检索结果-南通市图书馆

Complete genome sequence of two strawberry vein banding virus isolates from China

BIOCELL 2021年第6期45卷 1695-1702页

作者： LEI JIANG SHUAI LI XIZI JIANG TONG JIANG School of Plant Protection Anhui Agricultural UniversityHefei230036China Anhui Province Key Laboratory of Integrated Pest Management on Crops Hefei230036China Key Laboratory of Biology and Sustainable Management of Plant Diseases and Pests of Anhui Higher Education Institutes Anhui Agricultural UniversityHefei230036China

It was rarely reported about strawberry vein banding virus(SVBV)genome sequence in China and most countries worldwide.In this work,we determined the Complete genome sequences of two SVBV isolates in China,designated SVBV-AH and SVBV-BJ,that were obtained from naturally infected strawberry samples from Anhui province and Beijing city of China,respectively.The Complete genomes of SVBV-AH and SVBV-BJ were 7,862 nucleotides(nts)and 7,863 nts long,respectively,and both constituted with seven genes typical of the caulimoviruses.Alignment of complete nucleotide sequences showed that SVBV-AH and SVBV-BJ shared a significant nucleotide sequence identity of 97.7%of each other and had 85.7%and 86.0%sequence identity related to SVBV from the United States(SVBV-US),respectively.Phylogenetic trees,based on the alignment of complete nucleotide sequences and amino acid sequences of Coat Protein(CP),both showed that SVBV-AH and SVBV-BJ clustered into one branch with all the other SVBV isolates,and other species of caulimoviruses clustered into another tree branch.It illustrated that all the SVBV isolates had an extremely high relationship but had a distant relationship with other species of caulimoviruses.We further confirmed that SVBV-AH infectious clone could cause similar symptoms to SVBVinfected in strawberry under natural conditions.Taken together,our study provided valuable information to elucidate the origin and dissemination of SVBV Chinese isolates,meanwhile providing the necessary vector for studying the gene functions of strawberry.

关键词： Strawberry vein banding virus Chinese isolate Complete genome Coat Protein(CP) Phylogenetic analysis Infectious clone

来源：

维普期刊数据库评论

在线全文

维普期刊数据库

学校读者我要写书评

暂无评论

Complete genome analysis of bacteriochlorophyll acontaining Roseicitreum antarcticum ZS2-28^(T)reveals its adaptation to Antarctic intertidal environment

引用

Advances in Polar Science 2021年第1期32卷 20-27页

作者： ZENG Yinxin YU Yong LI Huirong LUO Wei DING Haitao MNR Key Laboratory for Polar Science Polar Research Institute of ChinaShanghai 200136China

Aerobic anoxygenic phototrophic bacteria(AAPB)are photoheterotrophic prokaryotes able to use both light and dissolved organic matter as energy sources.Roseicitreum antarcticum ZS2-28^(T)was isolated from intertidal sediment in the Larsemann Hills,Princess Elizabeth Land,Antarctica,and was able to produce bacteriochlorophyll a.It is the type strain of the sole species within the genus Roseicitreum.The Complete genome sequence of the bacterium was determined using Illumina HiSeq X and PacBio RSII systems.The genome of R.antarcticum ZS2-28^(T)was 4253095 bp and consisted of one chromosome and four plasmids.A number of genes related to the bacteriochlorophyll a production,photosynthetic reaction,cold adaptation,salt adaptation,ultra-violet resistance and DNA damage repairing were found in the genome.In addition to genomic islands and typeⅣsecretion systems,genes related to gene transfer agents were detected in the genome of R.antarcticum ZS2-28^(T),suggesting that this bacterium can adapt to its environment by acquiring exogenous nucleic acids.The annotated Complete genome sequence provides genetic insights into the environmental adaptation and ecological function of R.antarcticum ZS2-28^(T)in Antarctic coastal area.

关键词： Roseicitreum Complete genome adaptation gene transfer strain intertidal sediment Antarctic

来源：

维普期刊数据库

同方期刊数据库评论

在线全文

学校读者我要写书评

暂无评论

The nearly complete assembly of the Cercis chinensis genome and Fabaceae phylogenomic studies provide insights into new gene evolution

引用

Plant Communications 2023年第1期4卷 28-41页

作者： Jinglong Li Jingting Shen Rui Wang Yamao Chen Taikui Zhang Haifeng Wang Chunce Guo Ji Qi State Key Laboratory of Genetic Engineering Institute of Plant BiologySchool of Life SciencesFudan UniversityShanghai 200433China College of Agriculture Guangxi UniversityNanning 530004China Jiangxi Provincial Key Laboratory for Bamboo Germplasm Resources and Utilization Forestry CollegeJiangxi Agricultural UniversityNanchang 330045China

Fabaceae is a large family of angiosperms with high biodiversity that contains a variety of economically important crops and model plants for the study of biological nitrogen fixation.Polyploidization events have been extensively studied in some Fabaceae plants,but the occurrence of new genes is still concealed,owing to a lack of genomic information on certain species of the basal clade of Fabaceae.Cercis chinensis(Cercidoideae)is one such species;it diverged earliest from Fabaceae and is essential for phylogenomic studies and new gene predictions in Fabaceae.To facilitate genomic studies on Fabaceae,we performed genome sequencing of C.chinensis and obtained a 352.84 Mb genome,which was further assembled into seven pseudochromosomes with 30612 predicted protein-coding genes.Compared with other legume genomes,that of C.chinensis exhibits no lineage-specific polyploidization event.Further phylogenomic analyses of 22 legumes and 11 other angiosperms revealed that many gene families are lineage specific before and after the diversification of Fabaceae.Among them,dozens of genes are candidates for new genes that have evolved from intergenic regions and are thus regarded as de novo-originated genes.They differ significantly from established genes in coding sequence length,exon number,guanine–cytosine content,and expression patterns among tissues.Functional analysis revealed that many new genes are related to asparagine metabolism.This study represents an important advance in understanding the evolutionary pattern of new genes in legumes and provides a valuable resource for plant phylogenomic studies.

关键词： Cercis chinensis Complete genome new genes Fabaceae phylogenomics

来源：

维普期刊数据库评论

在线全文

维普期刊数据库

学校读者我要写书评

暂无评论

Metabolic engineering of Corynebacterium glutamicum S9114 based on whole-genome sequencing for efficient N-acetylglucosamine synthesis

引用

Synthetic and Systems Biotechnology 2019年第3期4卷 120-129页

作者： Chen Deng Xueqin Lv Yanfeng Liu Jianghua Li Wei Lu Guocheng Du Long Liu Key Laboratory of Carbohydrate Chemistry and Biotechnology Ministry of EducationJiangnan UniversityWuxi214122China Key Laboratory of Industrial Biotechnology Ministry of EducationJiangnan UniversityWuxi214122China Shandong Runde Biotechnology CO. LTDTaian271200China

Glucosamine(GlcN)and its acetylated derivative N-acetylglucosamine(GlcNAc)are widely used in the pharmaceutical industries.Here,we attempted to achieve efficient production of GlcNAc via genomic engineering of Corynebacterium glutamicum.Specifically,we ligated the GNA1 gene,which converts GlcN-6-phosphate to GlcNAc-6-phosphate by transferring the acetyl group in Acetyl-CoA to the amino group of GlcN-6-phosphate,into the plasmid pJYW4 and then transformed this recombinant vector into the C.glutamicum ATCC 13032,ATCC 13869,ATCC 14067,and S9114 strains,and we assessed the GlcNAc titers at 0.5 g/L,1.2 g/L,0.8 g/L,and 3.1 g/L from each strain,respectively.This suggested that there were likely to be significant differences among the key genes in the glutamate and GlcNAc synthesis pathways of these C.glutamicum strains.Therefore,we performed whole genome sequencing of the S9114 strain,which has not been previously published,and found that there are many differences among the genes in the glutamate and GlcNAc synthesis pathways among the four strains tested.Next,nagA(encoding GlcNAc-6-phosphate deacetylase)and gamA(encoding GlcN-6-phosphate deaminase)were deleted in C.glutamicum S9114 to block the catabolism of intracellular GlcNAc,leading to a 54.8%increase in GlcNAc production(from 3.1 to 4.8 g/L)when grown in a shaker flask.In addition,lactate synthesis was blocked by knockout of ldh(encoding lactate dehydrogenase);thus,further increasing the GlcNAc titer to 5.4 g/L.Finally,we added a key gene of the GlcN synthetic pathway,glmS,from different sources into the expression vector pJYW-4-ceN,and the resulting recombinant strain CGGN2-GNA1-CgglmS produced the GlcNAc titer of 6.9 g/L.This is the first report concerning the metabolic engineering of C.glutamicum,and the results of this study provide a good starting point for further metabolic engineering to achieve industrial-scale production of GlcNAc.

关键词： C.glutamicum Complete genome N-acetylglucosamine Metabolic engineering

来源：

维普期刊数据库评论

在线全文

维普期刊数据库

学校读者我要写书评

暂无评论

Incidence,genomic diversity,and evolution of strawberry mottle virus in China

引用

BIOCELL 2021年第4期45卷 1137-1151页

作者： LINGJIAO FAN CHENGYONG HE MENGMENG WU DEHANG GAO ZHENFEI DONG SHENGFAN HOU ZEKUN FENG HONGQING WANG College of Horticulture China Agricultural UniversityBeijing100193China

Strawberry mottle virus(SMoV)is one of the most common viruses infecting strawberries,causing losses to fruit yield and quality.In this study,165 strawberry leaf samples were collected from six provinces of China,46 of which tested positive for SMoV.The Complete genome sequences of 11 SMoV isolates were obtained from Liaoning(DGHY3,DGHY16-2,DGHY17,DGHY20-2,DGHY21,DGHY26-2),Shandong(SDHY1,SDHY5,SDHY31-2,SDHY33-2),and Beijing(BJMX7).The RNA1 and RNA2 nucleotide identities between the 11 Chinese isolates were 95.4-99.3%and 96.3-99.6%,respectively,and they shared 78.4-96.6%and 84.8-93.5%identities with the available SMoV isolates in GenBank.Recombination analysis revealed that Chinese isolate SDHY33-2 and Canadian isolates Ontario and Simcoe were recombinants,and recombination events frequently occurred in the 3’UTR of SMoV.Phylogenetic analysis showed that in an RNA1 tree,most Chinese isolates clustered into the same group while isolate DGHY17 clustered into another group together with Czech isolate C and three Canadian isolates.In an RNA2 tree,all Chinese isolates clustered into a single group.The phylogenetic analysis based on nucleotide sequences was consistent with the results based on coat protein(CP)and RNA-dependent RNA polymerase(RdRp).Further evolutionary analysis indicated that negative selection drives SMoV evolution,and gene flow plays a major role in genetic differentiation.Additionally,reassortment and recombination also influence the evolution of SMoV.To our knowledge,this is the first report of the Complete genome of SMoV isolates from China and a detailed analysis of the SMoV population structure.

关键词： Viral occurrence Complete genome Molecular variation Genetic structure

来源：

维普期刊数据库评论

在线全文

维普期刊数据库

学校读者我要写书评

暂无评论

genome Analysis of the Bombyx mori Infectious Flacherie Virus Isolated in China

引用

Agricultural Sciences in China 2010年第2期9卷 299-305页

作者： LI Ming-qian CHEN Xiao-xue WU Xiao-xia MAN Na-na JIN Wei LU Xing-meng Laboratory of Invertebrate Pathology College of Animal Sciences Zhejiang University Hangzhou 310029 P.R.China

We reported here the Complete genome of the Bombyx mori infectious flacherie virus （BmlFV）, BmlFV-CHN01, isolated in China and compared it with the Japanese strain IFV （BmIFV-JAN） sequence. BmIFV-JAN and BmIFV-CHN01 were 99% identical in nucleotide and amino acid sequences. The amino acid sequences of the three structural proteins （VP1, VP3 and VP4） and L protein were 100% identical between the two strains. Phylogenetic analyses based on conserved domains in RNA-dependent RNA polymerases （RdRps） by the neighbor-joining method showed that these two strains were from the same virus. The gain of the whole genome of the BmIFV isolated in China and its weak mutation character established a great foundation to the study of functional genome and the molecular epidemiology of BmIFV.

关键词： Bombyx mori infectious flacherie virus Complete genome phylogenetic analysis

来源：

维普期刊数据库

同方期刊数据库评论

在线全文

学校读者我要写书评

暂无评论

Analyses on the Overall Codon Usage Pattern in Fish Rhabdovirus

引用

Agricultural Biotechnology 2018年第1期7卷 97-103,108页

作者： Yanping MA Hao KE Jiangyao MA Zhiling LIANG Le HAO Zhenxing LIU Key Laboratory of Livestock Disease Prevention of Guangdong Province/Scientific Observation and Experiment Station of Veterinary Drugs and Diagnostic Techniques of Guangdong Province Ministry of Agriculture/Institute of Animal Health Guangdong Academy of Agricultural Sciences Gumlgzhou 510640 China

The codon usage bias and the base compositions in the available 49 complete fish rhabdovirus genome sequences were investigated. The high correlation between GC12% and GC3% suggested that mutational pressure rather than natural selection was the main factor determining the codon usage and base component in fish rhabdovirns, most of the spots lying below the expected curve （ ENC vs GC3% ） also suggested that codon usage bias in these 49 genomes was influenced by mutational pressure in codon usage pattern. Through PCA analysis based on RSCU, all ORFs in the 49 fish rhabdoviurs genomes were clustered into two parts, and this result showed that hosts played a role in codon usage pattern of fish rhabdovirns genomes. Further, comparison between SVCV, INHV, VHSV and their hosts suggested the effect of natural host on the codon usage pattern took part in the evolution process of fish rhabdovirns. This study represents the most comprehensive analysis to date for fish rhabdovirus eodon usage patterns.

关键词： Fish rhabdovirns Complete genome Codon usage Base composition

来源：

维普期刊数据库评论

在线全文

维普期刊数据库

学校读者我要写书评

暂无评论

Molecular Characterization and SYBR Green I-Based Quantitative PCR for Duck Hepatitis Virus Type 1

引用

Agricultural Sciences in China 2008年第9期7卷 1140-1146页

作者： LUO Yu-jun ZHANG Gui-hong XU Xiao-qin CHEN Jian-hong LIAO Ming College of Veterinary Medicine South China Agricultural University Guangzhou 510642 P.R.China College of Life and Science Foshan University Guangzhou 528231 P.R.China

To determine the genomic sequence of a duck hepatitis virus type 1 （DHV-1） strain, real-time quantitative polymerase chain reaction （RTQ-PCR） assay based on SYBR Green I technology was developed to target 3D gene of DHV-1, Comparative sequence analysis showed that the genome has a typical picornarivus genetic organization, and strain DHV-1 R genetic organaiztion is 5＇ untranslated region （UTR）-VP0-VP3-VPI-2A1-2A2-2B-2C-3A-3B-3C-3D-3＇ UTR, DHV-1 R has close relationship with Parechovirus, and has 95.1-99.1% nucleotide sequence identity with other DHV-1 strains. Based on the DHV-1 sequences in GenBank, three pairs of specific primers were designed to amplify DHV-1 using real-time PCR. The results showed that real-time PCR Tm value is 85.6℃ and the real-time PCR provides a broad dynamic range, detecting from 102 to 109 copies of DHV-1 cDNA per reaction. No cross-reactions were found in specimens containing DPV, AIV and NDV. It is concluded that DHV-1 belongs to a new group of the family Picornaviridae that may form a separate genus most closely related to the genus Parechovirus. All results showed that the real-time PCR has high sensitivity and specificity to detect DHV-1 using SYBR Green I dissociation curve analysis, isolates can be distinguished by their melting temperature. These methods are rapid, sensitive, and reliable, and can be readily adapted for detection of DHV-1 from other clinical samples.

关键词： duck hepatitis virus type 1 Complete genome real-time RT-PCR

来源：

维普期刊数据库

同方期刊数据库评论

在线全文

学校读者我要写书评

暂无评论

Phylogenetic Relationship Analysis of the Complete genomes of Porcine Circovirus Type 2( PCV2) Strains Isolated from Hainan Province

引用

Agricultural Biotechnology 2015年第5期4卷 45-48,53页

作者： Baoguo YE Xinli ZHENG Yan ZHANG Zhemin LIN Feng WANG Zongxi CAO Institute of Animal Husbandry and Veterinary Medicine Hainan Academy of Agricultural Sciences

[ Objective] This study aimed to investigate the molecular characteristics of porcine circovirus type 2 （PCV2） strains isolated from Hainan Province. [ Method] The Complete genome of PCV2 was amplified from PMWS-suspected samples by PCR for sequence analysis. [ Result] A total of eight PCV2 strains were isolated and identified. All the eight isolates belonged to genotype PCV2b, among which seven isolates belonged to subgenotype PCV2b-1 C, and one isolate be- longed to subgenotype PCV2b-IA/1B. ORF2 gene of PCV2 isolates from Hainan Province was 705 bp in length, encoding 234 amino acids. Antigenic epitopes of Cap protein exhibited certain changes. Nucleotide sequences and deduced amino acid sequences of ORF2 gene shared 95.3% -99.7% and 93.6% - 100% simi- larities among eight PCV2 isolates from Hainan Province, respectively. Moreover, nucleotide sequences and deduced amino acid sequences of ORF2 gene of PCV2 isolates from Hainan Province shared 91.0% -99.9% and 91.0% -99.6% similarities with other PCV2 strain isolated from China （AY682994, AF381175, JX945577, JX682407, AY180397 ）, respectively; nucleotide sequences and deduced amino acid sequences of ORF2 gene of PCV2 isolates from Hainan Province shared 90.0% - 97.0% and 88.0% -97.9% similarities with PCV2 isolates from other countries （ NC_005148, JQ994268, KJ187306, AF201307, AF454546, AY＂/Sd020）, respectively; nucleotide sequences and deduced amino acid sequences of ORF2 gene of PCV2 isolates from Hainan Province shared 98.2% -100% and 94.9% -100% similarities with vaccine strain SH, respectively; nucleotide sequences and deduced amino acid sequences of ORF2 gene of PCV2 isolates from Hainan Province shared 90.6% -91.7% and 89.7% - 91.0% similarities with vaccine strain LG, respectively. [ Conclusion] This study provided theoretical hasis for the prevention and control of PCV2 and selection of vaccine strains in Hainan Province.

关键词： Porcine circovirus type 2 Complete genome Cloning Sequence analysis

来源：

维普期刊数据库评论

在线全文

维普期刊数据库

学校读者我要写书评

暂无评论

广东省18株柯萨奇病毒A6型分离株全基因组特征分析

广东省18株柯萨奇病毒A6型分离株全基因组特征分析

引用

2016新发传染病研究热点研讨会

作者：曾汉日陆靖郑焕英广东省疾病预防控制中心

为了解2013年广东省引起手足口病的CVA6全基因组特征,探索研究暴发流行期与非流行期CVA6毒株间的基因异同,本研究选取18株广东省CVA6毒株进行全基因组序列扩增及测序,采用DNASTAR6.0、MEGA5.2和Sim Plot3.5.1等软件对获取全基因组序列... 详细信息

为了解2013年广东省引起手足口病的CVA6全基因组特征,探索研究暴发流行期与非流行期CVA6毒株间的基因异同,本研究选取18株广东省CVA6毒株进行全基因组序列扩增及测序,采用DNASTAR6.0、MEGA5.2和Sim Plot3.5.1等软件对获取全基因组序列进行遗传进化、比对及重组分析。序列比对显示,18株广东省CVA6毒株基因组长度在7390392bp之间,与原型株Gdula比较,在编码区无碱基插入或缺失,在非编码区存在个别碱基的插入或缺失。遗传进化分析显示,18株广东省CVA6毒株全基因组序列核苷酸和氨基酸同源性分别为90.5%9.6%和97.5%9.9%。2013年广东省CVA6流行期毒株在全基因组进化树中处于Ⅲ、Ⅳ两个分支,2011年非流行期毒株只存在于Ⅳ分支。基因重组分析显示,广东省GD870/2013株在P2和P3区存在基因重组现象,GD839/2013株未发现明显的重组来源。结果表明,2013年广东省引起手足口病的CVA6在暴发流行期存在Ⅲ、Ⅳ两条病毒传播链的共同流行,其中Ⅲ传播链在非结构蛋白编码区存在基因重组现象,与Ⅳ传播链相比具有较大基因差异,然而2011年CVA6非流行期间只存在Ⅳ病毒传播链。

关键词： Hand foot and mouth disease Coxsackievirus A6 Complete genome

来源： cnki会议评论

在线全文

cnki会议

学校读者我要写书评

暂无评论

欢迎您,

建议与咨询留下您的常用邮箱和电话号码，以便我们向您反馈解决方案和替代方法

时间限定

文献类型

馆藏选择

核心期刊

语言

文献类型

帮助

文字说明：

检索规则说明：

检索范例：

分类表

所选分类

限定检索结果

文献类型

馆藏范围

日期分布

学科分类号

主题

机构

作者

语言

在线全文

在线全文

在线全文

在线全文

在线全文

在线全文

在线全文

在线全文

在线全文

在线全文

请选择保存的检索档案：

请选择收藏分类：

通借通还

欢迎您,

建议与咨询 留下您的常用邮箱和电话号码，以便我们向您反馈解决方案和替代方法

时间限定

文献类型

馆藏选择

核心期刊

语言

文献类型

帮助

文字说明：

检索规则说明：

检索范例：

分类表

所选分类

限定检索结果

文献类型

馆藏范围

日期分布

学科分类号

主题

机构

作者

语言

在线全文

在线全文

在线全文

在线全文

在线全文

在线全文

在线全文

在线全文

在线全文

在线全文

请选择保存的检索档案： 新增检索档案 确定 取消

请选择收藏分类： 新增自定义分类 确定 取消

通借通还

建议与咨询留下您的常用邮箱和电话号码，以便我们向您反馈解决方案和替代方法

请选择保存的检索档案：

请选择收藏分类：