ideas for the research and protection of ancient buildings. .展开更多
Two varieties of Bouteloua aristidoides have been recognized,the widespread var.aristidoides and the more narrowly distributed var.arizonica.The two varieties differ in inflorescence form even more than that seen betw...Two varieties of Bouteloua aristidoides have been recognized,the widespread var.aristidoides and the more narrowly distributed var.arizonica.The two varieties differ in inflorescence form even more than that seen between many other closely related species of Bouteloua.We therefore asked whether these taxa might be better regarded as distinct species.A total of 93 vouchers were studied by using morphometry(principal components analysis and statistical tests),leaf micromorphology,ancestral state reconstruction,and/or molecular(ITS,trnC-rpoB and trnT-L-F)phylogenetic analyses.Except from the ITS tree,all results supported elevation of B.aristidoides var.arizonica to the rank of species,thus the new combination Bouteloua arizonica(M.E.Jones)L.F.Cuellar&Columbus comb.nov.et stat.nov.,is proposed.Chloroplast and combined chloroplast-nuclear molecular trees depicted var.arizonica as monophyletic(even in sympatric populations with var.aristidoides)and reveals phylogenetic structure within var.aristidoides for which the presence of new undescribed varieties of B.aristidoides(different from B.arizonica)is addressed.B.arizonica differs from B.aristidoides in having fewer branches per inflorescence,a bigger branch with more spikelets,and a shorter branch extension.Scanning electron microscopy revealed the presence of papillae on leaves of B.arizonica as a clear synapomorphy.Growing mature plants of B.arizonica from seeds in a greenhouse revealed a strong cleistogamous nature for this species for which gene flow in sympatric populations with B.aristidoides seems unlikely.A taxonomic treatment and distribution map for identification of B.arizonica is provided.展开更多
Species in Galliformes have elaborate ritual courtship displays,often including strutting,fluffing of tail or head feathers,and vocal sounds that serve as excellent examples of sexual selection.According to the male o...Species in Galliformes have elaborate ritual courtship displays,often including strutting,fluffing of tail or head feathers,and vocal sounds that serve as excellent examples of sexual selection.According to the male orientation to the female while either posturing or moving,these courtship displays of gallinaceous species can be classified into three categories:1)‘frontal displays’,2)‘lateral displays’,and 3)‘both frontal and lateral displays’.Questions regarding which category of displays is the ancestral state and the evolutionary history of courtship displays in Galliformes remain unanswered.We collected and classified 131 species in terms of their courtship displays into the three categories listed above and carried out a large-scale comparative analysis to reveal the evolutionary trajectory of this trait.We found that the ancestral state of courtship displays of Galliformes involves both relatively short and straightforward frontal and lateral elements(i.e.,the category of‘both frontal and lateral displays’).Furthermore,ancestral trait reconstructions suggest that transitions from‘lateral displays’to‘frontal displays’occurred more frequently than the other way around(i.e.,from‘frontal displays’to‘lateral displays’).In addition,some transitions occurred from‘both frontal and lateral displays’to‘lateral displays’but not from‘both frontal and lateral displays’to‘frontal displays’.Ancestral state reconstruction of courtship displays at the root of the Galliformes phylogeny supports the‘both frontal and lateral displays’first scenario.This original state then evolved towards two extremes,either‘frontal displays’or‘lateral displays’,with more complicated and elaborate display components.Moreover,subsequent transitions occurred from‘lateral displays’to‘frontal displays’much more frequently than the other way around during the evolutionary history,indicating positive selection of‘frontal displays’.展开更多
Background: This paper describes the chick plumage of spurfowl(Pternistis) and francolin(Francolinus, Dendroperdix Peliperdix and Scleroptila) chicks, tests its significance for phylogenetic relationships and also exp...Background: This paper describes the chick plumage of spurfowl(Pternistis) and francolin(Francolinus, Dendroperdix Peliperdix and Scleroptila) chicks, tests its significance for phylogenetic relationships and also explores the patterns of character evolution in the francolin and spurfowl lineages.Previously regarded as monophyletic, the two evolutionar?ily distant clades are now divided into five genera.Questions considered were whether chick plumage supports the dichotomy between spurfowls and francolins and what role habitat matching plays.Methods: The study was based mainly on photographs of chick skins from the American Museum of Natural History and the Natural History Museum at Tring.Eight plumage characters were selected for comparative scoring, summa?rised in a matrix.These characters were subsequently analysed phylogenetically and their evolution was traced on the existing molecular phylogeny using a parsimony approach.Results: Based on chick plumage the phylogeny of species groups among francolins and spurfowls, was largely unresolved possibly ascribed to a high degree of symplesiomorphy inherent among the Phasianids.This possibly could have resulted in a high degree of polytomy particularly among the spurfowls and francolins.Furthermore, the ancestral state reconstructions revealed high prevalence of symplesiomorphic states and reversals which do not help in the classification of groups.Although the differences are described that separate some African francolins from spurfowls, other francolins(in Asia and Africa) share remarkably similar characteristics with spurfowls.Plain dark dorsal plumage is probably advantageous for avoiding detection by predators in forests, while facial stripes optimise the breaking of body shapes in dense grass cover(as in Scleroptila spp.) and semi?striped faces are advantageous for stationary camouflage under tree and bush cover(as in Pternistis spp.).Conclusions: Although symplesiomorphy is a hereditary explanation for downy colours and patterns, the traits rel?evant for habitat matching are combined in a manner which is determined(adaptation) by natural selection.展开更多
Background:The behavioural repertoire of every species evolved over time and its evolution can be traced through the phylogenetic relationships in distinct groups.Cranes(family Gruidae)represent a small,old,monophylet...Background:The behavioural repertoire of every species evolved over time and its evolution can be traced through the phylogenetic relationships in distinct groups.Cranes(family Gruidae)represent a small,old,monophyletic group with well-corroborated phylogenetic relationships on the species level,and at the same time they exhibit a complex and well-described behavioural repertoire.Methods:We therefore investigated the evolution of behavioural traits of cranes in a phylogenetic context using several phylogenetic approaches and two types of trait scoring.The cranes exhibit more than a hundred behavioural displays,almost one third of which may be phylogenetically informative.Results:More than half of the analysed traits carry a significant phylogenetic signal.The ancestor of cranes already exhibited a quite complex behavioural repertoire,which remained unchanged in Balearicinae but altered greatly in Gruinae,specifically by the shedding of traits rather than their creation.Trait scoring has an influence on results within the Gruinae,primarily in genera Bugeranus and Anthropoides.Conclusions:Albeit the behavioural traits alone cannot be used for resolving species-level relationships within the Gruidae,when optimized on molecular tree,they can help us to detect interesting evolutionary transformations of behaviour repertoire within Gruiformes.The Limpkin(Aramus guarauna)seems to be the most enigmatic species and should be studied in detail for its behavioural repertoire,which may include some precursors of crane behavioural traits.展开更多
Demographic changes during the late Pleistocene-Holocene left signatures in the DNA of contemporary populations. These signatures reveal demographic phenomena like the increase or decrease in effective population size...Demographic changes during the late Pleistocene-Holocene left signatures in the DNA of contemporary populations. These signatures reveal demographic phenomena like the increase or decrease in effective population size. In this paper we searched for signatures of demographic change in the DNA of the Neotropical freshwater fish Poecilia vivipara. Also, we investigated whether demographic changes are correlated with palaeoclimatic events of the late Pleistocene-Holocene, in particular, if changes in effective population size are correlated with expansion and contraction of available habitats, induced by global ice-volume changes and sea-level fluctuations. We used Bayesian Skyline Plot (BSP) analysis with sequences from the mitochondrial gene cytochrome b to estimate the ancestral demography of the Neotropical freshwater fish P. vivipara. To test the assumptions of neutrality and absence of population structure we used Tajima’s D and Spatial Analysis of Molecular Variance (SAMOVA), respectively. Effective population size of P. vivipara remained stable until 75,000 years ago, increased by 10-fold reaching a maximum at approximately 25,000 years ago, then suddenly declined at the Pleistocene-Holocene boundary. Variation in effective population size in P. vivipara correlates with expansion and contraction of habitats induced by sea-level fluctuations, caused by the advance and retreat of ice sheets during the Last Glacial Maximum (LGM).展开更多
文摘This paper studies the clan temples in four periods,namely,the development period(early Ming Dynasty and before),the shaping period(mid-Ming Dynasty to early Qing Dynasty),the maturity period(mid-Qing Dynasty),and the programmed period(late Qing Dynasty),analyzes and summarizes their prototypical planform features and attempts to summarize and construct a genealogy of the architectural characteristics of the plane shape of clan temples.During the Ming and Qing dynasties,Guangfu ancestral halls in general showed a journey of development from a centripetal-single-linear-multi-linear-grid pattern,forming the unique Guangsanlu classic pattern in the Guangfu area.
文摘This paper discusses ancestral hall architecture within the context of the Cantonese folk lineage in the Pearl River Delta.Using a typological research approach and chronological analysis,various factors that have influenced the evolution of ancestral hall architecture are analyzed.The study specifically investigates the features of ancestral halls during the Ming and Qing dynasties.Three periods of ancient China are analyzed:The transition from Ming to Qing,the mid-Qing dynasty,and the late Qing dynasty.The variables of each period and how they influence the evolution of architectural typological features are identified.Based on our analysis,architectural features are related to economic and social factors,materials available,and craftsmanship of the construction workers.
基金Sponsored by Foundation for Humanities and Social Sciences Planning of Ministry of Education of China:Study on the Art of Ancestral Halls in Jiangxi under the Background of Beautiful Countryside(18YJC760149)Project for Humanities and Social Sciences Planning of Colleges and Universities in 2017 in Jiangxi Province(YS17217)+1 种基金Project for Artistic Sciences Planning in 2017 in Jiangxi Province(YG2017164)Project for Artistic Sciences Planning in 2014 in Jiangxi Province(YG2014115)
文摘Traditional ancestral halls play an important role in the inheritance of the clan system.They carry strong clan ritual culture and are the hall of the clan spirit.In China’s traditional society,the clan concept was very deep,and a village was often formed by a single clan.An ancestral hall is a place where people sacrifice their ancestors and thus is given the most important significance,which is related to the rise and fall of the clan.Based on the instinct of biological benefit and avoidance,the site selection of ancestral halls must be the most favorable.In this paper,the site selection of Yu Ancestral Hall in Wangkou Village,Wuyuan County,Jiangxi Province was surveyed and analyzed,and the layout modes and artistic characteristics of site selection of traditional ancestral halls in Jiangxi were studied to provide reference for the protection and sustainable development of traditional ancestral halls.
基金Sponsored by Youth Fund for Humanities and Social Sciences Research of the Ministry of Education of China(18YJC760149)2017 Humanities and Social Sciences Research Project of Jiangxi Province(YS17217)2017 Cultural and Artistic Science Planning Project of Jiangxi Province(YG2017164)
文摘As the most important sacrificial architecture in rural China, ancestral halls are material expressions of the traditional social, cultural and artistic spirit, which contain rich historical and cultural value. Taking the Wan Clan Ancestral Hall of Sanjiang Town, Nanchang County, Nanchang City, Jiangxi Province for example, this study analyzed its spatial sequence, the planar shape and the facade form, and explained the connotation of "respecting law and discipline rites and advocating moral integrity" contained in the spirit of ancestral halls.
基金Sponsored by Jiangxi Provincial Program of Art and Science 2015(YG2015033)
文摘To explore the correlation between ancestor temple sacrifice culture and clan etiquettes in traditional settlements of Jiangxi Province, this paper analyzed origination and development of ancestor temple, focused on the patriarchal thought that respects ancestors and unifies the clan, the relationship between clan power and political power, sacrifice and patriarchy. The research found that the plain clan etiquettes were significant for unifying the clansmen, inheriting historical context, and stabilizing primarylevel organizations in rural areas.
文摘In this article, three Guangdong’s ancestral temples are taken as case studies to explore strategies for cultural heritage conservation. Heritage conservation is very important not only for our missing of past, but in order that our own cultural identity can be formed today. In China, different stakeholders hold various views on heritage protection and conflicts often take place. Particularly, many folk religion’s cultural heritages face a dangerous scenario and could even be damaged or destroyed for a variety of “reason”. This article tries to re-examine fundamental values and assessment criteria for cultural heritage conservation. The authenticity is a core concept involved with those of issues. Based on the views of culture place, the author puts forward the concept of “emic culture authenticity” as a hinge to explore authentic culture ecology of heritage and its model, to facilitate the cultural heritage conservation and reuse by the strategies of classification and adaptation.
基金Research on Architectural Art of Ancestral Temples in Jiangxi Under the Background of Beautiful Countryside Construction(18YJC760149)Planning for Humanities and Social Sciences of the Ministry of Education+1 种基金Research on Building Skills of Ancestral Temples in Jiangxi Under the Background of Beautiful Countryside Construction(19YS04)Social Science Planning of Jiangxi Province.
文摘Ancestral temple culture is the core part of village culture,which infl uences the spatial pattern of villages from various aspects,occupying an important position in traditional villages.Facing the loss of village culture and the dissipation of cohesion,it is particularly important to study village culture.The impacts of ancestral temple on village layout,building orientation and street pattern are analyzed,which will guide the construction of modern beautiful countryside by using rational planning methods.
基金part of the research activities of the operational group,“Animal Genetic Resources”that operates under the auspices of the Agricultural European Innovation Partnership(EIP-AGRI)projectthe European Commission for providing funds for the project.
文摘Local cattle breeds continue to decline in numbers partly due to the use of high performing breeds in advanced production systems where genetic material of elite animals is widely spread. The objective of this study was to assess the within and across breed genetic diversity of the Angler and Red-and-White dual-purpose (DP) cattle breeds applying different inbreeding concepts. Classical and ancestral inbreeding coefficients were computed from pedigree data using the gene dropping method. Effective population size was calculated based on the increase of classical inbreeding, and based on ancestral inbreeding to obtain what was termed as ancestral effective population size. Furthermore, the effective number of founders and ancestors were computed to assess the disequilibrium of founder contribution in the reference populations. The analyses were performed separately for each breed and for a combined dataset. The Angler pedigree was more complete (88%) in the first parental generation but completeness declined with increasing pedigree depth. Average classical inbreeding coefficients of inbred individuals were 2.19%, 1.94% and 2.07%, while average Ballou’s ancestral inbreeding coefficients were 3.69%, 1.39% and 2.21% for the Angler, Red-and-White DP and the combined breed pedigree analyses, respectively. Ancestral history coefficient is a novel coefficient and its estimates were similar and strongly correlated to Ballou’s coefficients (r = 0.99, p < 0.001). The effective population size estimates ranged from 156 to 170 for the classical inbreeding based method, and as low as from 50 to 54 for the ancestral history coefficient based method. The effective number of founders and ancestors ranged from 310 to 532, and 90 to 189, respectively. Our results show that the Red Holstein breed is a key progenitor of the breed populations under study. This highlights cross breeding schemes introduced to improve the milk trait performance of the Angler and Red-and-White DP breeds some decades ago.
基金This work was supported equally by the Strategic Priority Research Program of the Chinese Academy of Sciences(XDB31000000)the National Natural Science Foundation of China(grant numbers 31590821 and 91731301 to J.L.and 32070669to X.W.)+1 种基金the National Key Research and Development Program of China(2017YFC0505203 to Z.X.)also by the Fundamental Research Funds for the Central Universities(SCU2019D013 and 2020SCUNL207)and theNational High-Level Talents Special Support Plan(10 Thousand People Plan)。
文摘Evidence of whole-genome duplications(WGDs)and subsequent karyotype changes has been detected in most major lineages of living organisms on Earth.To clarify the complex resulting multi-layered patterns of gene collinearity in genome analyses,there is a need for convenient and accurate toolkits.To meet this need,we developed WGDI(Whole-Genome Duplication Integrated analysis),a Python-based command-line tool that facilitates comprehensive analysis of recursive polyploidization events and cross-species genome alignments.WGDI supports three main workflows(polyploid inference,hierarchical inference of genomic homology,and ancestral chromosome karyotyping)that can improve the detection of WGD and characterization of WGD-related events based on high-quality chromosome-level genomes.Significantly,it can extract complete synteny blocks and facilitate reconstruction of detailed karyotype evolution.This toolkit is freely available at GitHub(https://github.com/SunPengChuan/wgdi).As an example of its application,WGDI convincingly clarified karyotype evolution in Aquilegia coerulea and Vitis vinifera following WGDs and rejected the hypothesis that Aquilegia contributed as a parental lineage to the allopolyploid origin of core dicots.
基金This research was partly supported by the National Natural Science Foundation of China(Grant Nos.39930160&19871003).
文摘Necessary and sufficient conditions for a maximal ancestral graph (MAnG)to be Markov equivalent to another MAnG and to a DAG are provided respectively. Also a polynomial-time algorithm for converting a MAnG into its equivalent DAG is given for the first time.
基金Supported by Xi’an Jiaotong University, NIH (Grant Nos. R01 AR050496, R21 AG 027110, R01 AG026564 and P50 AR055081)Fok Ying Tung Education Foundation and Framingham Heart Study and the Framingham SHARe Project
文摘Identification of population structure can help trace population histories and identify disease genes. Structured association (SA) is a commonly used approach for population structure identification and association mapping. A major issue with SA is that its performance greatly depends on the informa-tiveness and the numbers of ancestral informative markers (AIMs). Present major AIM selection meth-ods mostly require prior individual ancestry information, which is usually not available or uncertain in practice. To address this potential weakness, we herein develop a novel approach for AIM selection based on principle component analysis (PCA), which does not require prior ancestry information of study subjects. Our simulation and real genetic data analysis results suggest that, with equivalent AIMs, PCA-based selected AIMs can significantly increase the accuracy of inferred individual ancestries compared with traditionally randomly selected AIMs. Our method can easily be applied to whole genome data to select a set of highly informative AIMs in population structure, which can then be used to identify potential population structure and correct possible statistical biases caused by population stratification.
基金This work was supported by a grant of the Spanish Ministerio de Economía y Competitividad and FEDER CGL2013-40924-P,CGL2017-89898-R(AEI/FEDER,UE)a BiodivERsA:EC21C ERANet grant to DRV.RP was supported by an FPU predoctoral fellowship from the Spanish Ministerio de Educación.
文摘Our current understanding of how species have evolved is mainly based on comparative phylogenetic methods,which use phylogenies to infer the evolution of traits.The development of ancestral state reconstruction(ASR)methods has provided the tools to reconstruct trait evolution,which are widely used in fields like evolutionary biology,macroecology and paleontology.As there are different elements involved in those analyses,with different levels of uncertainty(i.e.relating to branch length estimation,trait coding,statistical framework,taxon sampling or software),the various combinations of these elements likely have a strong impact on the reconstruction of the evolution of traits,potentially leading to opposite conclusions.To assess the impact of these different elements in ASR,we performed a set of analyses,including all possible combinations of such elements and using the evolution of migratory behavior in Sylvia warblers as a case study,which was coded as a continuous or as a discrete character.Our results show that taxon sampling,character coding,tree shape,statistical framework and software all significantly affect ASR,both individually and in combination.Not all reconstructed tree nodes show discrepancies,but in the critical ones most pairwise comparisons between analyses lead to conflicting and unexpectedly antagonistic results(zero migration vs fully migratory),thus challenging interpretations of trait evolution.We propose some possible solutions to partly inform decisions,involving the method selection and the incorporation of biological or fossil evidence regarding how traits evolve,but our results demand serious rethinking about how the research community currently uses ASR.
文摘SHEXIAN, located in the southern foothills of Huangshan Mountain in Anhui Province, is an ancient county which was once the seat of Huizhou Prefecture. The area is also known as the birthplace of Anhui merchants. With a long history, favorable geographic position and a unique culture created mainly by those rich Anhui merchants, Shexian has retained a large number of cultural relics, especially ancient archways,
文摘The stone archway in the style of the Ming Dynasty also has more than 400 years of history. Located by a busy street, the old and new buildings of the ancient county set each other off radiantly.
文摘After more than 30 years of scientific and social development, surveying and mapping technology by leaps and bounds, engineering surveying technology has undergone tremendous changes. In the process of protecting ancient buildings, it is necessary to obtain the precise dimensions of architectural details. In this study, the path of 3D laser scanning combined with BIM technology is explored. Taking the observation and protection of the ancestral hall of the Liu family as an example, this study aims to draw drawings that reflect the relevant information about the ancient buildings, the accurate three-dimensional model of ancient buildings is established with BIM technology, which provides new methods and ideas for the research and protection of ancient buildings. .
基金The authors acknowledge to the Consejo Nacional de Ciencia y Tecnologia(Mexico)for its support to Luis Fernando Cuellar-Garrido with the master's degree scholarship 615539。
文摘Two varieties of Bouteloua aristidoides have been recognized,the widespread var.aristidoides and the more narrowly distributed var.arizonica.The two varieties differ in inflorescence form even more than that seen between many other closely related species of Bouteloua.We therefore asked whether these taxa might be better regarded as distinct species.A total of 93 vouchers were studied by using morphometry(principal components analysis and statistical tests),leaf micromorphology,ancestral state reconstruction,and/or molecular(ITS,trnC-rpoB and trnT-L-F)phylogenetic analyses.Except from the ITS tree,all results supported elevation of B.aristidoides var.arizonica to the rank of species,thus the new combination Bouteloua arizonica(M.E.Jones)L.F.Cuellar&Columbus comb.nov.et stat.nov.,is proposed.Chloroplast and combined chloroplast-nuclear molecular trees depicted var.arizonica as monophyletic(even in sympatric populations with var.aristidoides)and reveals phylogenetic structure within var.aristidoides for which the presence of new undescribed varieties of B.aristidoides(different from B.arizonica)is addressed.B.arizonica differs from B.aristidoides in having fewer branches per inflorescence,a bigger branch with more spikelets,and a shorter branch extension.Scanning electron microscopy revealed the presence of papillae on leaves of B.arizonica as a clear synapomorphy.Growing mature plants of B.arizonica from seeds in a greenhouse revealed a strong cleistogamous nature for this species for which gene flow in sympatric populations with B.aristidoides seems unlikely.A taxonomic treatment and distribution map for identification of B.arizonica is provided.
基金National Science and Technology Major Project(No.2018ZX10101004)X.R.was supported by the National Natural Science Foundation of China(No.31800320)+1 种基金the Joint Fund of the Natural Science Foundation of Hainan Province(No.320RC506)the Scientific Research start-up Fund of Hainan University(No.KYQD(ZR)20057).
文摘Species in Galliformes have elaborate ritual courtship displays,often including strutting,fluffing of tail or head feathers,and vocal sounds that serve as excellent examples of sexual selection.According to the male orientation to the female while either posturing or moving,these courtship displays of gallinaceous species can be classified into three categories:1)‘frontal displays’,2)‘lateral displays’,and 3)‘both frontal and lateral displays’.Questions regarding which category of displays is the ancestral state and the evolutionary history of courtship displays in Galliformes remain unanswered.We collected and classified 131 species in terms of their courtship displays into the three categories listed above and carried out a large-scale comparative analysis to reveal the evolutionary trajectory of this trait.We found that the ancestral state of courtship displays of Galliformes involves both relatively short and straightforward frontal and lateral elements(i.e.,the category of‘both frontal and lateral displays’).Furthermore,ancestral trait reconstructions suggest that transitions from‘lateral displays’to‘frontal displays’occurred more frequently than the other way around(i.e.,from‘frontal displays’to‘lateral displays’).In addition,some transitions occurred from‘both frontal and lateral displays’to‘lateral displays’but not from‘both frontal and lateral displays’to‘frontal displays’.Ancestral state reconstruction of courtship displays at the root of the Galliformes phylogeny supports the‘both frontal and lateral displays’first scenario.This original state then evolved towards two extremes,either‘frontal displays’or‘lateral displays’,with more complicated and elaborate display components.Moreover,subsequent transitions occurred from‘lateral displays’to‘frontal displays’much more frequently than the other way around during the evolutionary history,indicating positive selection of‘frontal displays’.
文摘Background: This paper describes the chick plumage of spurfowl(Pternistis) and francolin(Francolinus, Dendroperdix Peliperdix and Scleroptila) chicks, tests its significance for phylogenetic relationships and also explores the patterns of character evolution in the francolin and spurfowl lineages.Previously regarded as monophyletic, the two evolutionar?ily distant clades are now divided into five genera.Questions considered were whether chick plumage supports the dichotomy between spurfowls and francolins and what role habitat matching plays.Methods: The study was based mainly on photographs of chick skins from the American Museum of Natural History and the Natural History Museum at Tring.Eight plumage characters were selected for comparative scoring, summa?rised in a matrix.These characters were subsequently analysed phylogenetically and their evolution was traced on the existing molecular phylogeny using a parsimony approach.Results: Based on chick plumage the phylogeny of species groups among francolins and spurfowls, was largely unresolved possibly ascribed to a high degree of symplesiomorphy inherent among the Phasianids.This possibly could have resulted in a high degree of polytomy particularly among the spurfowls and francolins.Furthermore, the ancestral state reconstructions revealed high prevalence of symplesiomorphic states and reversals which do not help in the classification of groups.Although the differences are described that separate some African francolins from spurfowls, other francolins(in Asia and Africa) share remarkably similar characteristics with spurfowls.Plain dark dorsal plumage is probably advantageous for avoiding detection by predators in forests, while facial stripes optimise the breaking of body shapes in dense grass cover(as in Scleroptila spp.) and semi?striped faces are advantageous for stationary camouflage under tree and bush cover(as in Pternistis spp.).Conclusions: Although symplesiomorphy is a hereditary explanation for downy colours and patterns, the traits rel?evant for habitat matching are combined in a manner which is determined(adaptation) by natural selection.
基金financially supported by the grant agency of the University of South Bohemia (04-048/2019/P)
文摘Background:The behavioural repertoire of every species evolved over time and its evolution can be traced through the phylogenetic relationships in distinct groups.Cranes(family Gruidae)represent a small,old,monophyletic group with well-corroborated phylogenetic relationships on the species level,and at the same time they exhibit a complex and well-described behavioural repertoire.Methods:We therefore investigated the evolution of behavioural traits of cranes in a phylogenetic context using several phylogenetic approaches and two types of trait scoring.The cranes exhibit more than a hundred behavioural displays,almost one third of which may be phylogenetically informative.Results:More than half of the analysed traits carry a significant phylogenetic signal.The ancestor of cranes already exhibited a quite complex behavioural repertoire,which remained unchanged in Balearicinae but altered greatly in Gruinae,specifically by the shedding of traits rather than their creation.Trait scoring has an influence on results within the Gruinae,primarily in genera Bugeranus and Anthropoides.Conclusions:Albeit the behavioural traits alone cannot be used for resolving species-level relationships within the Gruidae,when optimized on molecular tree,they can help us to detect interesting evolutionary transformations of behaviour repertoire within Gruiformes.The Limpkin(Aramus guarauna)seems to be the most enigmatic species and should be studied in detail for its behavioural repertoire,which may include some precursors of crane behavioural traits.
文摘Demographic changes during the late Pleistocene-Holocene left signatures in the DNA of contemporary populations. These signatures reveal demographic phenomena like the increase or decrease in effective population size. In this paper we searched for signatures of demographic change in the DNA of the Neotropical freshwater fish Poecilia vivipara. Also, we investigated whether demographic changes are correlated with palaeoclimatic events of the late Pleistocene-Holocene, in particular, if changes in effective population size are correlated with expansion and contraction of available habitats, induced by global ice-volume changes and sea-level fluctuations. We used Bayesian Skyline Plot (BSP) analysis with sequences from the mitochondrial gene cytochrome b to estimate the ancestral demography of the Neotropical freshwater fish P. vivipara. To test the assumptions of neutrality and absence of population structure we used Tajima’s D and Spatial Analysis of Molecular Variance (SAMOVA), respectively. Effective population size of P. vivipara remained stable until 75,000 years ago, increased by 10-fold reaching a maximum at approximately 25,000 years ago, then suddenly declined at the Pleistocene-Holocene boundary. Variation in effective population size in P. vivipara correlates with expansion and contraction of habitats induced by sea-level fluctuations, caused by the advance and retreat of ice sheets during the Last Glacial Maximum (LGM).
