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Advances in Molecular Regulatory Mechanisms of Fruit Trees under Low Temperature Stress
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作者 Huan LIU Lijuan GAO +3 位作者 Minghui JI Longfei LI Jintao XU Baofeng HAO 《Plant Diseases and Pests》 2024年第3期46-48,共3页
The most recent research findings on the tolerance of fruit trees to cold stress are reviewed from a molecular perspective,including the perception and transduction of low temperature calcium signaling,CBF-dependent m... The most recent research findings on the tolerance of fruit trees to cold stress are reviewed from a molecular perspective,including the perception and transduction of low temperature calcium signaling,CBF-dependent molecular regulatory mechanisms,non-CBF-dependent molecular regulatory mechanisms,and so forth.The objective is to provide a reference basis for further improving the cold resistance of fruit trees and cultivating new varieties of hardy plants. 展开更多
关键词 Low temperature stress Fruit trees Growth and development molecular mechanism Research progress
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Phylogenetic Relationship and Molecular Divergence Dating Using SRY Gene Polymorphism about Four Ladoum Sheep Lineages in Senegal
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作者 Pape Madiop Sembène Fatimata Mbaye +1 位作者 Mama Racky Ndiaye Mbacké Sembène 《Open Journal of Animal Sciences》 CAS 2023年第2期179-198,共20页
Animal genetic resources are playing a vital role in livestock production and are essential to food security. The present study aims to contribute to a better understanding genetic local sheep breeds and to elucidate ... Animal genetic resources are playing a vital role in livestock production and are essential to food security. The present study aims to contribute to a better understanding genetic local sheep breeds and to elucidate the phylogenetic relationships through the evolution of the SRY gene in four different lineages of Ladoum sheep raised in Senegal. After a brief analysis of genetic diversity, the phylogenetic relationships and molecular dating were inferred through haplotype networks and four phylogenetic reconstruction methods. The different haplotype networks are constructed with NETWORK ver. 5.0.0.0 using the Median-Joining method. Phylogenetic trees were reconstructed using neighbor-joining, maximum parsimony, maximum likelihood and Bayesian inference. The robustness of the nodes in phylogenetic trees of the three first methods was assessed by 1000 bootstraps. For Bayesian inference, the posterior probability distribution of the trees was estimated by 4 MCMC chains. 5,000,000 generations were performed for each of the chains by sampling the different parameters every 1000 generations. Results show a low polymorphism. Haplotypic diversity is much higher than the average nucleotide divergence between all pairs of haplotypes. The majority and central haplotype indicates a close relationship between “Batling” and “Tyson” individuals. “Birahim” lineage is very distinct from the rest. Phylogenetic trees confirm two genetically separate clades between “Birahim” and the other lineages. The period of divergence between “Birahim” lineage versus the common ancestor of the other three lineages was 2504 years ago. The polyphyly revealed in “Birahim” lindicates that this lineage does not contain the common ancestor of all individuals who compose it. It could therefore be derived from two or more sheep breeds with a common ancestor, Ovis aries. The monophyletic clade appears to be a group including a common ancestor and all of its genetic descendants. This group, bringing together the other three lineages, is in the process of being structured into sub-lineages. This study is the first to show that there are only two genetic lines within ladoum sheep in Senegal. 展开更多
关键词 Genetic Diversity phylogenetic Relationship molecular Dating SRY Gene Sheeps Ladoum Senegal
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Molecular Characteristics and Phylogenetic Analysis of N Gene of Human Derived Rabies Virus 被引量:4
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作者 CAI Liang TAO XiaoYan +9 位作者 LIU YunZhi ZHANG Hong GAO LiDong HU ShiXiong LIU FuQiang LI Hao SHEN XinXin LIU JiaHui WANG ShiQing TANG Qing 《Biomedical and Environmental Sciences》 SCIE CAS CSCD 2011年第4期431-437,共7页
Objective To investigate the relationship between the molecular characteristics and phylogenetic evolution of rabies N gene.Methods Saliva samples were collected from rabies cases,and RT-PCR was used to amplify the N ... Objective To investigate the relationship between the molecular characteristics and phylogenetic evolution of rabies N gene.Methods Saliva samples were collected from rabies cases,and RT-PCR was used to amplify the N gene of rabies virus with the specific primers.The amplifying product of RT-PCR was cloned to pUCm-T vector and transformed into E.coli XL1-Blue and then the blue-white selection,PCR screening and gene sequencing were carried out to identify the positive clones.Finally,ExPASy and other bioinformatics softwares were used to analyze and predict the structure and biological characteristics of the N genome.Results The amplification product of RT-PCR was 1 353 bp,the recombinant plasmid pUCm-T/N was constructed,the whole length of the N gene open reading frame was composed of 1 353 nucleotide residues to code 450 amino acids (20 kinds),the accession number submitted to the Genbank was HM756692,its sequence homology of nucleotides and amino acids compared with the vaccine strain CTN-1-V was 90% and 99% respectively.The evolutionary analysis showed that the isolated strain belonged to genotype I with certain geographic regionality.Conclusion The characteristics investigation and bioinformatics analysis of Hunan0806 N gene will provide fundament data to reveal the significance of the N gene characteristics for rabies epidemiology and its prevention control. 展开更多
关键词 RABIES N gene molecular Characteristics phylogenetic
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Characterization of Avian Influenza A(H7N9) Virus Prevalence in Humans and Poultry in Huai′an,China:Molecular Epidemiology,Phylogenetic,and Dynamics Analyses 被引量:3
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作者 YANG Peng Fei YAN Qing Li +6 位作者 LIU Chun Cheng XING Ya Dong ZHANG Min Hui GAO Qiang YU Hao YAO Hai Bo HE Nan Jiang 《Biomedical and Environmental Sciences》 SCIE CAS CSCD 2016年第10期742-753,共12页
Objective To trace the source of human H7N9 cases in Huai'an and elucidate the genetic characterization of Huai'an strains associated with both humans and birds in live poultry market.Methods An enhanced surveillanc... Objective To trace the source of human H7N9 cases in Huai'an and elucidate the genetic characterization of Huai'an strains associated with both humans and birds in live poultry market.Methods An enhanced surveillance was implemented when the first human H7N9 case was confirmed in Huai'an.Clinical specimens,cloacal swabs,and fecal samples were collected and screened by real-time reverse transcription-polymerase chain reaction(RT-PCR) for H7N9 virus.The positive samples were subjected to further RT-PCR and genome sequencing.The phylodynamic patterns of H7N9 virus within and separated from Huai'an and evolutionary dynamics of the virus were analyzed.Results Six patients with H7N9 infection were previously exposed to live poultry market and presented symptoms such as fever(〉38.0 °C) and headaches.Results of this study support the hypothesis that live poultry markets were the source of human H7N9 exposure.Phylogenetic analysis revealed that all novel H7N9 viruses,including Huai'an strains,could be classified into two distinct clades,A and B.Additionally,the diversified H7N9 virus circulated in live poultry markets in Huai'an.Interestingly,the common ancestors of the Huai'an H7N9 virus existed in January 2012.The mean nucleotide substitution rates for each gene segment of the H7N9 virus were(3.09-7.26)×10-3 substitutions/site per year(95% HPD:1.72×10-3 to 1.16×10-2).Conclusion Overall,the source of exposure of human H7N9 cases in Huai'an was live poultry market,and our study highlights the presence of divergent genetic lineage of H7N9 virus in both humans and poultry specimens in Huai'an. 展开更多
关键词 molecular epidemiology H7N9 Virus phylogenetic tree Phylodynamic analysis
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Phylogenetics and Molecular Divergence of Tilapia Fish (Oreochromis Species) Using Mitochondrial D-Loop and Cytochrome b Regions 被引量:1
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作者 Ekerette Emmanuel Ekerette Ekei Victor Ikpeme +5 位作者 Ogbuagu Ugorji Udensi Michael Ohiokhuaobo Ozoje Owoidihe Monday Etukudo Anthony John Umoyen Samuel Olutunde Durosaro Matthew Wheto 《American Journal of Molecular Biology》 2018年第1期39-57,共19页
Understanding the level of genetic diversity in any population is an important requisite towards strategizing measures for conservation and improvement of stocks. This study focused on the assessment of phylogenetics ... Understanding the level of genetic diversity in any population is an important requisite towards strategizing measures for conservation and improvement of stocks. This study focused on the assessment of phylogenetics and molecular divergence of tilapia fish species obtained from two populations (Domita in South-South and Odeda in South-West, Nigeria) using the displacement loop (D-loop) and cytochrome b region of the mitochondrial deoxyribonucleic acid (mtDNA). A total of 28 samples (15 from South-South and 13 from South-West) were used for the genetic analysis. DNA was extracted from the tissue of all the samples using Quik-gDNATM miniPrep kit. The D-loop containing the hypervariable region was sequenced for all samples from the two populations, while cytochrome b (Cyt b) region of mtDNA was only sequenced for samples from South-South population. Chromatograms of the sequences were viewed and edited using Bioedit software. Multiple sequence alignment was carried out using molecular evolutionary genetic analysis (MEGA) software before subsequent genetic analyses. Phylogenetic analysis grouped the samples into two clusters based on population. Also, when the two mitochondrial regions were pooled together, they clustered into two major groups based on mitochondrial regions. Analysis of molecular variance (AMOVA) revealed 37.32% variation within population and 62.68% variation among population with a significant fixation index of 0.627 (p 0.05). The genetic distance inferred between D-loop regions of South-South and South-West populations was 0.243. Maternal lineage analysis revealed that the origin of tilapia fish from both populations could be traced to Oreochromis spirilus and Oreochromis leucostictus based on mitochondrial D-loop region. The findings of this study revealed molecular divergence among the tilapia populations and may serve as pivot information for the genetic improvement of this important species. 展开更多
关键词 phylogeneticS molecular DIVERGENCE Maternal LINEAGE TILAPIA FISH
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Molecular Cloning and Phylogenetic Analysis of a Chitin Deacetylase Isolated from the Epidermis of the Red Snow Crab <i>Chionoecetes japonicas</i> 被引量:1
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作者 Kakeru Fujimori Hideto Fukushima Masahiro Matsumiya 《Advances in Bioscience and Biotechnology》 2018年第1期52-62,共11页
Chitin deacetylase (CDA;EC 3. 5. 1. 41) catalyzes the deacetylation of chitin. In this study, we successfully cloned and sequenced a chitin deacetylase gene from the red snow crab Chionoecetes japonicas. By using reve... Chitin deacetylase (CDA;EC 3. 5. 1. 41) catalyzes the deacetylation of chitin. In this study, we successfully cloned and sequenced a chitin deacetylase gene from the red snow crab Chionoecetes japonicas. By using reverse transcription-polymerase chain reaction (RT-PCR) and 5' and 3' rapid amplification of cDNA ends, we obtained a 2141-bp amplicon containing a chitin deacetylase gene (CjCDA) from the epidermis of C. japonicas. The amplicon contains a 1575-bp open reading frame that is predicted to encode a 525-amino acid protein. The structure predicted from the deduced amino acid sequence included an N-terminal signal peptide, chitin-binding domain (CBD), low-density lipoprotein receptor class A domain (LDL-A), and catalytic domain. Comparative analysis of the deduced amino acid sequence of CjCDA revealed the highest homology (74%) to gastrolith protein 59 of Cherax quadricarinatus. We used RT-PCR to evaluate the expression of CjCDA in various tissues of C. japonicas, and we observed that CjCDA was expressed only in the epidermis. A phylogenetic analysis, using the amino acid sequences of CjCDA and other known chitin deacetylases, showed that CjCDA belonged to a group of crustacean chitin deacetylases. To our knowledge, this is the first study reporting the cDNA cloning of a chitin deacetylase from a crab. 展开更多
关键词 CHITIN DEACETYLASE molecular Cloning Chionoecetes japonicas phylogenetic ANALYSIS Expression ANALYSIS
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Molecular Phylogeny of the “True Citrus Fruit Trees” Group (Aurantioideae, Rutaceae) as Inferred from Chloroplast DNA Sequence
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作者 LU Zhen-hua ZHOU Zhi-qin XIE Rang-jin 《Agricultural Sciences in China》 CAS CSCD 2011年第1期49-57,共9页
The genus Citrus L. has a long controversial taxonomy history, and a well-resolved molecular phylogeny of the "true citrus fruit trees" group in the future will provide new information for advancing breeding techniq... The genus Citrus L. has a long controversial taxonomy history, and a well-resolved molecular phylogeny of the "true citrus fruit trees" group in the future will provide new information for advancing breeding techniques and developing better conservation strategies. In the present study, three cpDNA fragments (TrnL-TrnF, PsbH-PetB, and TrnS-TrnG) of 30 genotypes chosen from the six genera of the "true citrus fruit trees" group were analyzed. A molecular phylogenetic tree of the "true citrus fruit trees" group "~as reconstructed based on plastid DNA sequences. The results confirmed that the "true citrus fruit trees" group was monophyletic, and thereby the group was divided into genera as previously suggested based on morphological characters. The cpDNA data also suggested that Poncirus might be the first genus separated from the other five genera in the group. The genus Fortunella were of hybrid origin and Citrus might be as its putative paternal parent. The genera Microcitrus, Eremocitrus, and Clymenia were possibly monophyletic and their common ancestor might branch out from Citrus. Furthermore, the phylogenetic relationships within the Citrus genus were discussed. 展开更多
关键词 RUTACEAE Aurantioideae true citrus fruit trees group molecular phylogenetics cpDNA sequence
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Prevalence of cercarial infections in freshwater snails and morphological and molecular identification and phylogenetic trends of trematodes
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作者 Chadaporn Dunghungzin Thapana Chontananarth 《Asian Pacific Journal of Tropical Medicine》 SCIE CAS 2020年第10期439-447,共9页
Objective:To investigate the prevalence of cercarial infections in freshwater snails from several water sources in Nakhon Nayok,Nonthaburi,and Pathum Thani provinces of Central Thailand,and to reconstruct a phylogenet... Objective:To investigate the prevalence of cercarial infections in freshwater snails from several water sources in Nakhon Nayok,Nonthaburi,and Pathum Thani provinces of Central Thailand,and to reconstruct a phylogenetic tree for improved understanding of the relationships in the cercarial stage.Methods:The snail specimens were collected from 34 total sampling sites and investigated for cercarial infections using the crushing method.The cercarial specimens were classified and used for the phylogenetic tree analysis using the Internal Transcribed Spacer 2(ITS2).Results:A total of 1921 snail specimens were classified into five families and seven species.The results showed that four snail species were identified as intermediate hosts of the larval stages of trematodes,with an overall prevalence of infection of 2.45%(47/1921).The infected snail specimens included five groups of the cercarial type:cercariaeum cercariae,echinostome cercaria,megalurous cercaria,parapleurolophocercous cercaria,and xiphidiocercariae.This is particularly true of xiphidiocercariae,which was found to be the dominant type among cercarial infections in bithyniid snails by approximately 38.00%.With regard to molecular identification,the phylogenetic tree was reconstructed using the neighbor-joining method with 10000 bootstraps and separated the trematodes into three clades:Echinostomatoidea,Microphalloidea and Opisthorchioidea.Conclusions:The study reveals a high prevalence of cercarial infection for each cercarial type and maturation into a definite trematode genus and delineates morphological characteristics and evolutionary trends among each larval trematode in Nakhon Nayok,Nonthaburi and Pathum Thani provinces.In addition,the ITS2 sequence data of cercariae could be used to examine classification of these species at the family level. 展开更多
关键词 CERCARIA Freshwater snails molecular identification phylogenetic tree PREVALENCE Thailand
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A simple way to visualize detailed phylogenetic tree of huge genome-wide SNP data constructed by SNPhylo
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作者 YANG Hai-long DONG Le +3 位作者 WANG Hui LIU Chang-lin LIU Fang XIE Chuan-xiao 《Journal of Integrative Agriculture》 SCIE CAS CSCD 2018年第9期1972-1978,共7页
Phylogenetic trees based on genome-wide single nucleotide polymorphisms (SNPs) among diverse inbreds could provide valuable and intuitive information for breeding and germplasm management in crops. As a result of se... Phylogenetic trees based on genome-wide single nucleotide polymorphisms (SNPs) among diverse inbreds could provide valuable and intuitive information for breeding and germplasm management in crops. As a result of sequencing technology developments, a huge amount of whole genome SNP data have become available and affordable for breeders. However, it is a challenge to perform quick and reliable plotting based on the huge amount of SNP data. To meet this goal, a visualization pipeline was developed and demonstrated based on publicly available SNP data from the current important maize inbred lines, including temperate, tropical, sweetcorn, and popcorn. The detailed phylogenetic tree plotted by our pipeline revealed the authentic genetic diversity of these inbreds, which was consistent with several previous reports and indicated that this straightforward pipeline is reliable and could potentially speed up advances in crop breeding. 展开更多
关键词 phylogenetic tree SNP genetic diversity
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Molecular phylogenetic analysis of sulfate-reducing bacteria from deep sediment layers of the tropical West Pacific warm pool
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作者 LUO Zhuhua YE Dezan HUANG Xiangling 《Acta Oceanologica Sinica》 SCIE CAS CSCD 2006年第3期98-107,共10页
The diversity of sulfate-reducing bacteria (SRB) from deep layers of deep-sea sediments [ more than 2 m bsf (below seafloor) ] of two sites (WO1 -3 and WPO1 -4) in a tropical West Pacific warm pool region was ch... The diversity of sulfate-reducing bacteria (SRB) from deep layers of deep-sea sediments [ more than 2 m bsf (below seafloor) ] of two sites (WO1 -3 and WPO1 -4) in a tropical West Pacific warm pool region was characterized by using molecular phylogenetic analysis. The results of culture-independent samples demonstrated that the dominant clones from both sites were related to Grampositive spore forming genus, Desulfotomaculum, which accounted for 36.8% of all the sequencing clones from Site WP01 - 3 and 62.8% from Site WP01 -4. However, the other SRB group which was generally reported to be predominant in the deep-sea sediments of other regions, δ- subclass of the proteobacteria was found to be in very low percentages. Therefore, it could be speculated that there existed a unique chemical environment in the deep-sea sediment of this warm pool region. When comparing the Desulfotomaculum sp. related sequences from both sites, it was revealed that though the Desulfotomaculum-like sequences from Site WP01 -3 were more diverse than those from Site WP01 -4, all these sequences from both sites showed high similarity and formed a new phylogenetically homogeneous cluster in the Desulfotomaculum genus which had never been reported before. Successful enrichment of SRB was only achieved from samples of Site WP01 -4 and the sequence analysis of culture-dependent samples further confirmed the dominance of Desulfotomaculum genus. But Desulfotomaculum-related sequences from culture-dependent and culture-independent samples belonged to two different clusters respectively. This difference showed the choice of cultivation to the microorganisms. 展开更多
关键词 sulfate-reducing bacteria deep sediment tropical West Pacific warm pool molecular phylogenetic analysis
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Predicting the Underlying Structure for Phylogenetic Trees Using Neural Networks and Logistic Regression
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作者 Hassan W. Kayondo Samuel Mwalili 《Open Journal of Statistics》 2020年第2期239-251,共13页
Understanding an underlying structure for phylogenetic trees is very important as it informs on the methods that should be employed during phylogenetic inference. The methods used under a structured population differ ... Understanding an underlying structure for phylogenetic trees is very important as it informs on the methods that should be employed during phylogenetic inference. The methods used under a structured population differ from those needed when a population is not structured. In this paper, we compared two supervised machine learning techniques, that is artificial neural network (ANN) and logistic regression models for prediction of an underlying structure for phylogenetic trees. We carried out parameter tuning for the models to identify optimal models. We then performed 10-fold cross-validation on the optimal models for both logistic regression?and ANN. We also performed a non-supervised technique called clustering to identify the number of clusters that could be identified from simulated phylogenetic trees. The trees were from?both structured?and non-structured populations. Clustering and prediction using classification techniques were?done using tree statistics such as Colless, Sackin and cophenetic indices, among others. Results from 10-fold cross-validation revealed that both logistic regression and ANN models had comparable results, with both models having average accuracy rates of over 0.75. Most of the clustering indices used resulted in 2 or 3 as the optimal number of clusters. 展开更多
关键词 Artificial NEURAL Networks LOGISTIC Regression phylogenetic tree tree STATISTICS Classification Clustering
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Isolation, Molecular and Phylogenetic Analysis of Porcine Encephalomyocarditis Virus Strain HLJ in China
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作者 Yin Xue-ting Liu Peng +4 位作者 Zou Meng-meng Liu Hao-yun Huang Xiao-dan Ren Yu-dong Li Guang-xing 《Journal of Northeast Agricultural University(English Edition)》 CAS 2021年第4期68-77,共10页
Encephalomyocarditis virus(EMCV)is a positive single-stranded small RNA virus without envelope,which can infect a variety of mammals.Swines are the most susceptible animals,which can cause acute myocarditis and respir... Encephalomyocarditis virus(EMCV)is a positive single-stranded small RNA virus without envelope,which can infect a variety of mammals.Swines are the most susceptible animals,which can cause acute myocarditis and respiratory failure in piglets and reproductive failure in pregnant sows.Diseases caused by EMCV have a wide range of effects on the global swine industry.In this study,a strain of EMCV was isolated from a swine aborted fetus in northeast China.It was identified by reverse transcriptase polymerase chain reaction(RT-PCR),electron microscopic observation and indirect immunofluorescence assay.The subsequent results showed that the virus titer of HLJ strain grew to 8.3 lgTCID50 on baby hamster kidney 21(BHK-21)cells.And HLJ strain caused the specific cytopathic effect(CPE)on BHK-21 cells and severe pathological changes in mice.Complete genome sequencing and multiple sequence alignment showed that the homology between HLJ strain and other isolates worldwide was 71.5%-99.7%.Phylogenetic analysis showed that EMCV isolates fell into five clusters:lineageⅠ,Ⅱ,Ⅲ,ⅣandⅤ,based on the nucleotide sequences of the entire open reading frame(ORF)and VP1 gene.HLJ isolate was grouped into lineage I.The analyses of amino acid mutation sites of VP1 protein showed that the amino acids at positions 20 and 54 in VP1 junction were unique to HLJ strain.The isolation of HLJ strain enriched the epidemiological database of EMCV. 展开更多
关键词 Encephalomyocarditis virus ISOLATION molecular and identification phylogenetic analysis
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Using DNA Sequences and Phylogenetic Trees as Tools for Teaching Entomology to Undergraduate Students: A Simple Approach
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作者 Mohammad Ali Al-Deeb 《Advances in Entomology》 2021年第4期147-154,共8页
This technical note aims to show how any instructor teaching entomology can use the Basic Local Alignment Search Tool (BLAST) and the “one click” mode of Phylogeny.fr to teach undergraduate students about insect DNA... This technical note aims to show how any instructor teaching entomology can use the Basic Local Alignment Search Tool (BLAST) and the “one click” mode of Phylogeny.fr to teach undergraduate students about insect DNA similarity in a simple way. Teaching an entomology course requires the use of numerous tools to help students grasp different concepts. Knowing that there are more than one million described species of insects means that teaching students about insect identification and taxonomy can be challenging. However, here we present two easy exercises that could be used as classroom or </span><span style="font-family:Verdana;">take-home assignments to demonstrate various levels of DNA similarity</span><span style="font-family:Verdana;"> among different insect taxa. Such exercises unlock students’ creativity and break the barrier of fear of bioinformatics. Moreover, they open up new ways for them to understand insect taxonomy through molecular biology and allow them to develop new skills that contribute to strengthening their scientific performance in the future, especially when they do research as graduate students. </span><span style="font-family:Verdana;">Finally, this note is an example of how to integrate simple bioinformatics </span><span style="font-family:Verdana;">tools into the teaching of entomology. 展开更多
关键词 DNA Sequence phylogenetic tree GENBANK TEACHING ENTOMOLOGY
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Molecular cloning,expression pattern and phylogenetic analysis of Guanine nucleotide exchange factor Vav2 in lamprey,Lampetra japonica
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作者 HAN Yinglun LI Jun +5 位作者 XU Lei MA Qinghua GOU Meng PANG Yue LIU Xin LI Qingwei 《Acta Oceanologica Sinica》 SCIE CAS CSCD 2017年第12期24-30,共7页
The Guanine nucleotide exchange factor Vav2(Vav2) is a member of the Vav family that serves as an important regulators for the Rho family of Ras-related GTPases. In the current study, an ortholog(Lj-Vav2) of Vav2 ... The Guanine nucleotide exchange factor Vav2(Vav2) is a member of the Vav family that serves as an important regulators for the Rho family of Ras-related GTPases. In the current study, an ortholog(Lj-Vav2) of Vav2 was identified in the lamprey(Lampetra japonica). To elucidate the phylogenetic relationship of Vav2, the metazoan genome databases were analyzed to mine the ortholog of Vav. It was found that Vav2 genes were only existed in vertebrates and Lj-Vav2 was the original one found in agnathans. The evolutionary dynamics of conserved motifs of Vav2 were explored using combined amino acid sequence as markers, and it is revealed that the Calponin homology(CH) domain, Dbl-homologous(DH) domain, Pleckstrin homology(PH) domain, Cysteine-rich(C1)domains, Src homology 3(SH3) domains and Src homology 2(SH2) domain were conserved throughout the Vav2 gene family in vertebrates during gene evolution. Relative quantitative real-time PCR analysis showed that the LjVav2 was distributed in the heart, kidney, supraneural myeloid body, liver, gill and lymphocyte-like cells. The LjVav2 was found to be expressed in these tissues, and the level of which was upregulated in lymphocyte-like cells after the animal was stimulated with LPS. These results indicated that the Lj-Vav2 might be involved in the immune response of lymphocyte-like cells in lamprey. Meanwhile, our findings provided a foundation for further investigation of the function of Lj-Vav2 in the primary vertebrate. 展开更多
关键词 guanine nucleotide exchange factor Vav2 Lampetra japonica phylogenetic relationship molecular cloning
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Application of Molecular Marker Technology in the Study of Forest Tree Species
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作者 Yini YAO Fatao HE +4 位作者 Yan ZHAO Yuan MENG Yanrui MA Le CHU Guangpeng LIU 《Asian Agricultural Research》 2022年第12期32-35,共4页
Due to its unique advantages, molecular marker technology is widely applied in the research of forest tree species. This paper reviewed the application of molecular marker technology in tree species resource diversity... Due to its unique advantages, molecular marker technology is widely applied in the research of forest tree species. This paper reviewed the application of molecular marker technology in tree species resource diversity, germplasm identification, genetic map construction, gene mapping and marker-assisted selection (MAS) breeding. In addition, it elaborated the great significance of molecular marker technology to promote the sustainable development of forestry production in China. 展开更多
关键词 molecular marker Species resource identification Randomly amplified polymorphic DNA(RAPD) Forest tree breeding
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我国华东与华南地区养殖鱼类迟缓爱德华氏菌分离株的多样性分析
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作者 李素一 池洪树 +2 位作者 陈斌 张晓佩 许斌福 《中国人兽共患病学报》 CAS CSCD 北大核心 2024年第2期147-153,共7页
目的对17株来源于我国华东与华南地区的养殖鱼类迟缓爱德华氏菌(Edwardsiella tarda)分离株进行多样性分析。方法通过菌体血清凝集试验及16S rRNA与hsp60部分基因序列的聚类分析。结果菌体血清凝集试验结果显示,鳗源迟缓爱德华氏菌ETY的... 目的对17株来源于我国华东与华南地区的养殖鱼类迟缓爱德华氏菌(Edwardsiella tarda)分离株进行多样性分析。方法通过菌体血清凝集试验及16S rRNA与hsp60部分基因序列的聚类分析。结果菌体血清凝集试验结果显示,鳗源迟缓爱德华氏菌ETY的抗O血清可凝集大部分鱼源迟缓爱德华氏菌;人源迟缓爱德华氏菌标准株ATCC15947的抗O血清仅与鱼源迟缓爱德华氏菌WY37有交叉凝集;鲶鱼爱德华氏菌EIV的抗O血清与鱼源迟缓爱德华氏菌无交叉凝集。2株鱼源迟缓爱德华氏菌AL60306NA1和E29L与以上3种爱德华氏菌抗O血清不发生凝集反应。基于16S rRNA及hsp60部分基因序列构建的系统发育进化树显示,来源于不同地区的绝大部分鱼源迟缓爱德华氏菌分离株进化同源性较高,在基于16S rRNA构建的系统进化树中,山东地区分离自大菱鲆的迟缓爱德华氏菌聚为一支。3株鱼源迟缓爱德华氏菌AL60306NA1、E29L、GK4与人源迟缓爱德华氏菌ATCC15947及人源鲶鱼爱德华氏菌EIV有一定亲缘关系。结论我国华东、华南地区的鱼源迟缓爱德华氏菌分离株普遍具有相似的血清型和较高的进化同源性,并与人源的迟缓爱德华氏菌、人源的鲶鱼爱德华氏菌有明显差异。个别鱼源迟缓爱德华氏菌血清型与分子系统进化分析结果不一致,提示在防控鱼类爱德华氏菌病时,应将菌体表面抗原的免疫原性与分子聚类分析相结合。 展开更多
关键词 迟缓爱德华氏菌 血清型 16S rRNA HSP60 系统进化树
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木材分子考古研究进展
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作者 焦立超 陆杨 +1 位作者 郭雨 殷亚方 《林业科学》 EI CAS CSCD 北大核心 2024年第2期118-127,共10页
木材考古学研究是推动木质文物自然和历史信息挖掘、保护和修复的重要基础。近年来,随着古DNA捕获和测序技术的快速发展,从木质遗存中可获取古DNA信息,在木材解剖学基础上,创新开展以古DNA为核心的木材分子考古研究已成为木材考古学的... 木材考古学研究是推动木质文物自然和历史信息挖掘、保护和修复的重要基础。近年来,随着古DNA捕获和测序技术的快速发展,从木质遗存中可获取古DNA信息,在木材解剖学基础上,创新开展以古DNA为核心的木材分子考古研究已成为木材考古学的前沿热点。本文首先对木材分子考古研究进行概述,从古DNA的保存和降解、获取以及数据处理和序列分析3方面归纳木材古DNA的研究进展,并指出古DNA因高度降解、含量极低和化学损伤特征导致其难于提取和信息解译的难题。然后总结木材分子考古在解读先民认知与利用森林资源方式、复原历史时期地域性森林植被类型和物种多样性以及重建古代树木应对气候和生境变化的微进化反应等方面的主要应用。最后提出该研究领域未来应优先开展的工作:1)建立考古木材标本库及其DNA信息数据库;2)研究不同时空维度下木材古DNA损伤及变化规律;3)构建稳定高效的木材古DNA提取及序列信息解译技术体系。通过进一步加强木材分子考古等多学科交叉研究,推动新理论、新方法、新技术在木材学和考古学领域的应用,为木质文物的用材树种识别、保护利用以及重建历史时期森林植被、环境气候与人类活动的耦合关系提供重要科学依据。 展开更多
关键词 木质遗存 古DNA 树种 DNA提取 DNA损伤 分子考古
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关于我国林木育种向智能分子设计育种发展的思考
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作者 康向阳 《北京林业大学学报》 CAS CSCD 北大核心 2024年第3期1-7,共7页
“作物育种4.0”的提出,为我国林木遗传育种指明了向智能分子设计育种发展的前进方向。本文提出了理想品种的概念及其智能设计实现条件,简要综述了我国林木遗传育种研究历史以及存在的问题,并提出了推动我国林木智能分子设计育种的发展... “作物育种4.0”的提出,为我国林木遗传育种指明了向智能分子设计育种发展的前进方向。本文提出了理想品种的概念及其智能设计实现条件,简要综述了我国林木遗传育种研究历史以及存在的问题,并提出了推动我国林木智能分子设计育种的发展对策等。林木遗传育种应该瞄准国家林业重大需求,有组织地选择重要树种系统布局,在推动树种高世代遗传改良及其利用的同时,准备系谱关系清晰的育种资源群体,做到等位变异有迹可循;解析重要性状遗传变异规律及其调控网络,实现基因调控有据可查;建立高效的多组学大数据整合分析以及育种群体构建、亲本选配和后代选择等分子设计育种技术方法体系,保证智能育种有“法”可依等。逐步解决我国林木遗传育种中存在的问题,为实施林木智能设计育种创造理想条件。在每一育种世代品种向理想品种选育的推进过程中,尽可能将智能分子设计育种的最新理论和技术成果应用于育种实践,选育出高产、优质、高抗的当前世代理想品种,满足国家林业发展的现实需要。 展开更多
关键词 林木育种 理想品种 常规育种 智能分子设计育种 育种发展对策
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水生动物病原菌Ⅵ型分泌系统(T6SS)及其溶血素共调节蛋白研究进展
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作者 伍水龙 黄瑜 +3 位作者 王蓓 汤菊芬 蔡佳 简纪常 《大连海洋大学学报》 CAS CSCD 北大核心 2024年第1期162-171,共10页
Ⅵ型分泌系统(typeⅥsecretion system,T6SS)是多种革兰氏阴性菌编码的蛋白分泌装置,在毒力因子释放、生物被膜形成、铁离子摄取、囊泡运输、环境压力适应性及细菌胞内存活等方面发挥着重要功能,在副溶血弧菌(Vibrio parahaemolyticus)... Ⅵ型分泌系统(typeⅥsecretion system,T6SS)是多种革兰氏阴性菌编码的蛋白分泌装置,在毒力因子释放、生物被膜形成、铁离子摄取、囊泡运输、环境压力适应性及细菌胞内存活等方面发挥着重要功能,在副溶血弧菌(Vibrio parahaemolyticus)、溶藻弧菌(Vibrio alginolyticus)、哈维氏弧菌(Vibrio harveyi)、嗜水气单胞菌(Aeromonas hydrophila)和迟钝爱德华氏菌(Edwardsiella tarda)等水生动物病原菌的致病过程中发挥着关键作用。然而,有关水生动物病原菌T6SS组分及其功能的报道还比较匮乏。本文对几种水生动物病原菌T6SS的生物学功能与调控机理,以及T6SS关键调控因子溶血素共调节蛋白Hcp的系统进化关系与功能等最新研究情况进行了综述,并在水生动物病原菌T6SS的生物学功能、T6SS活性调控与环境因素的关联性、T6SS与致病菌代谢之间的调控关系等方面提出未来研究建议,以期为进一步开展水生动物致病机制研究及水产养殖细菌病的防控提供新思路。 展开更多
关键词 Ⅵ型分泌系统 水生动物病原菌 溶血素共调节蛋白 系统进化树 功能位点
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6株禽源滑液囊支原体分离株的分子生物学鉴定及MSPB蛋白原核表达
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作者 孙佳琳 司朵朵 +3 位作者 王建东 李继东 李生虎 何生虎 《动物医学进展》 北大核心 2024年第2期22-28,共7页
从分子水平对6株禽源滑液囊支原体(Mycoplasma synoviae,MS)分离株进行鉴定,探讨MS宁夏本地株膜蛋白MSPB的生物学功能。通过PCR技术扩增分离株的16S rRNA和MSPB基因序列,并构建分子进化树,对6株MS分离株进行同源性分析;用生物信息学工具... 从分子水平对6株禽源滑液囊支原体(Mycoplasma synoviae,MS)分离株进行鉴定,探讨MS宁夏本地株膜蛋白MSPB的生物学功能。通过PCR技术扩增分离株的16S rRNA和MSPB基因序列,并构建分子进化树,对6株MS分离株进行同源性分析;用生物信息学工具对MSPB在蛋白水平进行分析,预测其亚细胞定位,探究MSPB的理化性质。构建pET-30a-MSPB重组表达载体,在大肠埃希氏菌BL 21(DE3)中进行表达,用镍柱亲和层析纯化并用蛋白质免疫印迹验证其反应原性。结果6株MS分离株在16S rRNA基因序列上与MS参考菌株具有同源性;MSPB等电点低,疏水性氨基酸占比较高;成功对MSPB进行表达,大小约为70 ku,纯化所得MSPB蛋白能与MS阳性血清特异结合。结果表明,6株菌株为MS,而MSPB具有反应原性,可以作为候选抗原应用于MS的诊断或防控。 展开更多
关键词 禽滑液囊支原体 16S rRNA MSPB蛋白 系统进化树 序列分析 反应原性
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