Report of the NBFGR-BOBLME Indian mackerel genetics harmonisation training workshop, Kochi, India, 20-27 August, 2013

This workshop was held at the National Bureau of Fish Genetic Resources and followed on from the Indian mackerel Working group meeting in Colombo (28-29 May, 2012). Activities included; DNA extraction; PCR (Polymerase Chain Reaction) for microsatellites; genotyping microsatellites; data analysis; emerging technologies; and an action plan

Molecular modeling on human CCR5 receptors and complex with CD4 antigens and HIV-1 envelope glycoprotein gp120

AIM: To investigate the interaction between human CCR5 receptors (CCR5) and HIV-1 envelope glycoprotein gp120 (HIV-1 gp120) and HIV-1 receptor CD4 antigens (CD4). METHODS: The structurally con served regions (SCR) of human CCR5 was built by the SYBYL/Biopolymer module using the corresponding transmembrane (TM) domain of bacteriorhodopsin (bR) as the template. The coordinates for amino-ter minal residue sequence, and carboxyl-terminal residue sequence, extracellular and cytoplasmic loops were generated using LOOP SEARCH algorithm. Subsequently the structural model was merged into the complex with HIV-1 gp120 and CD4. RESULTS: Human CCR5 interacted with both an HIV-1 gp120 and CD4. The N-terminal residues (especially Met1 and Gln4) of human CCR5, contacted with CD4 residues, mainly 7Nith one span (56 - 59) of CD4 in electrostatic interaction and hydrogen-bonds. The binding sites of human CCR5 were buried in a hydrophobic center surrounded by a highly basic periphery. On the other hand, direct interatomic contacts were made between ? CCR5 residues and 6 gp120 amino-acid residues, which included van der Waals contacts, hydrophobic interaction, and hydrogen bonds. CONCLUSION: The interaction model should be helpful for rational design of novel anti-HIV drugs.

HLA-DRB1等位基因多态性与食管癌遗传易感性研究

目的 :从基因水平探讨湖北地区汉族人食管癌HLA -DRB1等位基因的遗传易感性。方法 :运用序列特异性引物聚合酶链反应结合基因序列分析等技术 ,检测无亲缘关系湖北汉族健康人 136例、食管癌组 4 2例患者的HLA -DRB1等位基因。SAS统计软件数据处理。结果 :湖北地区汉族人食管癌患者与正常人比较 ,HLA -DRB1 0 90 1基因频率显著增高 (0 2 5 0 0vs 0 1397,P =0 0 2 8,OR =2 0 5 3,病因分数 =0 12 82 ) ;两者间其余HLA -DRB1等

HLA-DRB1、-DQB1基因多态性与食管鳞癌遗传关联性

目的　从基因水平探讨食管鳞癌HLA DRB1 , DQB1等位基因的遗传易感性 ,以阐述其免疫遗传学特征。方法　运用序列特异性引物聚合酶链反应技术 ,检测无亲缘关系湖北汉族健康人 1 36例、食管鳞癌患者 42例的HLA DRB1 , DQB1等位基因。结果　湖北汉族人食管鳞癌患者与正常人比较 ,HLA DRB1 0 90 1等位基因分布频率显著增高 (0 .2 50 0比 0 .1 397,P =0 .0 2 8,OR =2 .0 53 ,病因分数 =0 .1 2 82 ) ,HLA DQB1 0 30

HLA-DRB1与胃腺癌临床特征及Hp感染关联性研究

<正> 人类主要组织相容性复合体(major histocompatibility complex,MHC)即人类白细胞抗原(human leucocyte antigen,HLA)复合体,定位于人第6号染色体短臂(6p23)上,具有单倍体(haplotype)遗传、高度多态性(polymorphism)、连锁不平衡(linkage disequilibrium)等遗传特征。我们运用序列特异性引物聚合酶链反应(sequence specific primer based polymerase chain

湖北汉族人大肠癌HLA-DRB1等位基因遗传易感性研究

目的　探讨湖北汉族人 HL A- DRB1等位基因与大肠癌遗传相关性。方法　针对 HL A- DRB1等位基因第 2外显子多态性 ,设计 2 3对引物的序列特异性引物聚合酶链反应 ,结合等位基因序列分析 ,检测了无亲缘关系的湖北籍汉族健康人 136名及大肠癌患者 72例的 HL A- DRB1基因。 SAS软件进行数据处理。结果　湖北地区汉族人大肠癌患者与正常人比较 ,HL A- DRB1* 0 90 1等位基因分布频率 0 .2 2 92 vs0 .1397(P<0 .0 0 5 ,OR=2 .182

HLA-DQB1*0301与胃腺癌及幽门螺杆菌感染的关系

为探讨HLA DQB1等位基因与胃腺癌临床特征及其幽门螺杆菌 (Hp)感染的关联性 ,运用序列特异性引物聚合酶链反应技术 ,检测无亲缘关系湖北汉族健康人 136例、胃癌组 6 3例患者的HLA DQB1基因。内镜活检、Giemsa染色和 (或 )外周血ELISA检查胃粘膜Hp感染情况。SAS软件统计处理。结果表明HLA DQB1 0 30 1与湖北汉族人胃腺癌呈正关联。携带与非携带该等位基因患者 ,其临床特征包括患者平均患病年龄、性别比、肿瘤原发部位、肿瘤TNM分期、肿瘤细胞分化程度 ,以及Hp感染率等情

湖北食管癌HLA-DQB1的基因多态性

目的从基因水平探讨湖北地区汉族人食管癌 HEN-DQB1等位基因的遗传易感性.方法运用序列特异性引物聚合酶链反应技术,检测无亲缘关系湖北汉族健康人136例、食管癌组42例患者的 HLA-DQB1等位基因.SAS system 统计软件数据处理.结果湖北汉族人食管癌患者与正常人比较,HEN-DQB1*0301基因频率显著增高(0.2976 vs 0.1875),P=0.046,OR=1.835,病因分数=0.1354);两组间 HLA-DQB1其余各等位基因分布频率的比较,HLA-DQB1*0201(0.0

湖北汉族人胃腺癌HLA-DRB1等位基因遗传易感性

湖北省教委自然科学基金资 助项目( 98A0 47)

HLA-DRB1 allele polymorphisms in genetic susceptibility to esophageal carcinoma

AIM: To probe into the genetic susceptibility of HLA-DRB1 alleles to esophageal carcinoma in Han Chinese in Hubei Province. METHODS: HLA-DRB1 allele polymorphisms were typed by polymerase chain reaction with sequence-specific primers (PCR-SSP) in 42 unrelated patients with esophageal cancer and 136 unrelated normal control subjects and the associated HLA-DRB1 allele was measured by nucleotide sequence analysis with PCR.SAS software was used in statistics. RESULTS: Allele frequency (AF) of HLA-DRB1*0901 was significantly higher in esophageal carcinoma patients than that in the normal controls (0.2500 vs0.1397, P=0.028, the odds ratio 2.053, etiologic fraction 0.1282). After analyzed the allele nucleotide sequence of HLA-DRB1*0901 which approachs to the corresponded exon 2 sequence of the allele in genebank. There was no association between patients and controls in the rested HLA-DRB1 alleles. CONCLUSION: HLA-DRB1*0901 allele is more common in the patients with esophageal carcinoma than in the healthy controls, which is positively associated with the patients of Hubei Han Chinese. Individuals carrying HLA-DRB1*0901 may be susceptible to esophageal carcinoma.

Development of polymorphic EST markers in Penaeus monodon: applications in penaeid genetics

The objective of this study was to develop type I markers for genome mapping and other genetic studies of Penaeus monodon. Primers were designed based on expressed sequence tags (ESTs) from a P monodon cephalothorax cDNA library to amplify 100-300 bp products. 34 of the primer pairs successfully amplified PCR products from genomic DNA. Single-strand conformation polymorphism analysis showed that similar to 30% of the ESTs tested exhibit polymorphism in a test panel of P monodon individuals. Mendelian inheritance of the EST-derived markers has been established in two international reference mapping families of P monodon, and mapping of these markers is in progress. Some ESTs were successfully amplified from other Penaeus species (P. chinensis, P japonicus and P vannamei), indicating that the markers are applicable in cross-species comparison. Two populations of P. japonicus could be differentiated using one of the ESTS. In conclusion, the polymorphic EST markers developed in this study are applicable in genome mapping and population genetic studies of penaeid shrimp. (C) 2002 Elsevier Science B.V. All rights reserved.

基于HLA卫星组网仿真想定与HLA Web化扩展的研究

卫星组网仿真是对各种卫星组网方案进行性能分析、效能评估以及优化设计的有效途径。限于单机负载及计算能力，卫星组网仿真采用分布式交互仿真形式。作为仿真的基本依据，想定编辑生成与想定发布是仿真首先需要解决的问题。此外，想定推演过程也应对仿真场景进行展示以方便观察仿真当前状态。如何构建满足需求的卫星组网仿真想定系统是本文研究目的之一。 围绕卫星组网仿真想定系统的功能需求，首先进行了需求分析与功能定义，接着对所涉及难点包括多任务多粒度组网仿真想定的灵活配置、细粒度组网仿真内存使用优化以及想定数据实时发布等的技术途径进行了比较与分析。在确定所选用技术基础上，设计出想定系统的总体结构框架。最后结合该框架对系统实现进行了详细的说明，并对内存优化问题进行了仿真实验。 在想定系统实现基础上，进一步分析了当前高层体系结构HLA标准在分布式式交互仿真应用中存有的缺陷，给出利用Web服务对其进行扩展的必要性和扩展途径。通过对面向服务的体系结构SOA及其实现技术Web服务的讨论，分析了通过Web服务扩展HLA使其Web使能的多种途径。文中提出一种基于代理、使用Web服务的HLA Web化扩展方法，并给出了设计方案。