Aiming at the industry cyber-physical system(ICPS)where Denial-of-Service(DoS)attacks and actuator failure coexist,the integrated security control problem of ICPS under multi-objective constraints was studied.First,fr...Aiming at the industry cyber-physical system(ICPS)where Denial-of-Service(DoS)attacks and actuator failure coexist,the integrated security control problem of ICPS under multi-objective constraints was studied.First,from the perspective of the defender,according to the differential impact of the system under DoS attacks of different energies,the DoS attacks energy grading detection standard was formulated,and the ICPS comprehensive security control framework was constructed.Secondly,a security transmission strategy based on event triggering was designed.Under the DoS attack energy classification detection mechanism,for large-energy attacks,the method based on time series analysis was considered to predict and compensate for lost data.Therefore,on the basis of passive and elastic response to small energy attacks,the active defense capability against DoS attacks was increased.Then by introducing the conecomplement linearization algorithm,the calculation methods of the state and fault estimation observer and the integrated safety controller were deduced,the goal of DoS attack active and passive hybrid intrusion tolerance and actuator failure active fault tolerance were realized.Finally,a simulation example of a four-capacity water tank system was given to verify the validity of the obtained conclusions.展开更多
To improve the performance of Saitou and Nei's algorithm (SN) and Studier and Keppler's improved algorithm (SK) for constructing neighbor-joining phylogenetic trees and reduce the time complexity of the computat...To improve the performance of Saitou and Nei's algorithm (SN) and Studier and Keppler's improved algorithm (SK) for constructing neighbor-joining phylogenetic trees and reduce the time complexity of the computation, a fast algorithm is proposed. The proposed algorithm includes three techniques. First, a linear array A[N] is introduced to store the sum of every row of the distance matrix (the same as SK), which can eliminate many repeated computations. Secondly, the value of A [i] is computed only once at the beginning of the algorithm, and is updated by three elements in the iteration. Thirdly, a very compact formula for the sum of all the branch lengths of operational taxonomic units (OTUs) i and j is designed, and the correctness of the formula is proved. The experimental results show that the proposed algorithm is from tens to hundreds times faster than SN and roughly two times faster than SK when N increases, constructing a tree with 2 000 OTUs in 3 min on a current desktop computer. To earn the time with the cost of the space and reduce the computations in the innermost loop are the basic solutions for algorithms with many loops.展开更多
According to conventional theory, little genomic changes should occur in homozygous and stable amphiploids of the grass family, particularly those involving polyploid wheat as a parent. In the present study, however, ...According to conventional theory, little genomic changes should occur in homozygous and stable amphiploids of the grass family, particularly those involving polyploid wheat as a parent. In the present study, however, extensive genomic changes were detected in two octoploid partial amphiploids of common wheat (Triticum aestivum L.)_wheatgrass (Agropyron intermedium (Host) P.B.=Elytrigia intermedia (Host) Nevski=Thinopyrum intermedium (Host) Barkworth and Dewey), namely Zhong 3 and Zhong 5, by RFLP analysis using 10 low_copy, wheat chromosome_specific sequences and 33 representative homoeologous group_specific sequences as probes. Genomic changes involved loss of wheat hybridization fragment(s) and/or acquisition of new fragment(s). Uniformity of the RFLP patterns among 5 individual plants taken respectively from Zhong 3 and Zhong 5 in two successive generations, suggested that genomic changes probably had occurred in the early few generations after octoploid amphiploid formation, and remained essentially static thereafter. The highly similar RFLP patterns between Zhong 3 and Zhong 5, which had identical genomic constitution but differed from each other due to involvement of different wheat varieties as parents imply that genomic changes were probably not at random. Possible causes for the extensive and rapid genomic changes in the newly formed plant amphiploids, as well as their implications for polyploid genome evolution and breeding application are discussed.展开更多
Recent work revealed that, in the genomes of polyploid wheat, there exists a class of low_copy and chromosome_specific sequences that are labile upon polyploid formation. This class of sequences was proposed to play ...Recent work revealed that, in the genomes of polyploid wheat, there exists a class of low_copy and chromosome_specific sequences that are labile upon polyploid formation. This class of sequences was proposed to play a critical role in the stabilization and establishment of nascent plant polyploids as new species. To further study this issue, five wheat chromosome 7B_specific sequences, isolated from common wheat (Triticum aestivum L.) by chromosome microdissection, were characterized. The sequences were studied by genomic Southern hybridizations on a collection of polyploid wheats and their diploid progenitors. Four sequences hybridized to all polyploid species, but at the diploid level to only species closely related to the B_genome of polyploid wheat. This indicates that these sequences originated with the divergence of the diploid species, and was then vertically transmitted to polyploids. One sequence hybridized to all species at both the diploid and polyploid levels, suggesting its elimination after the polyploid wheat formation. The hybridization of this sequence to two synthetic polyploid wheats indicated that sequence elimination is a rapid event and probably related to methylation status of the sequence. Based on the above results, we suggest that selective changes of low_copy sequences occur rapidly after polyploid formation, which may contribute to the differentiation of chromosomes in newly formed allopolyploid wheats.展开更多
[Objective] The study aimed at analyzing Genetic Differentiation of Cervinae. [Method] The complete mitochondrial DNA control region of five species of Cervinae was determined by direct DNA sequencing. Homologous sequ...[Objective] The study aimed at analyzing Genetic Differentiation of Cervinae. [Method] The complete mitochondrial DNA control region of five species of Cervinae was determined by direct DNA sequencing. Homologous sequences of others Cervinae were gained from GenBank, and then analyzed through biology software. [Result] The lengths of their control region were 921-1 072 bp, the nucleotide content of T, A, C, and G was 32.1%, 30.2%, 22.7% and 15.0% separately. Genetic distance of each species ranged from 0.062-0.106, which belonged to level of inter-genus. The molecular phylogenetic tree indicated that red deer, skia deer and White-lipped Deer had close relationship, and they constituted one branch with sambar deer. Eld's deer and elk deer constituted the second branch, and hog deer constituted the third branch alone. [Conclusion] Hog deer and fallow deer should be incorporated in Cervus, divergence time is about 1.55-2.60 million years among Cervinae in China.展开更多
[Objective] The aim of this study was to analyze the sequence characteristics and molecular evolution of ubiquitins encoded by baculoviruses.[Methods]Clustal W software was used for multiple sequence alignment analysi...[Objective] The aim of this study was to analyze the sequence characteristics and molecular evolution of ubiquitins encoded by baculoviruses.[Methods]Clustal W software was used for multiple sequence alignment analysis,and neighbor-joining method(NJ)and maximum parsimony method(MP)were used for the construction of phylogenetic tree.[Results]The baculoviral ubiquitins showed 73%-86% sequence identity to eukaryotic ubiquitin.Two heterogeneous regions of baculoviral ubiquitins were observed:one was the residues from 15-32,the other was located from residues 53 to 60.The else parts were conserved,where many functional amino acids were also observed.Phylogenetic analysis indicated that baculoviral ubiquitins could be divided into three sub-families,including sub-family GV,sub-family I and sub-family II.The molecular evolution of baculoviral ubiquitins might be under negative selection to maintain their functional and structural stability.[Conclusion]The analysis had provided reference for the researches on functional characterization of baculoviral ubiquitins.展开更多
Segmental duplications on rice (Oryza sativa L.) chromosomes 8, 9, 11, and 12 were studied by examining the distributions of sequences resolved by 13 probes detecting multiple copies of DNA sequences. Four of the hyb...Segmental duplications on rice (Oryza sativa L.) chromosomes 8, 9, 11, and 12 were studied by examining the distributions of sequences resolved by 13 probes detecting multiple copies of DNA sequences. Four of the hybridization bands detected by a repetitive sequence probe, rTRS, were mapped to the ends of all the four chromosomes. Two or three of the bands detected by each of the other 12 probes were also mapped to different chromosomes. The bands detected by the same probe usually occurred in similar locations of different chromosomes. Loci detected by different DNA probes were often similarly arranged on different chromosomes. Chromosomes 8 and 9 showed colinearity of marker loci arrangement indicating a possible common origin. A segment on chromosome 9 was also very similar to the previously reported duplicated fragments on the ends of chromosomes 11 and 12 which were also detected in this study, indicating a likely common origin. Moreover, the various degrees of distributional similarity of the segments suggest a complex relationship among the chromosomes in the evolution of the rice genome. These results support the proposition that chromosome duplication and diversification may be a mechanism for the origin and evolution of the chromosomes in the rice genome.展开更多
Phylogenetic relationships of 11 bumblebee species,including 5 subgenera:Bombus (5 species),Thoracobombus (3 species),Mendacibombus (1 species),Fervidobombus (1 species) and Pyrobombus (1 species),were analyzed based ...Phylogenetic relationships of 11 bumblebee species,including 5 subgenera:Bombus (5 species),Thoracobombus (3 species),Mendacibombus (1 species),Fervidobombus (1 species) and Pyrobombus (1 species),were analyzed based on the 357?bp mitochondrial cytochrome b gene sequences.There are 65 singleton polymorphic sites and 71 parsimony informative polymorphic sites in this DNA segment,and 45 polymorphic sites within the total 119 translated amino acids segment.Both NJ tree and MP tree show that Mendacibombus (B.avinovielllus) is basal to others,followed by Fervidobombus (B.pensylvanicus);Pyrobombus (B.impatiens) and Bombus are sister subgenera;the subgenus of Bombus is monophyletic,in which B.ignitus diverged first.展开更多
[Objective] This study aimed to develop ACGM markers for the clustering analysis of large grained Brassica napus materials. [Method] A total of 44 pairs of ACGM primers were designed according to 18 genes related to A...[Objective] This study aimed to develop ACGM markers for the clustering analysis of large grained Brassica napus materials. [Method] A total of 44 pairs of ACGM primers were designed according to 18 genes related to Arabidopsis grain development and their homologous rape EST sequences. After electrophoresis, 18 pairs of ACGM primers were selected for the clustering analysis of 16 larger grained samples and four fine grained samples of rapeseed. [Result] PCR result showed that 2-6 specific bands were respectively amplified by each pair of primes, and all the bands were polymorphic and repeatable, suggesting that the optimized ACGM markers were useful for clustering analysis of B. napus species. Clustering analysis revealed that the 20 rapeseed samples were divided into three clusters A, B, and C at similarity coefficient 0.6. Then, the clusters A and B were further divided into five sub clusters A1, A2, A3, B1 and B2 at similarity coefficient 0.67. [Conclusion] This study will provide theoretical and practical values for rape breeding.展开更多
Actin depolymerizing factor (ADF), highly conserved in all eukaryotic cells, is a low molecular mass of actin-binding protein, which plays a key role in modulating the polymerizing and depolymerizing of the actin fi...Actin depolymerizing factor (ADF), highly conserved in all eukaryotic cells, is a low molecular mass of actin-binding protein, which plays a key role in modulating the polymerizing and depolymerizing of the actin filaments. Four cDNAs (designated GhADF2, GhADF3, GhADF4, and GhADF5, respectively) encoding ADF proteins were isolated from cotton (Gossypium hirsutum) fiber cDNA library. GhADF2 cDNA is 705 bp in length and deduces a protein with 139 amino acids. GhADF3 cDNA is 819 bp in length and encodes a protein of 139 amino acids. GhADF4 cDNA is 804 bp in length and deduces a protein with 143 amino acids. GhADF5 cDNA is 644 bp in length and encodes a protein of 141 amino acids. The molecular evolutionary relationship of these genes was analyzed by means of bioinformatics. GhADF2 is closely related to GhADF3 (99% identity) and PetADF2 (89% identity). GhADF4 is closely related to AtADF6 (78% identity), and GhADF5 is closely related to AtADF5 (83% identity). These results demonstrated that the plant ADF genes are highly conserved in structure. RT-PCR analysis showed that GhADF2 is predominantly expressed in fiber, whereas, GhADF5 is mainly expressed in cotyledons. On the other hand, it seems that GhADF3 and GhADF4 have no tissue specificity. Expression levels of different ADF genes may vary considerably in the same cell type, suggesting that they might be involved in regulating tissue development of cotton and the each ADF isoform may diverge to form the functional difference from the other ADFs during evolution.展开更多
Comparisons of red ratings (RR) with Fe_d, Fe_d/Fet, clay content, andmagnetic susceptibility (x) of two loess-paleosol sequences at Luochuan and Lingtai on China's LoessPlateau were conducted to study the possibl...Comparisons of red ratings (RR) with Fe_d, Fe_d/Fet, clay content, andmagnetic susceptibility (x) of two loess-paleosol sequences at Luochuan and Lingtai on China's LoessPlateau were conducted to study the possible relationship between RR and pedogenic degrees of thetwo loess-paleosol sequences, and to discuss whether the RR could become new paleo-climaticindicators. Results showed that the RR of the two loess-paleosol sequences had positive, highlysignificant (P < 0.01) correlations with: 1) citrate-bicarbonate-dithionite (CBD) extracted iron(Fe_d), 2) ratios of CBD extracted iron to total iron (Fe_d/Fet), 3) clay (< 2 mum), and 4) magneticsusceptibility (x). This suggested that the RR of these loess-paleosol sequences could indicatedegreesof loess weathering and pedogenesis and were potential paleo-climatic proxies. The strongcorrelations of RR to Fe_d and x also implied that during pedogenic processes, pedogenic hematite inloess and paleosols were closely related to the amount of total secondary iron oxides and pedogenicferrimagnetic minerals (predominantly maghemite).展开更多
Multi-temporal series of satellite SPOT-VEGETATION normalized difference vegetation index (NDVI) and normalized difference water index (NDWI) data from 1998 to 2007 were used for analyzing vegetation change of the eco...Multi-temporal series of satellite SPOT-VEGETATION normalized difference vegetation index (NDVI) and normalized difference water index (NDWI) data from 1998 to 2007 were used for analyzing vegetation change of the ecotone in the west of the Northeast China Plain. The yearly and monthly maximal values,anomalies and change rates of NDVI and NDWI were calculated to reveal the interannual and seasonal changes in vegetation cover and vegetation water content. Linear regression method was adopted to characterize the trends in vegetation change. The yearly maximal NDVI decreased from 0.41 in 1998 to 0.37 in 2007,implying the decreasing trend of vegetation activity. There was a significant decrease of maximal NDVI in spring and summer over the study period,while an increase trend was observed in autumn. The vegetation-improved regions and vegetation-degraded regions occupied 17.03% and 20.30% of the study area,respectively. The maximal NDWI over growing season dropped by 0.027 in 1998–2007,and about 15.15% of the study area showed a decreasing trend of water content. Vegetation water stress in autumn was better than that in spring. Vegetation cover and water content variations were sensitive to annual precipitation,autumn precipitation and summer temperature. The vegetation degradation trend in this ecotone might be induced by the warm-drying climate especially continuous spring and summer drought in the recent ten years.展开更多
AIM: To investigate the effect of Qinggan Huoxuefang (QGHXF) on improvement of liver function and pathology in rats, and to analyze the mechanism. METHODS: Wistar rats were divided into three groups at random: no...AIM: To investigate the effect of Qinggan Huoxuefang (QGHXF) on improvement of liver function and pathology in rats, and to analyze the mechanism. METHODS: Wistar rats were divided into three groups at random: normal control group (12), micro-amount carbon tetrachlodde group (CCh)(12) and model group A (60). The model group A was ingested with the mixture (500 mL/L alcohol, 8 mL/kg per day; corn oil, 2 mL/kg per day; pyrazole, 24 mg/kg per day) once a day and intraperitoneal injections of 0.25 mL/kg of a 250 mL/L solution of CCh in olive oil twice a week for 12 wk. The CCh group received intraperitoneal injections only. At the end of 8 wk the model group A (60) was divided into 5 subgroups: model group, Xiaochaihu Chongji (XCH) group, QGHXF high dose group, moderate dose group and low dose group, and were given the drugs respectively. At the end of 12 wk, all the rats were killed and blood samples collected, as well as liver tissue. Blood samples were used for evaluation of alanine transaminase (ALT), aspartate aminotransferase (AST), alkaline phosphatase (ALP), gamma-glutamyltransferase (y-GT). Liver specimens were obtained for routine HE, apoptosis gene array and flow cytometry analysis. RESULTS: A liver fibrosis animal model was successfully established. Fibrosis was obviously reduced in QGHXF high dose group, and no fibrosis formed in CCh group. Compared with model group the QGHXF group and XCH group could obviously decrease the level of ALT, AST, ALP, and GGT (P〈0.05). QGHXF high dose group was better than XCH group in ALT (615± 190 vs 867± 115),and AST(1972 ± 366 vs 2777 ± 608). Moreover, QGHXF could reduce liver inflammation, fibrosis-induced hepatic stellate cell (HSC) apoptosis and regulate apoptosis gene expression. The HSC apoptosis rates of QGHXF groups were 22.4±3.13, 13.79±2.26 and 10.07± 1.14, higher than model group, 6.58±1.04 (P〈 0.05). Compared to model group, 39 genes were up-regulated, 11 solely expressed and 17 down-regulated in high dose group. CONCLUSION: QGHXF can improve liver fibrosis and induce HSC apoptosis.展开更多
Cathepsin D (CTSD) is a lysosomal acidic endoproteinase that plays an important role in immune response, In this study, we obtained sweetfish (Plecoglossus altivelis) CTSD (PaCTSD) via de-novo transcriptome sequ...Cathepsin D (CTSD) is a lysosomal acidic endoproteinase that plays an important role in immune response, In this study, we obtained sweetfish (Plecoglossus altivelis) CTSD (PaCTSD) via de-novo transcriptome sequencing of sweetfish macrophages. The full length cDNA sequence of PaCTSD was 1955 bp encoding a propeptide of 397 amino acids. The deduced protein had a calculated molecular weight of 43.17x 103. Multiple alignment with other known CTSD amino acid sequences revealed amino acid conservation through the teleosts. Phylogenetic tree analysis showed that PaCTSD grouped tightly with other fish CTSD, and was close to that of Atlantic salmon and rainbow trout. Subsequently, PaCTSD was prokaryotically expressed and refolded by the urea gradient method on a nickel-nitrilotriacetic acid column. Enzyme activity analysis showed that PaCTSD exhibited pH-dependent proteolytic activity. Quantitative real-time PCR showed that PaCTSD mRNA was expressed in all detected tissues in healthy sweetfish. The highest expression was observed in the spleen and white blood cells, followed by liver, head-kidney, kidney, intestine, gill, and muscle. After Listonella anguillarum infection, PaCTSD transcripts were up-regulated significantly in liver, spleen, white blood cells, and head-kidney of sweetfish. In summary, PaCTSD has proteolytic activity and is closely involved in the immune response of sweetfish.展开更多
Temperature change plays a crucial role in global change sciences. In the past several decades, comprehensive find- ings have been achieved on temperature change in China for the past 100 years. Several time series ha...Temperature change plays a crucial role in global change sciences. In the past several decades, comprehensive find- ings have been achieved on temperature change in China for the past 100 years. Several time series have been created to illustrate the averaged surface air temperature for the country. The correlations of these series range from 0.73 to 0.97. It is also achieved in better data quality, wider spatial data coverage, improved homogeneity of time series, and enhanced reliability of findings. The results show an annual mean temperature increase by 0.78±0.27℃ per 100 years in China for the period 1906-2005. After prolonging the period till 2007, it is found that 2007 is rated as the warmest year in the past 100 years. Although all the series, except one, reflect temperature changes in the eastern part of China before the 1930s, they represent the general temperature change in most parts of the country after the 1930s.展开更多
A heat center (HC) of the western Pacific warm pool (WPWP) is defined, its variability is examined, and a possible mechanism is discussed. Analysis and calculation of a temperature dataset from 1945-2006 show that...A heat center (HC) of the western Pacific warm pool (WPWP) is defined, its variability is examined, and a possible mechanism is discussed. Analysis and calculation of a temperature dataset from 1945-2006 show that the mean position of the HC during this period was near 0.4°S/169.0°E, at 38.0 m depth. From a time series of the HC, remarkable seasonal variability was found, mainly in the meridional and vertical directions. Interannual variabilities were dominant in the zonal and vertical directions. In addition, semiannual variation in the HC depth was discovered. The longitude of the HC varies with ENSO events, and its latitude is weakly related to ENSO on time scales shorter than a decade. The variation of the HC longitude leads the Nifio-3 index by about 3-4 months, and its depth lags the index for approximately 3 months. It is concluded that the HC depth results from a combination of its longitudinal and latitudinal variations. Low-pass-filtered time series reveal that the HC has moved eastward since the mid 1980s.展开更多
Weight matrix models for signal sequence motif are simple. A main limitation of the models is the assumption of independence between positions. Signal enhancement is achieved by taking the total likelihood as the obje...Weight matrix models for signal sequence motif are simple. A main limitation of the models is the assumption of independence between positions. Signal enhancement is achieved by taking the total likelihood as the objective function for maximization to cluster sequences into groups with different patterns. As an example, the initial and terminal signals for translation in rice genome are examined.展开更多
基金supported by Gansu Higher Education Innovation Fund Project(No.2023B-439)。
文摘Aiming at the industry cyber-physical system(ICPS)where Denial-of-Service(DoS)attacks and actuator failure coexist,the integrated security control problem of ICPS under multi-objective constraints was studied.First,from the perspective of the defender,according to the differential impact of the system under DoS attacks of different energies,the DoS attacks energy grading detection standard was formulated,and the ICPS comprehensive security control framework was constructed.Secondly,a security transmission strategy based on event triggering was designed.Under the DoS attack energy classification detection mechanism,for large-energy attacks,the method based on time series analysis was considered to predict and compensate for lost data.Therefore,on the basis of passive and elastic response to small energy attacks,the active defense capability against DoS attacks was increased.Then by introducing the conecomplement linearization algorithm,the calculation methods of the state and fault estimation observer and the integrated safety controller were deduced,the goal of DoS attack active and passive hybrid intrusion tolerance and actuator failure active fault tolerance were realized.Finally,a simulation example of a four-capacity water tank system was given to verify the validity of the obtained conclusions.
文摘To improve the performance of Saitou and Nei's algorithm (SN) and Studier and Keppler's improved algorithm (SK) for constructing neighbor-joining phylogenetic trees and reduce the time complexity of the computation, a fast algorithm is proposed. The proposed algorithm includes three techniques. First, a linear array A[N] is introduced to store the sum of every row of the distance matrix (the same as SK), which can eliminate many repeated computations. Secondly, the value of A [i] is computed only once at the beginning of the algorithm, and is updated by three elements in the iteration. Thirdly, a very compact formula for the sum of all the branch lengths of operational taxonomic units (OTUs) i and j is designed, and the correctness of the formula is proved. The experimental results show that the proposed algorithm is from tens to hundreds times faster than SN and roughly two times faster than SK when N increases, constructing a tree with 2 000 OTUs in 3 min on a current desktop computer. To earn the time with the cost of the space and reduce the computations in the innermost loop are the basic solutions for algorithms with many loops.
文摘According to conventional theory, little genomic changes should occur in homozygous and stable amphiploids of the grass family, particularly those involving polyploid wheat as a parent. In the present study, however, extensive genomic changes were detected in two octoploid partial amphiploids of common wheat (Triticum aestivum L.)_wheatgrass (Agropyron intermedium (Host) P.B.=Elytrigia intermedia (Host) Nevski=Thinopyrum intermedium (Host) Barkworth and Dewey), namely Zhong 3 and Zhong 5, by RFLP analysis using 10 low_copy, wheat chromosome_specific sequences and 33 representative homoeologous group_specific sequences as probes. Genomic changes involved loss of wheat hybridization fragment(s) and/or acquisition of new fragment(s). Uniformity of the RFLP patterns among 5 individual plants taken respectively from Zhong 3 and Zhong 5 in two successive generations, suggested that genomic changes probably had occurred in the early few generations after octoploid amphiploid formation, and remained essentially static thereafter. The highly similar RFLP patterns between Zhong 3 and Zhong 5, which had identical genomic constitution but differed from each other due to involvement of different wheat varieties as parents imply that genomic changes were probably not at random. Possible causes for the extensive and rapid genomic changes in the newly formed plant amphiploids, as well as their implications for polyploid genome evolution and breeding application are discussed.
文摘Recent work revealed that, in the genomes of polyploid wheat, there exists a class of low_copy and chromosome_specific sequences that are labile upon polyploid formation. This class of sequences was proposed to play a critical role in the stabilization and establishment of nascent plant polyploids as new species. To further study this issue, five wheat chromosome 7B_specific sequences, isolated from common wheat (Triticum aestivum L.) by chromosome microdissection, were characterized. The sequences were studied by genomic Southern hybridizations on a collection of polyploid wheats and their diploid progenitors. Four sequences hybridized to all polyploid species, but at the diploid level to only species closely related to the B_genome of polyploid wheat. This indicates that these sequences originated with the divergence of the diploid species, and was then vertically transmitted to polyploids. One sequence hybridized to all species at both the diploid and polyploid levels, suggesting its elimination after the polyploid wheat formation. The hybridization of this sequence to two synthetic polyploid wheats indicated that sequence elimination is a rapid event and probably related to methylation status of the sequence. Based on the above results, we suggest that selective changes of low_copy sequences occur rapidly after polyploid formation, which may contribute to the differentiation of chromosomes in newly formed allopolyploid wheats.
基金Supported by National Science and Technology Support Program(2007BAI38B03)National Platform Project for Natural Science and Technology Rescources(No.2004DKA30460)~~
文摘[Objective] The study aimed at analyzing Genetic Differentiation of Cervinae. [Method] The complete mitochondrial DNA control region of five species of Cervinae was determined by direct DNA sequencing. Homologous sequences of others Cervinae were gained from GenBank, and then analyzed through biology software. [Result] The lengths of their control region were 921-1 072 bp, the nucleotide content of T, A, C, and G was 32.1%, 30.2%, 22.7% and 15.0% separately. Genetic distance of each species ranged from 0.062-0.106, which belonged to level of inter-genus. The molecular phylogenetic tree indicated that red deer, skia deer and White-lipped Deer had close relationship, and they constituted one branch with sambar deer. Eld's deer and elk deer constituted the second branch, and hog deer constituted the third branch alone. [Conclusion] Hog deer and fallow deer should be incorporated in Cervus, divergence time is about 1.55-2.60 million years among Cervinae in China.
基金Supported by China Postdoctoral Scientific Foundation(201004713-87)Natural Science Foundation for Universities of Jiangsu Province(07KJB180013)Foundation for Talented Man in Jiangsu University(05JDG048)~~
文摘[Objective] The aim of this study was to analyze the sequence characteristics and molecular evolution of ubiquitins encoded by baculoviruses.[Methods]Clustal W software was used for multiple sequence alignment analysis,and neighbor-joining method(NJ)and maximum parsimony method(MP)were used for the construction of phylogenetic tree.[Results]The baculoviral ubiquitins showed 73%-86% sequence identity to eukaryotic ubiquitin.Two heterogeneous regions of baculoviral ubiquitins were observed:one was the residues from 15-32,the other was located from residues 53 to 60.The else parts were conserved,where many functional amino acids were also observed.Phylogenetic analysis indicated that baculoviral ubiquitins could be divided into three sub-families,including sub-family GV,sub-family I and sub-family II.The molecular evolution of baculoviral ubiquitins might be under negative selection to maintain their functional and structural stability.[Conclusion]The analysis had provided reference for the researches on functional characterization of baculoviral ubiquitins.
文摘Segmental duplications on rice (Oryza sativa L.) chromosomes 8, 9, 11, and 12 were studied by examining the distributions of sequences resolved by 13 probes detecting multiple copies of DNA sequences. Four of the hybridization bands detected by a repetitive sequence probe, rTRS, were mapped to the ends of all the four chromosomes. Two or three of the bands detected by each of the other 12 probes were also mapped to different chromosomes. The bands detected by the same probe usually occurred in similar locations of different chromosomes. Loci detected by different DNA probes were often similarly arranged on different chromosomes. Chromosomes 8 and 9 showed colinearity of marker loci arrangement indicating a possible common origin. A segment on chromosome 9 was also very similar to the previously reported duplicated fragments on the ends of chromosomes 11 and 12 which were also detected in this study, indicating a likely common origin. Moreover, the various degrees of distributional similarity of the segments suggest a complex relationship among the chromosomes in the evolution of the rice genome. These results support the proposition that chromosome duplication and diversification may be a mechanism for the origin and evolution of the chromosomes in the rice genome.
文摘Phylogenetic relationships of 11 bumblebee species,including 5 subgenera:Bombus (5 species),Thoracobombus (3 species),Mendacibombus (1 species),Fervidobombus (1 species) and Pyrobombus (1 species),were analyzed based on the 357?bp mitochondrial cytochrome b gene sequences.There are 65 singleton polymorphic sites and 71 parsimony informative polymorphic sites in this DNA segment,and 45 polymorphic sites within the total 119 translated amino acids segment.Both NJ tree and MP tree show that Mendacibombus (B.avinovielllus) is basal to others,followed by Fervidobombus (B.pensylvanicus);Pyrobombus (B.impatiens) and Bombus are sister subgenera;the subgenus of Bombus is monophyletic,in which B.ignitus diverged first.
基金Supported by the National Natural Science Foundation of China(30860147)Open Funds of National Key Laboratory of Crop Genetic Improvement(ZK200902)Natural Science Foundation of Yunnan Province(2011FB117)~~
文摘[Objective] This study aimed to develop ACGM markers for the clustering analysis of large grained Brassica napus materials. [Method] A total of 44 pairs of ACGM primers were designed according to 18 genes related to Arabidopsis grain development and their homologous rape EST sequences. After electrophoresis, 18 pairs of ACGM primers were selected for the clustering analysis of 16 larger grained samples and four fine grained samples of rapeseed. [Result] PCR result showed that 2-6 specific bands were respectively amplified by each pair of primes, and all the bands were polymorphic and repeatable, suggesting that the optimized ACGM markers were useful for clustering analysis of B. napus species. Clustering analysis revealed that the 20 rapeseed samples were divided into three clusters A, B, and C at similarity coefficient 0.6. Then, the clusters A and B were further divided into five sub clusters A1, A2, A3, B1 and B2 at similarity coefficient 0.67. [Conclusion] This study will provide theoretical and practical values for rape breeding.
基金This work was supported by the National Natural Sciences Foundation of China (No. 30470930)the Ministry of Education of China (No. 104130)the National Program for Basic Research and Development (973) of China (No. 2004CB117304).
文摘Actin depolymerizing factor (ADF), highly conserved in all eukaryotic cells, is a low molecular mass of actin-binding protein, which plays a key role in modulating the polymerizing and depolymerizing of the actin filaments. Four cDNAs (designated GhADF2, GhADF3, GhADF4, and GhADF5, respectively) encoding ADF proteins were isolated from cotton (Gossypium hirsutum) fiber cDNA library. GhADF2 cDNA is 705 bp in length and deduces a protein with 139 amino acids. GhADF3 cDNA is 819 bp in length and encodes a protein of 139 amino acids. GhADF4 cDNA is 804 bp in length and deduces a protein with 143 amino acids. GhADF5 cDNA is 644 bp in length and encodes a protein of 141 amino acids. The molecular evolutionary relationship of these genes was analyzed by means of bioinformatics. GhADF2 is closely related to GhADF3 (99% identity) and PetADF2 (89% identity). GhADF4 is closely related to AtADF6 (78% identity), and GhADF5 is closely related to AtADF5 (83% identity). These results demonstrated that the plant ADF genes are highly conserved in structure. RT-PCR analysis showed that GhADF2 is predominantly expressed in fiber, whereas, GhADF5 is mainly expressed in cotyledons. On the other hand, it seems that GhADF3 and GhADF4 have no tissue specificity. Expression levels of different ADF genes may vary considerably in the same cell type, suggesting that they might be involved in regulating tissue development of cotton and the each ADF isoform may diverge to form the functional difference from the other ADFs during evolution.
基金Project supported by the National Natural Science Foundation of China (No. 40101013) the Outstanding Overseas Chinese Scholars Fund of the Chinese Academy of Sciences (No. 2003-1-7).
文摘Comparisons of red ratings (RR) with Fe_d, Fe_d/Fet, clay content, andmagnetic susceptibility (x) of two loess-paleosol sequences at Luochuan and Lingtai on China's LoessPlateau were conducted to study the possible relationship between RR and pedogenic degrees of thetwo loess-paleosol sequences, and to discuss whether the RR could become new paleo-climaticindicators. Results showed that the RR of the two loess-paleosol sequences had positive, highlysignificant (P < 0.01) correlations with: 1) citrate-bicarbonate-dithionite (CBD) extracted iron(Fe_d), 2) ratios of CBD extracted iron to total iron (Fe_d/Fet), 3) clay (< 2 mum), and 4) magneticsusceptibility (x). This suggested that the RR of these loess-paleosol sequences could indicatedegreesof loess weathering and pedogenesis and were potential paleo-climatic proxies. The strongcorrelations of RR to Fe_d and x also implied that during pedogenic processes, pedogenic hematite inloess and paleosols were closely related to the amount of total secondary iron oxides and pedogenicferrimagnetic minerals (predominantly maghemite).
基金Under the auspices of Major State Basic Research Development Program of China (973 Program) (No. 2009CB426305)National Natural Science Foundation of China (No. 30370267) "Eleventh Five-year" Science and Technology In-novation Platform Foster Program of Northeast Normal University (No. 106111065202)
文摘Multi-temporal series of satellite SPOT-VEGETATION normalized difference vegetation index (NDVI) and normalized difference water index (NDWI) data from 1998 to 2007 were used for analyzing vegetation change of the ecotone in the west of the Northeast China Plain. The yearly and monthly maximal values,anomalies and change rates of NDVI and NDWI were calculated to reveal the interannual and seasonal changes in vegetation cover and vegetation water content. Linear regression method was adopted to characterize the trends in vegetation change. The yearly maximal NDVI decreased from 0.41 in 1998 to 0.37 in 2007,implying the decreasing trend of vegetation activity. There was a significant decrease of maximal NDVI in spring and summer over the study period,while an increase trend was observed in autumn. The vegetation-improved regions and vegetation-degraded regions occupied 17.03% and 20.30% of the study area,respectively. The maximal NDWI over growing season dropped by 0.027 in 1998–2007,and about 15.15% of the study area showed a decreasing trend of water content. Vegetation water stress in autumn was better than that in spring. Vegetation cover and water content variations were sensitive to annual precipitation,autumn precipitation and summer temperature. The vegetation degradation trend in this ecotone might be induced by the warm-drying climate especially continuous spring and summer drought in the recent ten years.
基金Supported by Shanghai Rising-Star program, No. 03QMH1410
文摘AIM: To investigate the effect of Qinggan Huoxuefang (QGHXF) on improvement of liver function and pathology in rats, and to analyze the mechanism. METHODS: Wistar rats were divided into three groups at random: normal control group (12), micro-amount carbon tetrachlodde group (CCh)(12) and model group A (60). The model group A was ingested with the mixture (500 mL/L alcohol, 8 mL/kg per day; corn oil, 2 mL/kg per day; pyrazole, 24 mg/kg per day) once a day and intraperitoneal injections of 0.25 mL/kg of a 250 mL/L solution of CCh in olive oil twice a week for 12 wk. The CCh group received intraperitoneal injections only. At the end of 8 wk the model group A (60) was divided into 5 subgroups: model group, Xiaochaihu Chongji (XCH) group, QGHXF high dose group, moderate dose group and low dose group, and were given the drugs respectively. At the end of 12 wk, all the rats were killed and blood samples collected, as well as liver tissue. Blood samples were used for evaluation of alanine transaminase (ALT), aspartate aminotransferase (AST), alkaline phosphatase (ALP), gamma-glutamyltransferase (y-GT). Liver specimens were obtained for routine HE, apoptosis gene array and flow cytometry analysis. RESULTS: A liver fibrosis animal model was successfully established. Fibrosis was obviously reduced in QGHXF high dose group, and no fibrosis formed in CCh group. Compared with model group the QGHXF group and XCH group could obviously decrease the level of ALT, AST, ALP, and GGT (P〈0.05). QGHXF high dose group was better than XCH group in ALT (615± 190 vs 867± 115),and AST(1972 ± 366 vs 2777 ± 608). Moreover, QGHXF could reduce liver inflammation, fibrosis-induced hepatic stellate cell (HSC) apoptosis and regulate apoptosis gene expression. The HSC apoptosis rates of QGHXF groups were 22.4±3.13, 13.79±2.26 and 10.07± 1.14, higher than model group, 6.58±1.04 (P〈 0.05). Compared to model group, 39 genes were up-regulated, 11 solely expressed and 17 down-regulated in high dose group. CONCLUSION: QGHXF can improve liver fibrosis and induce HSC apoptosis.
基金Foundation items: The project was supported by the Program for the National Natural Science Foundation of China (31201970, 31372555), Zhejiang Provincial Natural Science Foundation of China (LZ13C- 190001, LQ13C190002)
文摘Cathepsin D (CTSD) is a lysosomal acidic endoproteinase that plays an important role in immune response, In this study, we obtained sweetfish (Plecoglossus altivelis) CTSD (PaCTSD) via de-novo transcriptome sequencing of sweetfish macrophages. The full length cDNA sequence of PaCTSD was 1955 bp encoding a propeptide of 397 amino acids. The deduced protein had a calculated molecular weight of 43.17x 103. Multiple alignment with other known CTSD amino acid sequences revealed amino acid conservation through the teleosts. Phylogenetic tree analysis showed that PaCTSD grouped tightly with other fish CTSD, and was close to that of Atlantic salmon and rainbow trout. Subsequently, PaCTSD was prokaryotically expressed and refolded by the urea gradient method on a nickel-nitrilotriacetic acid column. Enzyme activity analysis showed that PaCTSD exhibited pH-dependent proteolytic activity. Quantitative real-time PCR showed that PaCTSD mRNA was expressed in all detected tissues in healthy sweetfish. The highest expression was observed in the spleen and white blood cells, followed by liver, head-kidney, kidney, intestine, gill, and muscle. After Listonella anguillarum infection, PaCTSD transcripts were up-regulated significantly in liver, spleen, white blood cells, and head-kidney of sweetfish. In summary, PaCTSD has proteolytic activity and is closely involved in the immune response of sweetfish.
基金supported by the National Science & Technology Pillar Program during the Eleventh Five-Year Plan Period of China(2007BAC03A01)the Climatic Change Project of China Meteorological Administration(CCCSF2008-10)
文摘Temperature change plays a crucial role in global change sciences. In the past several decades, comprehensive find- ings have been achieved on temperature change in China for the past 100 years. Several time series have been created to illustrate the averaged surface air temperature for the country. The correlations of these series range from 0.73 to 0.97. It is also achieved in better data quality, wider spatial data coverage, improved homogeneity of time series, and enhanced reliability of findings. The results show an annual mean temperature increase by 0.78±0.27℃ per 100 years in China for the period 1906-2005. After prolonging the period till 2007, it is found that 2007 is rated as the warmest year in the past 100 years. Although all the series, except one, reflect temperature changes in the eastern part of China before the 1930s, they represent the general temperature change in most parts of the country after the 1930s.
基金Supported by the National Natural Science Foundation of China Major Project (Nos. 40890150, 40890151)the National Basic Research Program of China (973 Program) (No. 2007-CB411802)
文摘A heat center (HC) of the western Pacific warm pool (WPWP) is defined, its variability is examined, and a possible mechanism is discussed. Analysis and calculation of a temperature dataset from 1945-2006 show that the mean position of the HC during this period was near 0.4°S/169.0°E, at 38.0 m depth. From a time series of the HC, remarkable seasonal variability was found, mainly in the meridional and vertical directions. Interannual variabilities were dominant in the zonal and vertical directions. In addition, semiannual variation in the HC depth was discovered. The longitude of the HC varies with ENSO events, and its latitude is weakly related to ENSO on time scales shorter than a decade. The variation of the HC longitude leads the Nifio-3 index by about 3-4 months, and its depth lags the index for approximately 3 months. It is concluded that the HC depth results from a combination of its longitudinal and latitudinal variations. Low-pass-filtered time series reveal that the HC has moved eastward since the mid 1980s.
基金the Special Funds for Major National Basic Research Projects,国家自然科学基金,Research Project 248 of Beijing
文摘Weight matrix models for signal sequence motif are simple. A main limitation of the models is the assumption of independence between positions. Signal enhancement is achieved by taking the total likelihood as the objective function for maximization to cluster sequences into groups with different patterns. As an example, the initial and terminal signals for translation in rice genome are examined.