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Molecular Cloning and Bioinformatics Analysis of sucC Gene of Vibrio alginolyticus Strain HY9901
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作者 Yingzhu WEI Zhiqing WEI +2 位作者 Xuelian LIN Huanying PANG Na WANG 《Asian Agricultural Research》 2024年第8期32-37,共6页
[Objectives]To clone the sucC gene of Vibrio alginolyticus strain HY9901 and conduct the bioinformatics analysis.[Methods]Based on the sucC gene of V.alginolyticus strain HY9901,specific primers were designed to ampli... [Objectives]To clone the sucC gene of Vibrio alginolyticus strain HY9901 and conduct the bioinformatics analysis.[Methods]Based on the sucC gene of V.alginolyticus strain HY9901,specific primers were designed to amplify the full length sequence by PCR and make further analysis.[Results]The theoretical molecular weight of SucC protein was about 41528.45 Da,and the full length was 1167 bp,encoding 388 amino acids.It has no signal peptide and transmembrane region,and has a variety of functional sites.It is predicted that it is mainly located in the cytoplasm,and the ubiquitin and lactate modification sites overlap,and it has high gene homology with Vibrio parahaemolyticus.Theα-helix,random coil and extended strand are the main secondary structures.The similarity between the constructed three-level structure model and the template is high.[Conclusions]This study reveals the structural characteristics and functional potential of SucC protein,and provides a theoretical basis for the study of drug resistance mechanism and prevention strategies. 展开更多
关键词 VIBRIO ALGINOLYTICUS GENE amplification sucC GENE Succinyl-Coa SYNTHETASE protein POST-TRANSLATIONAL modification Bioinformatics analysis
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Lineament analysis as a seismic precursor:The El Mayor Cucapah earthquake of April 4,2010(MW7.2),Baja California,Mexico
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作者 Rosendo Romero-Andrade Manuel E.Trejo-Soto +2 位作者 Karan Nayak Daniel Hernández-Andrade Naccieli Bojorquez-Pacheco 《Geodesy and Geodynamics》 CSCD 2023年第2期121-129,共9页
An earthquake called the MW7.2“El Mayor Cucapah”earthquake on April 4,2010 has been analyzed for seismic precursor.The changes in the lineament system concerning its pattern and time intervals were analyzed during t... An earthquake called the MW7.2“El Mayor Cucapah”earthquake on April 4,2010 has been analyzed for seismic precursor.The changes in the lineament system concerning its pattern and time intervals were analyzed during the earthquake preparation period and occurrence using the automated lineament detection method.The Landsat 5 TM images were processed using LESSA and ADALGEO software obtaining similar results.The statistical analysis revealed the stress accumulation due to plate interaction during earthquake formation.The study shows that the number of extracted lineaments changes rapidly about 23 months before the earthquake,and the systems return to the initial stage after 23 months.Most lineaments coincide with the extension of the San Andreas Fault as NW direction is the dominant trend.Thus,it can be concluded that the featural changes within the Rose diagram corresponding to the different strokes direction along with oriented elongation lines as disclosed in the present study using satellite images could be identified as a mid-term and/or short-term precursors of the earthquake.However,even though the dynamism of the El Mayor Cucapah earthquake is found in the extracted lineaments,it is possible to isolate more significant earthquakes even if new ones appear near the zone.Moreover,using two algorithms for lineament detection allows for the tectonics to corroborate the obtained lineaments and dynamism. 展开更多
关键词 Lineament analysis EARTHQUAKE Landsat images Seismic precursor
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Expression and Immunological Analysis of Capsid Protein Precursor of Swine Vesicular Disease Virus HK/70 被引量:3
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作者 Hong TIAN Jing-yan WU You-jun SHANG Shuang-hui YING Hai-xue ZHENG Xiang-tao LIU 《Virologica Sinica》 SCIE CAS CSCD 2010年第3期206-212,共7页
VP1, a capsid protein of swine vesicular disease virus, was cloned from the SVDV HK/70 strain and inserted into retroviral vector pBABE puro, and expressed in PK15 cells by an retroviral expression system. The ability... VP1, a capsid protein of swine vesicular disease virus, was cloned from the SVDV HK/70 strain and inserted into retroviral vector pBABE puro, and expressed in PK15 cells by an retroviral expression system. The ability of the VP1 protein to induce an immune response was then evaluated in guinea pigs. Western blot and ELISA results indicated that the VP1 protein can be recognized by SVDV positive serum, Furthermore, anti-SVDV specific antibodies and lymphocyte proliferation were elicited and increased by VP1 protein after vaccination. These results encourage further work towards the development of a vaccine against SVDV infection. 展开更多
关键词 Swine vesicular disease virus Capsid protein precursor gene (vp1) Gene expression Immunere sponse
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Thermodynamic analysis on synthesis of fibrous Ni-Co alloys precursor and Ni/Co ratio control 被引量:3
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作者 湛菁 贺跃辉 +1 位作者 周涤非 张传福 《Transactions of Nonferrous Metals Society of China》 SCIE EI CAS CSCD 2011年第5期1141-1148,共8页
According to the principles of simultaneous equilibrium and mass equilibrium, a series of thermodynamic equilibrium equations in Ni(II)-Co(II)-C2O4^2--NH3-NH4^+-H2O system at ambient temperature were deduced. The... According to the principles of simultaneous equilibrium and mass equilibrium, a series of thermodynamic equilibrium equations in Ni(II)-Co(II)-C2O4^2--NH3-NH4^+-H2O system at ambient temperature were deduced. The diagrams of logarithm ion concentrations versus pH values at different solution compositions were drawn. The results show that Ni^2+ and Co^2+ can completely precipitate at pH less than 5.0 and the predefined Ni/Co ratios can be well kept in the precursor. The precursor morphology is granular aggregation. However, rod aggregation precursor is obtained in the pH range of 5.0-8.0, and fibre-shape precursor is got at pH value higher than 8.0. The Ni/Co ratios in the above two precursors are not reproduced as that in the feed due to the formhtion of multi-coordinated Ni(NH3)n^2+ and Co(NH3)n^2+ (n=1-6). Modification of precipitation medium is favorable for the precursors to keep the predefined Ni/Co ratios of the feed in the pH range of 2.0-8.6. Meanwhile, the precursors with fibrous morphology can be obtained. 展开更多
关键词 thermodynamic analysis nickel-cobalt alloy nickel-cobalt oxalate precursor predefined Ni/Co ratio fibre-shape
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Cloning and expression analysis of a long type peptidoglycan recognition protein(PGRP-L) from Xenopus tropicalis 被引量:2
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作者 齐志涛 张启焕 +4 位作者 王资生 王爱民 黄贝 昌鸣先 聂品 《Zoological Research》 CAS CSCD 北大核心 2011年第4期371-378,共8页
Peptidoglycan recognition proteins(PGRPs) are a family of pattern recognition receptors(PRRs) of the immune system,which bind and hydrolyze bacterial peptidoglycan.Here,a long type PGRP(PGRP-L) was first cloned ... Peptidoglycan recognition proteins(PGRPs) are a family of pattern recognition receptors(PRRs) of the immune system,which bind and hydrolyze bacterial peptidoglycan.Here,a long type PGRP(PGRP-L) was first cloned in the lower vertebrate species Xenopus tropicalis(Xt).The XtPGRP-L possessed a conserved genomic structure with five exons and four introns.The alignment and phylogenetic analysis indicated that XtPGRP-L might be a type of amidase-like PGRP.The 3-D model showed that XtPGRP-L possessed a conserved structure compared with the Drosophila PGRP-Lb.During embryonic development,XtPGRP-L was not expressed until the 72 h tadpole stage.In adult tissues,it was strongly expressed in the liver,lung,intestine,and stomach.Furthermore,after LPS stimulation,the expression of XtPGRP-L was up-regulated significantly in the liver,intestine and spleen,indicating that XtPGRP-L may play an important role in the innate immunity of Xenopus tropicalis. 展开更多
关键词 Peptidoglycan recognition protein Gene clone Expression analysis Xenopus tropicalis
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Analysis of the Conditional Correlations from Different Genetic Systems Between the Protein Content and the Appearance Quality Traits of Indica Rice 被引量:4
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作者 葛国科 郑希 +2 位作者 吴建国 叶子弘 石春海 《Journal of Genetics and Genomics》 SCIE CAS CSCD 北大核心 2007年第2期129-137,共9页
A factorial mating design in two environments was conducted using 7 cytoplasmic male sterile lines (A) and 5 restorer lines (R) along with their F1 (A × R) and F2 populations. The unconditional and conditio... A factorial mating design in two environments was conducted using 7 cytoplasmic male sterile lines (A) and 5 restorer lines (R) along with their F1 (A × R) and F2 populations. The unconditional and conditional analyses of genetic models and the corresponding statistic methods, including endospermic, cytoplasmic, and maternal plant genetic systems, were used to analyze the genetic relationships between protein content (PC) and the appearance quality traits of indica rice (Oryza sativa L.). The results from unconditional analysis indicated that PC was significantly correlated with the appearance quality traits of rice, except for the brown rice thickness (BRT). Only the genetic covariance between PC and the brown rice width (BRW) was positively correlative, whereas all the other pairwise traits were negatively correlative. The results from conditional analysis revealed that the weight of brown rice (WBR) or the amylose content (AC) could significantly affect the relationships between PC and the appearance quality traits of indica rice. The conditional analysis showed that WBR might negatively affect the relationships between PC and the brown rice length (BRL), BRW, or BRT through the geuotype x environmental (GE) interaction effects, but positively affected the relationships between PC and the ratio of brown rice length to width (RLW) or the ratio of brown rice length to thickness (RLT). The amylase content could positively affect the relationships between PC and BRL, RLW, RLT through the cytoplasmic effects and maternal additive effects, but negatively affected the relationships between PC and BRW. 展开更多
关键词 indica rice (Oryza sativa L.) COVARIANCE unconditional and conditional analysis methods protein content amylose content appearance quality
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Cloning and Sequence Analysis of HN and F Protein Genes from a Strain of Goose Paramyxovirus 被引量:2
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作者 易春华 潘杰 +3 位作者 付薇 颜健华 徐贤坤 熊毅 《Agricultural Science & Technology》 CAS 2009年第4期75-78,共4页
[ Objective] The study was to clone HN and F genes from GX1 strain of goose paramyxovirus and analyze their sequences. [ Method] According to the full nucleotide sequence of GPV-SF02 strain of goose paramyxovirus, two... [ Objective] The study was to clone HN and F genes from GX1 strain of goose paramyxovirus and analyze their sequences. [ Method] According to the full nucleotide sequence of GPV-SF02 strain of goose paramyxovirus, two pairs of pdmers were designed to amplify the HN and F genes from GX1 strain of goose paramyxovirus isolated from diseased goose in Guangxi Zhuang Autonomous Region; the amplified products were ligated into pMD18-T vector and sequenced. [ Result ] HN and F genes of this strain tested were 1 716 and 1 662 bp in full nucleotide length, respectively; both showed the homologues of about 97.3% with GPV- SF02 strain, of 80.3% -97.5% with strains LaSota, F48E9 and JS, of just 84.8% with Miyadera strain. [ Conclusion] The results show that isolated strain BX1 matches to virulent APMV-1 strain, belonging to genotype Ⅶ of APMV-1 strain. 展开更多
关键词 Goose paramyxovirus HN protein gene F protein gene CLONING Sequence analysis
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Cloning and Expression Analysis of PtFATB Gene Encoding the Acyl-acyl Carrier Protein Thioesterase in Populus tomentosa Carr 被引量:1
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作者 周洲 张德强 卢孟柱 《Journal of Genetics and Genomics》 SCIE CAS CSCD 北大核心 2007年第3期267-274,共8页
Acyl-ACP thioesterases (FATs) terminates the fatty acid synthesis and allow the transport of fatty acids out of the plastids, which are the important determinants of cellular metabolism. FATB is a member of FAT enzy... Acyl-ACP thioesterases (FATs) terminates the fatty acid synthesis and allow the transport of fatty acids out of the plastids, which are the important determinants of cellular metabolism. FATB is a member of FAT enzymes that has been described previously in most of the plants. In silico cloning is a new method that utilizes the bioinformatics on the complete genome and available EST database. In this study, a full-length cDNA clone of PtFATB gene was isolated from Populus tomentosa using this approach. It is 1,450 bp in length and the open reading frame encodes a peptide of 421 amino acids. The predicted amino acid sequence shows significant homology with those from other plant species, which contain typical domains owned by FATB proteins. The transcripts of PtFATB were abundant in leaves, and less in roots detected by using semiquantitative RT-PCR. When the shoots were subjected to the stress treatments (cold, dry, NaC1) and ABA (Abscisic acid), the expression of PtFATB was only slightly reduced under the treatment of low temperature. This suggests that the expression of PtFATB is in a constitutive fashion. This study provides the basis not only for the identification and characterization of this gene but also for the improvement of cold tolerance by controlling the expression of the PtFATB gene in trees in near future. 展开更多
关键词 Populus tomentosa Carr. Acyl-acyl carrier protein thioesterase (PtFATB) in silico and molecular cloning RT-PCR expression analysis
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The Immuno-fluorescence Quantity Analysis of α-Tubulin and γ-Tubulin Protein in Precancerous Lesion and Carcinoma of the Breast and Its Significance 被引量:1
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作者 牛昀 张彤文 +3 位作者 王颖 韦丽 魏锡胤 牛瑞芳 《Chinese Journal of Clinical Oncology》 CSCD 2008年第1期16-21,共6页
OBJECTIVE To investigate the changes and values of the expression of α-tubulin and γ-tubulin in atypical ductal hyperplasia (ADH), ductal carcinoma in situ (DCIS) and invasive ductal carcinoma (IDC) of the bre... OBJECTIVE To investigate the changes and values of the expression of α-tubulin and γ-tubulin in atypical ductal hyperplasia (ADH), ductal carcinoma in situ (DCIS) and invasive ductal carcinoma (IDC) of the breast. The relationship between centrosome abnormalities and breast tumor development was further discussed. METHODS There were three groups including ADH, DCIS and IDC with 30 cases in each group. They were analyzed by immuno-fiuorescence quantity analysis. The expression levels of α-tubulin and γ-tubulin protein in these tissues were detected by flow cytometry immuno-fiuorescence analysis and compared with the results from normal tissues. Immunohistochemistry was also performed in this research. RESULTS The results showed significant differences of the average of the positive (FITC labeled) cells (P=0.000) among the four groups. The level of the IDC group was the highest, while normal breast tissue showed the lowest level. The results suggested that the expression levels of α-tubulin and γ-tubulin both increased as the grade of cellular proliferation and differentiation increased. The expressions showed significant differences among all the groups, except between the ADH and DCIS. There were no significant differences between α-tubulin and γ-tubulin expression in each group (P〈0.05), as there was agreement in the immuno-fluorescence and immunohistochemical analysis for protein expression. CONCLUSION There is abnormal expression of centrosome tubulin as an early event in the development of breast tumor. Furthermore these aberrations may play a key role during oncogenesis and promote cellular transformation to malignancy. The immuno-fiuorescence quantitive analysis and immunohistochemistry can complement each other. 展开更多
关键词 centrosome α-tubulin protein centrosome γ-tubulin protein precancerous lesion breast carcinoma immuno-fluorescence quantity analysis.
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Cloning and Sequence Analysis of 5′ Flanking Region and Exon of Inhibin α Precursor Gene in Goats
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作者 何远清 马晓珂 张春霞 《Agricultural Science & Technology》 CAS 2009年第4期83-86,90,共5页
[Objective] The aim of this study was to reveal the relationship between inihibin (INH) α precursor gene and seasonal reproduction of goats, and investigate the evolutionary conservation of INHα precursor gene. [ ... [Objective] The aim of this study was to reveal the relationship between inihibin (INH) α precursor gene and seasonal reproduction of goats, and investigate the evolutionary conservation of INHα precursor gene. [ Method] Cloning and sequence analysis of 5' flanking region and exon of inihibinα (INHE) precursor gene in twenty ewes between non-seasonal estrous breed (Haimen goats) and seasonal estrous breed (Anhui white goats) was analyzed in this study. [ Result] Compared with Anhui white goats, INHα precursor gene in Haimen goats had three SNP but no amino acid change, while its nucleotide homology was 99.7% and amino acid homology was 100%. The nucleotide homology of INHα precursor gene in goat, cattle, pig, person, chicken, horse, rat and dog ranged from 12.7% to 96.5%. [ Conclusion] INHα precursor gene tends to be highly conserved in species, and any change of nucleotide and amino acid maybe directly influence the function of the whole gene coding and regulation. 展开更多
关键词 GOAT Reproductively Inhibin α precursor gene CLONING Sequence analysis
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Analysis of the autophagy gene expression profile of pancreatic cancer based on autophagy-related protein microtubule-associated protein 1A/1B-light chain 3 被引量:15
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作者 Yan-Hui Yang Yu-Xiang Zhang +3 位作者 Yang Gui Jiang-Bo Liu Jun-Jun Sun Hua Fan 《World Journal of Gastroenterology》 SCIE CAS 2019年第17期2086-2098,共13页
BACKGROUND Pancreatic cancer is a highly invasive malignant tumor. Expression levels of the autophagy-related protein microtubule-associated protein 1 A/1 B-light chain 3(LC3) and perineural invasion(PNI) are closely ... BACKGROUND Pancreatic cancer is a highly invasive malignant tumor. Expression levels of the autophagy-related protein microtubule-associated protein 1 A/1 B-light chain 3(LC3) and perineural invasion(PNI) are closely related to its occurrence and development. Our previous results showed that the high expression of LC3 was positively correlated with PNI in the patients with pancreatic cancer. In this study, we further searched for differential genes involved in autophagy of pancreatic cancer by gene expression profiling and analyzed their biological functions in pancreatic cancer, which provides a theoretical basis for elucidating the pathophysiological mechanism of autophagy in pancreatic cancer and PNI.AIM To identify differentially expressed genes involved in pancreatic cancer autophagy and explore the pathogenesis at the molecular level.METHODS Two sets of gene expression profiles of pancreatic cancer/normal tissue(GSE16515 and GSE15471) were collected from the Gene Expression Omnibus.Significance analysis of microarrays algorithm was used to screen differentially expressed genes related to pancreatic cancer. Gene Ontology(GO) analysis and Kyoto Encyclopedia of Genes and Genomes(KEGG) pathway analysis were used to analyze the functional enrichment of the differentially expressed genes. Protein interaction data containing only differentially expressed genes was downloaded from String database and screened. Module mining was carried out by Cytoscape software and ClusterOne plug-in. The interaction relationship between the modules was analyzed and the pivot nodes between the functional modules were determined according to the information of the functional modules and the data of reliable protein interaction network.RESULTS Based on the above two data sets of pancreatic tissue total gene expression, 6098 and 12928 differentially expressed genes were obtained by analysis of genes with higher phenotypic correlation. After extracting the intersection of the two differential gene sets, 4870 genes were determined. GO analysis showed that 14 significant functional items including negative regulation of protein ubiquitination were closely related to autophagy. A total of 986 differentially expressed genes were enriched in these functional items. After eliminating the autophagy related genes of human cancer cells which had been defined, 347 differentially expressed genes were obtained. KEGG pathway analysis showed that the pathways hsa04144 and hsa04020 were related to autophagy. In addition,65 clustering modules were screened after the protein interaction network was constructed based on String database, and module 32 contains the LC3 gene,which interacts with multiple autophagy-related genes. Moreover, ubiquitin C acts as a pivot node in functional modules to connect multiple modules related to pancreatic cancer and autophagy.CONCLUSION Three hundred and forty-seven genes associated with autophagy in human pancreatic cancer were concentrated, and a key gene ubiquitin C which is closely related to the occurrence of PNI was determined, suggesting that LC3 may influence the PNI and prognosis of pancreatic cancer through ubiquitin C. 展开更多
关键词 Pancreatic cancer Autophagy-related protein microtubule-associated protein 1A/1B-light chain 3 Perineural invasion Gene Ontology analysis Kyoto ENCYCLOPEDIA of Genes and Genomes pathway analysis Ubiquitin C
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Protein profile of human hepatocarcinoma cell line SMMC-7721:Identification and functional analysis 被引量:8
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作者 Yi Feng Zhong-Min Tian Ming-Xi Wan Zhao-Bin Zheng 《World Journal of Gastroenterology》 SCIE CAS CSCD 2007年第18期2608-2614,共7页
AIM: TO investigate the protein profile of human hepatocarcinoma cell line SMMC-7721, to analyze the specific functions of abundant expressed proteins in the processes of hepatocarcinoma genesis, growth and metastasi... AIM: TO investigate the protein profile of human hepatocarcinoma cell line SMMC-7721, to analyze the specific functions of abundant expressed proteins in the processes of hepatocarcinoma genesis, growth and metastasis, to identify the hepatocarcinoma-specific biomarkers for the early prediction in diagnosis, and to explore the new drug targets for liver cancer therapy. METHODS: Total proteins from human hepatocarcinoma cell line SMMC-7721 were separated by two-dimensional electrophoresis (2DE). The silver-stained gel was analyzed by 2DE software Image Master 2D Elite. Interesting protein spots were identified by peptide mass fingerprinting based on matrix-assisted laser desorption/ ionization time-of-flight mass spectrometry (MALDI-TOF-MS) and database searching. RESULTS: We obtained protein profile of human hepatocarcinoma cell line SMMC-7721. Among the twenty-one successfully identified proteins, mitofilin, endoplasmic reticulum protein ERp29, ubiquinol-cytochrome C reductase complex core protein I, peroxisomal enoyl CoA hydratase, peroxiredoxin-4 and probable 3-oxoacid CoA transferase 1 precursor were the six novel proteins identified in human hepatocarcinoma cells or tissues. Specific functions of the identified heat-shock proteins were analyzed in detail, and the results suggested that these proteins might promote tumorigenesis via inhibiting cell death induced by several cancer-related stresses or via inhibiting apoptosis at multiple points in the apoptotic signal pathway. Other identified chaperones and cancer-related proteins were also analyzed.CONCLUSION: Based on the protein profile of SMMC-7721 cells, functional analysis suggests that the identified chaperones and cancer-related proteins have their own pathways to contribute to the tumorigenesis, tumor growth and metastasis of liver cancer. Furthermore, proteomic analysis is indicated to be feasible in the cancer study. 展开更多
关键词 Human hepatocarcinoma cell line SMMC-7721 protein identification Functional analysis Heat-shockprotein Tumorigenesis
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Genome-wide analysis of the barley non-specific lipid transfer protein gene family 被引量:2
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作者 Mengyue Zhang Yujin Kim +5 位作者 Jie Zong Hong Lin Anne Dievart Huanjun Li Dabing Zhang Wanqi Liang 《The Crop Journal》 SCIE CAS CSCD 2019年第1期65-76,共12页
Non-specific lipid transfer proteins(nsLTPs) are small, basic proteins that are characterized by an eight-cysteine motif. The biological functions of these proteins have been reported to involve plant reproduction and... Non-specific lipid transfer proteins(nsLTPs) are small, basic proteins that are characterized by an eight-cysteine motif. The biological functions of these proteins have been reported to involve plant reproduction and biotic or abiotic stress response. With the completion of the barley genome sequence, a genome-wide analysis of nsLTPs in barley(Hordeum vulgare L.)(HvLTPs) will be helpful for understanding the function of nsLTPs in plants. We performed a genome-wide analysis of the nsLTP gene family in barley and identified 70 nsLTP genes,which can be divided into five types(1, 2, C, D, and G). Each type of nsLTPs shares similar exon and intron gene structures. Expression analysis showed that barley nsLTPs have diverse expression patterns, revealing their various roles. Our results shed light on the phylogenetic relationships and potential functions of barley nsLTPs and will be useful for future studies of barley development and molecular breeding. 展开更多
关键词 LIPID TRANSFER protein BARLEY Classification SEQUENCE analysis GENE expression
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The structural analysis of protein sequences based on the quasi-amino acids code 被引量:2
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作者 朱平 唐旭清 徐振源 《Chinese Physics B》 SCIE EI CAS CSCD 2009年第1期363-369,共7页
Proteomics is the study of proteins and their interactions in a cell. With the successful completion of the Human Cenome Project, it comes the postgenome era when the proteomics technology is emerging. This paper stud... Proteomics is the study of proteins and their interactions in a cell. With the successful completion of the Human Cenome Project, it comes the postgenome era when the proteomics technology is emerging. This paper studies protein molecule from the algebraic point of view. The algebraic system (∑, +, *) is introduced, where ∑ is the set of 64 codons. According to the characteristics of (∑, +, *), a novel quasi-amino acids code classification method is introduced and the corresponding algebraic operation table over the set ZU of the 16 kinds of quasi-amino acids is established. The internal relation is revealed about quasi-amino acids. The results show that there exist some very close correlations between the properties of the quasi-amino acids and the codon. All these correlation relationships may play an important part in establishing the logic relationship between codons and the quasi-amino acids during the course of life origination. According to Ma F et al (2003 J. Anhui Agricultural University 30 439), the corresponding relation and the excellent properties about amino acids code are very difficult to observe. The present paper shows that (ZU, +,×) is a field. Furthermore, the operational results display that the eodon tga has different property from other stop codons. In fact, in the mitochondrion from human and ox genomic codon, tga is just tryptophane, is not the stop codon like in other genetic code, it is the case of the Chen W C et al (2002 Acta Biophysiea Siniea 18(1) 87). The present theory avoids some inexplicable events of the 20 kinds of amino acids code, in other words it solves the problem of 'the 64 codon assignments of mRNA to amino acids is probably completely wrong' proposed by Yang (2006 Progress in Modern Biomedicine 6 3). 展开更多
关键词 algebraic operation quasi-amino acids code protein sequences structural analysis
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Analysis of Two-Dimensional Gel Electrophoresis Images of Protein from Posterior Silk Gland of Silkworm (Bombyx mori) on Day 1 and Day 4 in the 5th Instar Stage 被引量:2
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作者 WU Wei-cheng GAOQi-kang +7 位作者 CHEN Jin-e YE Jian QIAN Yang-wen LI Jian-ying LU Hua-yun MENG Zhi-qi NI Chun-xiao ZHONG Bo-xiong 《Agricultural Sciences in China》 CAS CSCD 2007年第2期249-254,共6页
The posterior silk gland (PSG) of silkworm is an important organ where fibroin is synthesized and secreted exclusively. Because fibroin constitutes 75-80% of the silk filament, the mechanism governing fibroin secret... The posterior silk gland (PSG) of silkworm is an important organ where fibroin is synthesized and secreted exclusively. Because fibroin constitutes 75-80% of the silk filament, the mechanism governing fibroin secretion, quality and yield of cocoon can be elucidated by the study on the PSG. Using two-dimensional gel electrophoresis (2-DE) and image analysis system, the changes in the protein composition in the PSG cell were investigated on the day 1 (D1) and day 4 (D4) in the 5th instar stage from five different strains of silkworm (Bombyx mori). While differences at protein level between days and strains were far less than those observed at the gene level using EST analysis. The change trends in protein composition from D1 to D4 were diverse among the different strains. The results suggest that the secretion of fibroin is regulated by multiple proteins. The site of regulation and the proteins responsible for the regulation vary with the strain, which leads to differences between strains in the capacity of fibroin secretion in the PSG cell. 展开更多
关键词 silkworm (Bombyx mori) silk gland protein 2-DE image analysis
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Identification of distant co-evolving residues in antigen 85C from Mycobacterium tuberculosis using statistical coupling analysis of the esterase family proteins 被引量:2
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作者 Veeky Baths Utpal Roy 《The Journal of Biomedical Research》 CAS 2011年第3期165-169,共5页
A fundamental goal in cellular signaling is to understand allosteric communication, the process by which sig-nals originating at one site in a protein propagate reliably to affect distant functional sites. The general... A fundamental goal in cellular signaling is to understand allosteric communication, the process by which sig-nals originating at one site in a protein propagate reliably to affect distant functional sites. The general principles of protein structure that underlie this process remain unknown. Statistical coupling analysis (SCA) is a statistical technique that uses evolutionary data of a protein family to measure correlation between distant functional sites and suggests allosteric communication. In proteins, very distant and small interactions between collections of amino acids provide the communication which can be important for signaling process. In this paper, we present the SCA of protein alignment of the esterase family (pfam ID: PF00756) containing the sequence of antigen 85C secreted by Mycobacterium tuberculosis to identify a subset of interacting residues. Clustering analysis of the pairwise correlation highlighted seven important residue positions in the esterase family alignments. These resi-dues were then mapped on the crystal structure of antigen 85C (PDB ID: 1DQZ). The mapping revealed corre-lation between 3 distant residues (Asp38, Leu123 and Met125) and suggests allosteric communication between them. This information can be used for a new drug against this fatal disease. 展开更多
关键词 antigen 85C Mycobacterium tuberculosis clustering analysis COVARIANCE statistical coupling analy-sis esterase family multiple sequence alignments PFAM protein Data Bank.
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Analysis on the Variation Expression of Difficult-Dissolved-Proteins of Diapause Eggs After Activating by Acid Treatment 被引量:1
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作者 ZHAO Feng LIN Jian-rong HUO Yong-kang MAO Li-ming KONG Qing-ming XU Qiu-yun ZHONG Yang-sheng WANG Ye-yuan 《Agricultural Sciences in China》 CAS CSCD 2008年第12期1474-1480,共7页
Using HCl to activate the diapause eggs is a traditional technique of artificial hatching applied in silkworm egg production. Its mechanism has not yet been clarified. This experiment explored the effect of HCl on the... Using HCl to activate the diapause eggs is a traditional technique of artificial hatching applied in silkworm egg production. Its mechanism has not yet been clarified. This experiment explored the effect of HCl on the termination of diapause of silkworm eggs cold-stored for 45 days from the point of proteomes. Two-dimensional electrophoresis techniques and ESI- MS-MS were used to compare and analyze the variation expression of difficult-dissolved-proteins of diapause eggs coldstored for 45 days before and after acid treatment. Through analysis on the two-dimensional electrophoretogram, there were 296 dots before acid treatment and 302 after the treatment, respectively. Amongst them 265 dots were matchable. The matchability reached 88.6%. There were 31 specific protein dots before acid treatment and 37 after acid treatment, respectively. ESI-MS-MS analysis was conducted for two specific protein-rich dots which disappeared after acid treatment. The results indicated that the sequence of No. 1 protein dot had 55 amino acids' peptide matched with those of chorion protein (Bombyx mori). While the sequence of No. 2 protein dot had only 15 amino acids' peptide matched with those of heat shock protein hsp 19.9 (Bombyx mori), and it was presumed to be an unknown protein. The difficult-dissolvedproteins of diapause eggs have variation expression after acid treatment. Some proteins before and after acid treatment are changed in MW. 展开更多
关键词 silkworm egg acid treatment protein ELECTROPHORESIS image analysis
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Chaos game representation of functional protein sequences,and simulation and multifractal analysis of induced measures 被引量:1
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作者 喻祖国 肖前军 +2 位作者 石龙 余君武 Vo Anh 《Chinese Physics B》 SCIE EI CAS CSCD 2010年第6期556-568,共13页
Investigating the biological function of proteins is a key aspect of protein studies. Bioinformatic methods become important for studying the biological function of proteins. In this paper, we first give the chaos gam... Investigating the biological function of proteins is a key aspect of protein studies. Bioinformatic methods become important for studying the biological function of proteins. In this paper, we first give the chaos game representation (CGR) of randomly-linked functional protein sequences, then propose the use of the recurrent iterated function systems (RIFS) in fractal theory to simulate the measure based on their chaos game representations. This method helps to extract some features of functional protein sequences, and furthermore the biological functions of these proteins. Then multifractal analysis of the measures based on the CGRs of randomly-linked functional protein sequences are performed. We find that the CGRs have clear fractal patterns. The numerical results show that the RIFS can simulate the measure based on the CGR very well. The relative standard error and the estimated probability matrix in the RIFS do not depend on the order to link the functional protein sequences. The estimated probability matrices in the RIFS with different biological functions are evidently different. Hence the estimated probability matrices in the RIFS can be used to characterise the difference among linked functional protein sequences with different biological functions. From the values of the Dq curves, one sees that these functional protein sequences are not completely random. The Dq of all linked functional proteins studied are multifractal-like and sufficiently smooth for the Cq (analogous to specific heat) curves to be meaningful. Furthermore, the Dq curves of the measure μ based on their CCRs for different orders to link the functional protein sequences are almost identical if q 〉 0. Finally, the Ca curves of all linked functional proteins resemble a classical phase transition at a critical point. 展开更多
关键词 chaos game representation recurrent iterated function systems functional proteins multifractal analysis
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Genetic Analysis of the P1 Region of Human Enterovirus 71 Strains and Expression of the 55 F StrainVP1 Protein 被引量:2
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作者 Jian-qiang Li Jun-jie Yang +5 位作者 Xiu-juan Fan Zhen-peng Sun Yan Sun Huan Li Zi-xin Meng Wei Li 《Virologica Sinica》 CAS CSCD 2012年第1期10-18,共9页
Enterovirus 71 (EV71) is a member of the Entero-virus genus of the Picomaviridae family and is the major cause of Hand, foot, and mouth disease (HFMD) in children. Different strains from Gansu were cloned and the ... Enterovirus 71 (EV71) is a member of the Entero-virus genus of the Picomaviridae family and is the major cause of Hand, foot, and mouth disease (HFMD) in children. Different strains from Gansu were cloned and the P1 protein was sequenced and analysed. Results indicate that there are three kinds of EV71 infections prevalent in Gansu. The VP 1 protein from one of these strains, 55F, was expressed. The recombinant protein was expressed with high level and reacted specifically with the EV71 patient antibody, the recombinant protein was also applied to raise antiserum in rabbits and after the fourth injection a high titer of antiserum was detected by ELISA assay. These data are useful for further clarification of prevalent EV71 strains in the north of China at the molecular level and provide a basis for EV71 diagnosis. 展开更多
关键词 EV71 Genetic analysis P1 region EXPRESSION VP1 protein
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Cloning and Expression Analysis of a Mitogen-Activated Protein Kinase Gene OsMPK14 in Rice 被引量:1
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作者 LIANG Wei-hong BI Jia-jia PENG Wei-feng ZHANG Fan SHI Hong-hao LI Li 《Rice science》 SCIE 2010年第4期269-275,共7页
Mitogen activated-protein kinases (MAPKs) are important components in signal transduction pathways responding to various biotic and abiotic stresses. An MAPK gene, OsMPK14 (GenBank Accession No. GQ265780) from ri... Mitogen activated-protein kinases (MAPKs) are important components in signal transduction pathways responding to various biotic and abiotic stresses. An MAPK gene, OsMPK14 (GenBank Accession No. GQ265780) from rice (Oryza sativa L.), was cloned by RT-PCR. The full-length cDNA of OsMPK14 consists of 1660 bp in size, containing an open reading frame of 1629 bp, which encodes a 542-amino-acid polypeptide and has a typical protein kinase domain and a phosphorylation activation motif TDY. Sequence alignment and analysis revealed that OsMPK14 was located on rice chromosome 5, and composed of nine exons and eight introns in the coding region. Semi-quantitative RT-PCR was performed to detect the expression patterns of OsMPK14 in rice shoots and roots under darkness, drought, high salinity, low temperature and abscisic acid treatments. The OsMPK14 mRNA was induced by abscisic acid, low temperature and high salinity, but weakly inhibited by drought. In addition, the expression of OsMPK14 was up-regulated in roots, but down-regulated in shoots by light. The results indicate that OsMPK14 could be implicated in diverse rice stimuli-responsive signaling cascades, and its expression might be regulated by multiple factors. 展开更多
关键词 RICE mitogen-activated protein kinase gene gene clone abiotic stress expression analysis
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