Traditional villages represent a concentrated expression of the preservation and transmission of traditional culture within the context of rural revitalization,conveying important social,historical,and cultural values...Traditional villages represent a concentrated expression of the preservation and transmission of traditional culture within the context of rural revitalization,conveying important social,historical,and cultural values.Based on the perspective of spatial genes,this study selected 67 typical traditional villages in the Wuling Mountain Area in Southwest China as the case study.Between 2021 and 2024,by identifying and extracting spatial genes through the semi-structured interviews,Laddering Technique,and Landscape Pattern Index,and applying the geo-detector,the study explored the morphological characteristics and influencing mechanisms of traditional Tujia villages from the perspective of spatial genes of ecological-production-living.The findings are as follows:1)the spatial genes of traditional Tujia villages in the Wuling Mountain Area exhibit distinct patterns.Ecological genes,categorized by natural environment and layout,demonstrate a transition from clustered to dispersed patterns from the southern to northern regions.Production genes,categorized by location and cultivation patterns,show concentrated agricultural lands in the south and fragmented in the north.Living genes,divided into house plans,facades,and public buildings,reveal a higher prevalence of courtyards,stilted houses,and public buildings in northern areas.2)The spatial genes have evolved through the combined influence of four key factors:natural environment,socioeconomic development,policy systems,and ethnic culture.3)The integration of multi-source data and the application of both qualitative and quantitative approaches provide a comprehensive framework for analyzing traditional village form and their influencing mechanisms.This methodology offers valuable insights for developing sustainable strategies for the conservation of traditional Tujia traditional villages in this region.展开更多
Recent advancements in spatial transcriptomics(ST)technologies allow researchers to simultaneously measure RNA expression levels for hundreds to thousands of genes while preserving spatial information within tissues,p...Recent advancements in spatial transcriptomics(ST)technologies allow researchers to simultaneously measure RNA expression levels for hundreds to thousands of genes while preserving spatial information within tissues,providing critical insights into spatial gene expression patterns,tissue organization,and gene functionality.However,existing methods for clustering spatially variable genes(SVGs)into co-expression modules often fail to detect rare or unique spatial expression patterns.To address this,we present spatial transcriptomics iterative hierarchical clustering(stIHC),a novel method for clustering SVGs into co-expression modules,representing groups of genes with shared spatial expression patterns.Through three simulations and applications to ST datasets from technologies such as 10x Visium,10x Xenium,and Spatial Transcriptomics,stIHC outperforms clustering approaches used by popular SVG detection methods,including SPARK,SPARK-X,MERINGUE,and SpatialDE.Gene ontology enrichment analysis confirms that genes within each module share consistent biological functions,supporting the functional relevance of spatial co-expression.Robust across technologies with varying gene numbers and spatial resolution,stIHC provides a powerful tool for decoding the spatial organization of gene expression and the functional structure of complex tissues.展开更多
Folk song as a representative of traditional Chinese folk culture is the expression of landscape culture in a certain regional space.According to landscape gene theory,gene structure of folk song cultural landscape wa...Folk song as a representative of traditional Chinese folk culture is the expression of landscape culture in a certain regional space.According to landscape gene theory,gene structure of folk song cultural landscape was recognized from two dimensions:subject form and cultural environment,and quantitative data were combined to analyze spatial distribution features of folk song cultural landscape genes.According to the analysis,in terms of style,work song is mainly distributed on plains,mountain song is distributed in mountainous areas,and ditty in the eastern watershed of the Yangtze River,in terms of theme,work and production folk songs are mainly distributed in eastern regions with intensive farming,while love and marriage folk songs in regions far away from the Central Plain Culture.Folk song cultural landscape is a result of the interaction between man and geographical conditions,residents in different geographical environments have different perception spaces to create folk songs with regional cultural symbols.展开更多
From Tetrahymena thermophila （strain BF5）, the coding region of Cd-MT gene was cloned and sequenced. and identified as MTT1 isoform. A serial duplicate structure is discovered in its amino acid sequence, which separ...From Tetrahymena thermophila （strain BF5）, the coding region of Cd-MT gene was cloned and sequenced. and identified as MTT1 isoform. A serial duplicate structure is discovered in its amino acid sequence, which separates the coding region into three parts （Part 1：7-61; Part 2：64-118; Part 3：122-162）. The alignments among them and comparison with the corresponding parts of MT1 isoform suggest that MT1 and MTT1 isoforms both come from the same ancient gene that is homologous to Part 1, and Cd-MTs of Tetrahymena are aroused by such ancient gene duplication. The prediction of secondary structures and the analysis of the disulfide-bonding state of cysteine show that there are a lot of differences between MT1 and MTT1 isoforms, which maybe relate to their function mechanism.展开更多
基金Under the auspices of Natural Science Foundation General Project of Hainan Province(No.722MS066)Chongqing Municipal Education Science Planning Project(No.K25ZZ2070096)。
文摘Traditional villages represent a concentrated expression of the preservation and transmission of traditional culture within the context of rural revitalization,conveying important social,historical,and cultural values.Based on the perspective of spatial genes,this study selected 67 typical traditional villages in the Wuling Mountain Area in Southwest China as the case study.Between 2021 and 2024,by identifying and extracting spatial genes through the semi-structured interviews,Laddering Technique,and Landscape Pattern Index,and applying the geo-detector,the study explored the morphological characteristics and influencing mechanisms of traditional Tujia villages from the perspective of spatial genes of ecological-production-living.The findings are as follows:1)the spatial genes of traditional Tujia villages in the Wuling Mountain Area exhibit distinct patterns.Ecological genes,categorized by natural environment and layout,demonstrate a transition from clustered to dispersed patterns from the southern to northern regions.Production genes,categorized by location and cultivation patterns,show concentrated agricultural lands in the south and fragmented in the north.Living genes,divided into house plans,facades,and public buildings,reveal a higher prevalence of courtyards,stilted houses,and public buildings in northern areas.2)The spatial genes have evolved through the combined influence of four key factors:natural environment,socioeconomic development,policy systems,and ethnic culture.3)The integration of multi-source data and the application of both qualitative and quantitative approaches provide a comprehensive framework for analyzing traditional village form and their influencing mechanisms.This methodology offers valuable insights for developing sustainable strategies for the conservation of traditional Tujia traditional villages in this region.
基金Science Foundation Ireland,Grant/Award Numbers:18/CRT/6214,18/CRT/6214(S4)。
文摘Recent advancements in spatial transcriptomics(ST)technologies allow researchers to simultaneously measure RNA expression levels for hundreds to thousands of genes while preserving spatial information within tissues,providing critical insights into spatial gene expression patterns,tissue organization,and gene functionality.However,existing methods for clustering spatially variable genes(SVGs)into co-expression modules often fail to detect rare or unique spatial expression patterns.To address this,we present spatial transcriptomics iterative hierarchical clustering(stIHC),a novel method for clustering SVGs into co-expression modules,representing groups of genes with shared spatial expression patterns.Through three simulations and applications to ST datasets from technologies such as 10x Visium,10x Xenium,and Spatial Transcriptomics,stIHC outperforms clustering approaches used by popular SVG detection methods,including SPARK,SPARK-X,MERINGUE,and SpatialDE.Gene ontology enrichment analysis confirms that genes within each module share consistent biological functions,supporting the functional relevance of spatial co-expression.Robust across technologies with varying gene numbers and spatial resolution,stIHC provides a powerful tool for decoding the spatial organization of gene expression and the functional structure of complex tissues.
基金Sponsored by Anhui Provincial Tounsm Administration(SLYJKT201509/SLYJKT201504)Youth Fund for Humanistic and Social Sciences Programs of the Ministry of Education(15YJC790018)
文摘Folk song as a representative of traditional Chinese folk culture is the expression of landscape culture in a certain regional space.According to landscape gene theory,gene structure of folk song cultural landscape was recognized from two dimensions:subject form and cultural environment,and quantitative data were combined to analyze spatial distribution features of folk song cultural landscape genes.According to the analysis,in terms of style,work song is mainly distributed on plains,mountain song is distributed in mountainous areas,and ditty in the eastern watershed of the Yangtze River,in terms of theme,work and production folk songs are mainly distributed in eastern regions with intensive farming,while love and marriage folk songs in regions far away from the Central Plain Culture.Folk song cultural landscape is a result of the interaction between man and geographical conditions,residents in different geographical environments have different perception spaces to create folk songs with regional cultural symbols.
文摘From Tetrahymena thermophila （strain BF5）, the coding region of Cd-MT gene was cloned and sequenced. and identified as MTT1 isoform. A serial duplicate structure is discovered in its amino acid sequence, which separates the coding region into three parts （Part 1：7-61; Part 2：64-118; Part 3：122-162）. The alignments among them and comparison with the corresponding parts of MT1 isoform suggest that MT1 and MTT1 isoforms both come from the same ancient gene that is homologous to Part 1, and Cd-MTs of Tetrahymena are aroused by such ancient gene duplication. The prediction of secondary structures and the analysis of the disulfide-bonding state of cysteine show that there are a lot of differences between MT1 and MTT1 isoforms, which maybe relate to their function mechanism.
