Although Pampus minor has been classified as a new species, it still remains controversial. Was used a DNA barcoding technique based on homologous sequence analysis of the16S and CO1 genes to clarify the confusion ove...Although Pampus minor has been classified as a new species, it still remains controversial. Was used a DNA barcoding technique based on homologous sequence analysis of the16S and CO1 genes to clarify the confusion over the identification of this species. Among 12 individuals whose genetic distance was 0.002, two haplotypes were found. According to the 16S sequences, the genetic distances ranged from 0.121 to 0.133 between P. minor and other Pampus species. Although the same the genetic distance between the two P minor haplotypes was generated using CO1 sequences, the haplotype of Pm22-23, Pm28, and Pm32-33 was the same as that of Pci EF607462 and EF607466, while the haplotype of Pm24-27 and Pm29-31 was the same as that of Pci EF607461 and EF607463-65. In addition, the genetic distance ranged only from 0.002 to 0.005 between P minor and Pa EF607460 and EF607458. Apart from this, the interspecies genetic distances varied from 0.135 to 0.143 between P minor and other t＇ampus species according to the C01 sequences. Phylogenetic trees, using combined 16S and CO1 data, strongly support the viewpoint that all the P. minor individuals form one clade that is in a sister position to Pampus sp. individuals （EU357803, FJ434342-FJ434343, and FJ652423-FJ652427）.展开更多
This paper concerns the impact of an operating metro train on the structure of a shield tunnel lining and its soft foundation. An elastoplastic 3D dynamic finite difference model was established by using the FLAC3D nu...This paper concerns the impact of an operating metro train on the structure of a shield tunnel lining and its soft foundation. An elastoplastic 3D dynamic finite difference model was established by using the FLAC3D numerical soft- ware. By fully considering the joints, the A-B-K segments and the soft stratum, the dynamic response of the shield tunnel buried in thick, soft soil under the vibrating load induced by a metro train was numerically simulated. The simulation result, for which the joint was considered, was compared with the result when the joint was not considered. The results show that an operating metro train induces a significant dynamic response in the structure of the lining of the shield tunnel and its soft foundation. The severe dynamic response zones of the lining structure are largely distributed in the range of the lower half of the segment-ring and the nearer to the bottom of the segment-ring, the more severe the response. Of two horizontally symmetric, corresponding places on the segment lining, the one near the joint is more severe in its dynamic response than that of the one far from the joint; the nearer the zone of the foundation soil to the lower half of the seg- ment-ring, the more severe the dynamic response. The maximum shear strain of the foundation soil takes place near the joint between two normal segments at the bottom. The dynamic response influenced by joints is more severe than the response not influenced by joints, showing that the non-joint assumption is somewhat impractical.展开更多
This paper presents a macroblock-level (MB-level) decoding and deblocking method for supporting the flexible macroblock ordering (FMO) and arbitrary slice ordering (ASO) bit streams in H.264 decoder and its SOC/ASIC i...This paper presents a macroblock-level (MB-level) decoding and deblocking method for supporting the flexible macroblock ordering (FMO) and arbitrary slice ordering (ASO) bit streams in H.264 decoder and its SOC/ASIC implementation. By searching the slice containing the current macroblock in the bit stream and switching slices correctly, MBs can be decoded in the raster scan order, while the decoding process can immediately begin as long as the slice containing the current MB is available. This architectural modification enables the MB-level decoding and deblocking 3-stage pipeline, and saves about 20% of SDRAM bandwidth. Implementation results showed that the design achieves real-time decoding of 1080HD (1920×1088@30 fps) at a system clock of 166 MHz.展开更多
The genomic resources of Porphyra yezoensis expressed sequence tags (ESTs) were utilized to identify simple sequence repeats (SSRs), or microsatellites. This method took the advantage of using ESTs and microsatellites...The genomic resources of Porphyra yezoensis expressed sequence tags (ESTs) were utilized to identify simple sequence repeats (SSRs), or microsatellites. This method took the advantage of using ESTs and microsatellites either for the establishment of gene identities or for the acquisition of high polymorphism. The microsatellites can be used as gene markers when microsatellites are tagged to genes. Revealed by bioinformatics analysis, 1 162 out of 21 954 ESTs contained microsatellites and cluster analysis indi- cated that 984 of these ESTs fell into 112 contigs, while the other 178 ESTs were singletons. A total of 290 unique SSR-containing genes were identified. The AAC SSRs were the most populous type of microsatellites. GC-rich microsatellites were predominant among all the microsatellites.展开更多
Hu Shuhe gets a sufficient condition on the law of the iterated logarithm for the sums of φ-mixing sequences with duple suffixes. This paper greatly improves his condition.
In this study,we integrated a DNA barcoding project with an ecological survey on intertidal polychaete communities and investigated the utility of CO1 gene sequence as a DNA barcode for the classification of the inter...In this study,we integrated a DNA barcoding project with an ecological survey on intertidal polychaete communities and investigated the utility of CO1 gene sequence as a DNA barcode for the classification of the intertidal polychaetes.Using 16S rDNA as a complementary marker and combining morphological and ecological characterization,some of dominant and common polychaete species from Chinese coasts were assessed for their taxonomic status.We obtained 22 haplotype gene sequences of 13 taxa,including 10 CO1 sequences and 12 16S rDNA sequences.Based on intra-and inter-specific distances,we built phylogenetic trees using the neighbor-joining method.Our study suggested that the mitochondrial CO1 gene was a valid DNA barcoding marker for species identification in polychaetes,but other genes,such as 16S rDNA,could be used as a complementary genetic marker.For more accurate species identification and effective testing of species hypothesis,DNA barcoding should be incorporated with morphological,ecological,biogeographical,and phylogenetic information.The application of DNA barcoding and molecular identification in the ecological survey on the intertidal polychaete communities demonstrated the feasibility of integrating DNA taxonomy and ecology.展开更多
This study is part of the endeavor to construct a comprehensive DNA barcoding database for common seaweeds in China. Identifications of red seaweeds, which have simple morphology and anatomy, are sometimes difficult s...This study is part of the endeavor to construct a comprehensive DNA barcoding database for common seaweeds in China. Identifications of red seaweeds, which have simple morphology and anatomy, are sometimes difficult solely depending on morphological characteristics. In recent years, DNA barcode technique has become a more and more effective tool to help solve some of the taxonomic difficulties. Some DNA markers such as COI（cytochrome oxidase subunit I） are proposed as standardized DNA barcodes for all seaweed species. In this study, COI, UPA （universal plastid amplicon, domain V of 23S rRNA）, and ITS （nuclear internal transcribed spacer） were employed to analyze common species of intertidal red seaweeds in Qingdao （119.3°-121°E, 35.35°-37.09°N）. The applicability of using one or a few combined barcodes to identify red seaweed species was tested. The results indicated that COI is a sensitive marker at species level. However, not all the tested species gave PCR amplification products due to lack of the universal primers. The second barcode UPA had effective universal primers but needed to be tested for the effectiveness of resolving closely related species. More than one ITS sequence types were found in some species in this investigation, which might lead to confusion in further analysis. Therefore ITS sequence is not recommended as a universal barcode for seaweeds identification.展开更多
A harmful algae bloom (HAB) is a dense aggregation of algae in a marine or aquatic environment that can result in significant environmental problems. To forecast the occurrence of HAB, development of a rapid and preci...A harmful algae bloom (HAB) is a dense aggregation of algae in a marine or aquatic environment that can result in significant environmental problems. To forecast the occurrence of HAB, development of a rapid and precise detection method is urgently required. In this study, two Skeletonema costatum-like diatoms (SK-1 and SK-2), were identified morphologically under a light microscope, and detected using fluorescent in situ hybridization (FISH). Strain SK-1 was isolated from a frequently HAB affected area of the East China Sea, and strain SK-2 from an aquatic farm in Qingdao, China. Fluorescent DNA probes were designed that were complementary to the ITS sequence (including 5.8S rDNA) of strain SK-1. After hybridization, strong green fluorescence was observed in cells of strain SK-1 under an epifluorescence microscope; however, no such fluorescence was observed with strain SK-2, which indicates that probes hybridized only the DNA of the target strain, SK-1, in species-specific manner, and that the two strains do not belong to a same species. This finding was confirmed by ITS sequence analysis. The FISH technique used in this study was sensitive, simple, and rapid, and is a promising tool for detecting target HAB species in natural environments.展开更多
The heart rate variability could be explained by a low-dimensional governing mechanism. There has been increasing interest in verifying and understanding the coupling between the respiration and the heart rate. In thi...The heart rate variability could be explained by a low-dimensional governing mechanism. There has been increasing interest in verifying and understanding the coupling between the respiration and the heart rate. In this paper we use the nonlinear detection method to detect the nonlinear deterministic component in the physiological time series by a single variable series and two variables series respectively, and use the conditional information entropy to analyze the correlation between the heart rate, the respiration and the blood oxygen concentration. The conclusions are that there is the nonlinear deterministic component in the heart rate data and respiration data, and the heart rate and the respiration are two variables originating from the same underlying dynamics.展开更多
基金Supported by National Natural Science Foundation of China (No. 40676085)
文摘Although Pampus minor has been classified as a new species, it still remains controversial. Was used a DNA barcoding technique based on homologous sequence analysis of the16S and CO1 genes to clarify the confusion over the identification of this species. Among 12 individuals whose genetic distance was 0.002, two haplotypes were found. According to the 16S sequences, the genetic distances ranged from 0.121 to 0.133 between P. minor and other Pampus species. Although the same the genetic distance between the two P minor haplotypes was generated using CO1 sequences, the haplotype of Pm22-23, Pm28, and Pm32-33 was the same as that of Pci EF607462 and EF607466, while the haplotype of Pm24-27 and Pm29-31 was the same as that of Pci EF607461 and EF607463-65. In addition, the genetic distance ranged only from 0.002 to 0.005 between P minor and Pa EF607460 and EF607458. Apart from this, the interspecies genetic distances varied from 0.135 to 0.143 between P minor and other t＇ampus species according to the C01 sequences. Phylogenetic trees, using combined 16S and CO1 data, strongly support the viewpoint that all the P. minor individuals form one clade that is in a sister position to Pampus sp. individuals （EU357803, FJ434342-FJ434343, and FJ652423-FJ652427）.
文摘This paper concerns the impact of an operating metro train on the structure of a shield tunnel lining and its soft foundation. An elastoplastic 3D dynamic finite difference model was established by using the FLAC3D numerical soft- ware. By fully considering the joints, the A-B-K segments and the soft stratum, the dynamic response of the shield tunnel buried in thick, soft soil under the vibrating load induced by a metro train was numerically simulated. The simulation result, for which the joint was considered, was compared with the result when the joint was not considered. The results show that an operating metro train induces a significant dynamic response in the structure of the lining of the shield tunnel and its soft foundation. The severe dynamic response zones of the lining structure are largely distributed in the range of the lower half of the segment-ring and the nearer to the bottom of the segment-ring, the more severe the response. Of two horizontally symmetric, corresponding places on the segment lining, the one near the joint is more severe in its dynamic response than that of the one far from the joint; the nearer the zone of the foundation soil to the lower half of the seg- ment-ring, the more severe the dynamic response. The maximum shear strain of the foundation soil takes place near the joint between two normal segments at the bottom. The dynamic response influenced by joints is more severe than the response not influenced by joints, showing that the non-joint assumption is somewhat impractical.
基金Project (No. 2002AA1Z1190) supported by the National Hi-Tech Research and Development Program (863) of China
文摘This paper presents a macroblock-level (MB-level) decoding and deblocking method for supporting the flexible macroblock ordering (FMO) and arbitrary slice ordering (ASO) bit streams in H.264 decoder and its SOC/ASIC implementation. By searching the slice containing the current macroblock in the bit stream and switching slices correctly, MBs can be decoded in the raster scan order, while the decoding process can immediately begin as long as the slice containing the current MB is available. This architectural modification enables the MB-level decoding and deblocking 3-stage pipeline, and saves about 20% of SDRAM bandwidth. Implementation results showed that the design achieves real-time decoding of 1080HD (1920×1088@30 fps) at a system clock of 166 MHz.
文摘The genomic resources of Porphyra yezoensis expressed sequence tags (ESTs) were utilized to identify simple sequence repeats (SSRs), or microsatellites. This method took the advantage of using ESTs and microsatellites either for the establishment of gene identities or for the acquisition of high polymorphism. The microsatellites can be used as gene markers when microsatellites are tagged to genes. Revealed by bioinformatics analysis, 1 162 out of 21 954 ESTs contained microsatellites and cluster analysis indi- cated that 984 of these ESTs fell into 112 contigs, while the other 178 ESTs were singletons. A total of 290 unique SSR-containing genes were identified. The AAC SSRs were the most populous type of microsatellites. GC-rich microsatellites were predominant among all the microsatellites.
文摘Hu Shuhe gets a sufficient condition on the law of the iterated logarithm for the sums of φ-mixing sequences with duple suffixes. This paper greatly improves his condition.
基金Supported by the National Natural Science Foundation of China(No.40730847&40906063)the Student Research Training Program of Ocean University of China(No.0811010509)
文摘In this study,we integrated a DNA barcoding project with an ecological survey on intertidal polychaete communities and investigated the utility of CO1 gene sequence as a DNA barcode for the classification of the intertidal polychaetes.Using 16S rDNA as a complementary marker and combining morphological and ecological characterization,some of dominant and common polychaete species from Chinese coasts were assessed for their taxonomic status.We obtained 22 haplotype gene sequences of 13 taxa,including 10 CO1 sequences and 12 16S rDNA sequences.Based on intra-and inter-specific distances,we built phylogenetic trees using the neighbor-joining method.Our study suggested that the mitochondrial CO1 gene was a valid DNA barcoding marker for species identification in polychaetes,but other genes,such as 16S rDNA,could be used as a complementary genetic marker.For more accurate species identification and effective testing of species hypothesis,DNA barcoding should be incorporated with morphological,ecological,biogeographical,and phylogenetic information.The application of DNA barcoding and molecular identification in the ecological survey on the intertidal polychaete communities demonstrated the feasibility of integrating DNA taxonomy and ecology.
基金supported by the National Special Research Fund for Non-Profit Sector (Agriculture) (No. 200903030)the National Natural Science Foundation of China (No.41176135)
文摘This study is part of the endeavor to construct a comprehensive DNA barcoding database for common seaweeds in China. Identifications of red seaweeds, which have simple morphology and anatomy, are sometimes difficult solely depending on morphological characteristics. In recent years, DNA barcode technique has become a more and more effective tool to help solve some of the taxonomic difficulties. Some DNA markers such as COI（cytochrome oxidase subunit I） are proposed as standardized DNA barcodes for all seaweed species. In this study, COI, UPA （universal plastid amplicon, domain V of 23S rRNA）, and ITS （nuclear internal transcribed spacer） were employed to analyze common species of intertidal red seaweeds in Qingdao （119.3°-121°E, 35.35°-37.09°N）. The applicability of using one or a few combined barcodes to identify red seaweed species was tested. The results indicated that COI is a sensitive marker at species level. However, not all the tested species gave PCR amplification products due to lack of the universal primers. The second barcode UPA had effective universal primers but needed to be tested for the effectiveness of resolving closely related species. More than one ITS sequence types were found in some species in this investigation, which might lead to confusion in further analysis. Therefore ITS sequence is not recommended as a universal barcode for seaweeds identification.
基金Supported by the High Technology Research and Development Program of China (863 Program) (2007AA09Z110)
文摘A harmful algae bloom (HAB) is a dense aggregation of algae in a marine or aquatic environment that can result in significant environmental problems. To forecast the occurrence of HAB, development of a rapid and precise detection method is urgently required. In this study, two Skeletonema costatum-like diatoms (SK-1 and SK-2), were identified morphologically under a light microscope, and detected using fluorescent in situ hybridization (FISH). Strain SK-1 was isolated from a frequently HAB affected area of the East China Sea, and strain SK-2 from an aquatic farm in Qingdao, China. Fluorescent DNA probes were designed that were complementary to the ITS sequence (including 5.8S rDNA) of strain SK-1. After hybridization, strong green fluorescence was observed in cells of strain SK-1 under an epifluorescence microscope; however, no such fluorescence was observed with strain SK-2, which indicates that probes hybridized only the DNA of the target strain, SK-1, in species-specific manner, and that the two strains do not belong to a same species. This finding was confirmed by ITS sequence analysis. The FISH technique used in this study was sensitive, simple, and rapid, and is a promising tool for detecting target HAB species in natural environments.
基金Scientific Research Foundation for the Returned Overseas Chinese Scholars of ChinaGrant number:20041764+1 种基金Natural Science Foundation of Shandong ProvinceGrant number:Z2004G01
文摘The heart rate variability could be explained by a low-dimensional governing mechanism. There has been increasing interest in verifying and understanding the coupling between the respiration and the heart rate. In this paper we use the nonlinear detection method to detect the nonlinear deterministic component in the physiological time series by a single variable series and two variables series respectively, and use the conditional information entropy to analyze the correlation between the heart rate, the respiration and the blood oxygen concentration. The conclusions are that there is the nonlinear deterministic component in the heart rate data and respiration data, and the heart rate and the respiration are two variables originating from the same underlying dynamics.
