利用基因芯片对一高保守基因进行肿瘤相关分析

本对大规模人类cDNA测序过程中获得的一条高保守基因进行了初步功能研究,生物信息学研究发现该基因在人类、小鼠、果蝇、拟南芥和裂殖酶母中都有很高的保守性,其他分析预测该基因可能具有肿瘤相关性。RT－PCR分析表明,该基因在成人和胎儿组织中广泛谱表达。利用基因芯片分析该基因在7例肝癌、5例胰腺癌、2例喉癌和2例肺癌中表达情况,结果证实了该基因的肿瘤相关性,并且提示该基因在不同类型中可能处于不同的地位。     

利用基因芯片检测转基因作物

选用常用的两种报告基因、两种抗性基因、两种启动子序列和两种终止子序列为探针,将其PCR扩增产物用MicroGrid Ⅱ型全自动点样仪按矩阵排列点样于包埋有氨基的载玻片上,制备成转基因作物检测型基因芯片。利用该芯片对4种转基因水稻、木瓜、大豆、玉米进行检测,结果表明,该芯片能对转基因作物做出快速、准确的检测。 Abstract:Some selected available sequences of reporter genes,resistant genes,promoters and terminators are amplified by PCR for the probes of transgenic crop detection gene chip.These probes are arrayed at definite density and printed on the surface of amino-slides by bioRobot MicroGrid Ⅱ.Results showed that gene chip worked quickly and correctly,when transgenic rice,pawpaw,maize and soybean were applied.     

基因相关研究与诺贝尔奖

基因是能够表达和产生基因产物（蛋白质或RNA）的DNA序列。到2003年为止,因为研究基因而获得诺贝尔奖的共有51人,其中获生理学或医学奖44人（占生理学或医学总获奖人数178的24.72%）、化学奖7人（占化学总获奖人数123的5.69 %）。文章从6个方面对此作了评述：果蝇是基因研究的良好材料;DNA双螺旋模型的提出为基因研究提供了坚实基础;基因调控研究阐明了基因的许多功能;遗传学中心法则造就了11位获奖者;基因工程技术使人们有可能改造和利用基因;基因特性的深入研究使人们更加容易理解许多生命现象。Abstract: Gene is a DNA sequence which can be expressed and produces gene products (protein or RNA). By 2003, there are 51 Nobel Prize owners related to gene studies. Among them, 44 persons are in physiology or medicine (account for 24.72% of total 178), 7 persons are in chemistry (account for 5.69% of total 123). The paper reviews them in following 6 aspects: Drosophlie melanogaster is a good material for gene study; the double helix model of DNA structure provides a hard foundation in gene study; the studies on gene regulation illuminate many functions of gene; genetic central dogma researches created 11 Noble Prize laureates; gene engineering technologies make possible to modify and use genes; and the thorough studies of gene characteristic made us easier to understand many life phenomena.     

“基因”一词的由来

1909年,约翰森创造“基因”(gene)一词作为遗传单位的名称。该词是由德?弗里斯创造的“泛生子”(pangene)一词缩短而成的,而“泛生子”一词则衍生于达尔文提出的“泛生论”(theory of pangenesis)。约翰森的这一创造堪称“推陈出新”的典范。 Abstract: In1909,Johannsen coined the word “gene”, shortened from the pangene of de Vries and ultimately derived from Darwin’s word pangenesis,to denote the unit of heredity.It was an outstanding example of“weeding through the old to bring forth the new ”.     

植物防御系统中抗病相关基因的研究进展

本文论述了植物防御系统中抗病相关基因（resistance gene,R基因）的研究进展。列表总结了迄今已克隆的R基因,并将其归为四种不同的类型。综述了不同基因表达产物-R蛋白在细胞中的定位及其相应的功能。此外,还对R基因编码区的多态性、R基因在染色体上排列方式以及R基因的进化与起源等问题进行了讨论。 Abstract:This review comments on recent advances in research of disease resistance genes(R Genes) in defence system of plants.The R genes cloned up to date are summarized and classified roughly into four classes listed in the Table 1.The location and the founction of the R proteins,i.e.,the expressed products of different R genes in the cells are reviewed.In addition,the polymophism of coding region of R genes,the different fashions of R gene arrangement on the chromosomes,and the evolution and origin of R genes are discussed.     

人细胞生长相关5个新基因的染色体定位及其基因结构

基因的染色体定位对我们研究基因相互关系、基因的组织与进化及理解基因与疾病关系具有重要的意义。本文采用RH-PCR方法及生物信息学方法对PP3898、PP1158、PP753、SP260、HC56等5条人细胞生长相关新基因进行染色体定位,并分析了其基因结构。PP3898及PP1158定位于19p13.3,PP753及SP260定位于1q21.1,HC56定位于17p13.3。PP3898含有19个外显子和18个内含子,可读框为2565bp;PP1158含有7个外显子和6个内含子,可读框为1218bp;SP260含有10个外显子和9个内含子,可读框为690bp;HC56为单外显子,可读框为3141bp。另外,对染色体定位获得的信息进行了分析。 Abstract:Five novel human genes related to cell growth control were newly isolated and identified by high-throughput functional screening.In this paper,the chromosomal localization of these five genes is reported.Radiation hybrid mapping and in silico mapping,and their genomic organization were analyzed respectively.PP3898 and PP1158 were assigned to chromosome 19p13.3,SP260 and PP753 to chromosome 1q21.1,and HC56 to chromosome 17p13.3.PP3898 contains nineteen exons and eighteen introns,PP1158 seven exons and six introns,SP260 ten exons and nine introns,and HC56 only one exon.The implications of chromosomal localization are discussed.     

猪H-FABP基因多态片段的序列分析

利用PCR-RFLP方法在猪H-FABP基因内确定了3个变异酶切位点,分别为5′-上游区HinfI-RFLP、内含子2的HaeIII-RFLP和HinfI*-RFLP（HinfI和HinfI*代表不同区域的HinfI酶切反应）。对每个多态片段进行克隆测序分析,结果表明,5′-上游区HinfI-RFLP是由于1324位的碱基T→C的突变引起;在内含子2中,HaeIII-RFLP变异酶切位点在1811位,发生了C到G的突变;HinfI*-RFLP是由于1970位发生T→C的碱基替换。 Abstract:Three variant restriction sites of porcine H-FABP gene,including HinfI-RFLP in 5′-upsream,HaeIII-RFLP and HinfI*-RFLP in intron 2,were confirmed by PCR-RFLP method.The polymorphic fragments were cloned and sequenced.The results revealed a single nucleotide substitution of T→C at position 1324 for HinfI-RFLP,C→G at position 1811 for HaeIII-RFLP and T→C at position 1970 for HinfI*-RFLP,respectively.     

利用基因芯片数据挖掘宫颈癌相关基因的EST片段

目的:利用基因芯片数据,探讨宫颈癌在分子水平上的发病机制,挖掘肿瘤相关基因EST片段,探索恶性肿瘤标志物,为肿瘤防治找到新的有效手段。方法:从基因芯片数据库GEO(gene expression omnibus)中获得GSM99077基因芯片数据,利用该数据筛选出宫颈癌相关基因的EST片段;然后通过NCBI中的在线BLAST软件找到与之相匹配的同源序列,对这些同源序列进行生物学功能分析,找到与肿瘤的相关性。结果:共发现宫颈癌组织与正常宫颈组织差异表达EST共127条,其中上调的106条,下调的11条,这些差异表达EST的同源序列的转录产物参与转录、翻译、细胞增殖分裂及细胞信号传导等过程。结论:基因芯片能有效、高通量地获取生物内在信息,通过对基因芯片数据再挖掘,可发现宫颈癌的发生涉及多个基因共同作用。     

兴安盟3个民族10对性状的基因频率

调查了内蒙古兴安盟汉、蒙古、朝鲜族的10对遗传性状,并计算了各民族每一性状的基因频率,同时也进行了民族间基因频率的比较。比较结果显示:汉族－朝鲜族间差异较大,蒙古族－朝鲜族间次之,汉族－蒙古族间差异较小。 Abstract：Ten genetic traits were investigated in Han,Mongol and Chaoxian nationalities in Xing'an League of Inner Mongolia.The gene frequency of the traits was calculated in each nationality and compared between the nationalities.The result indicated that the difference of gene frequency between Han and Chaoxian nationalities was significant,followed by between Mongol and Chaoxian ones,whileit was relatively insignificant between Han and Mongol ones.     

转基因植物中筛选标记基因的利用及消除

在基因转移过程中,人们常常使用标记基因来筛选转化细胞或组织。常用的筛选标记基因尤其是抗生素抗性基因的使用往往对环境及植物体的生长发育产生不良影响,且影响基因多重转化。为了消除这些弊端,一种全新的发展策略即获取无选择标记的转基因植物应运而生。本文主要综述转基因植物中有关筛选标记基因及其消除方法。 Abstract:Selective marker gene is usually used to select transformed cells or tissue during gene transfer.However,the use of selective marker gene,especially antibiotic-resistant gene,is harmful to environment,plant development and affects multi-transformation.A new strategy that offers a approach for the elimination of those disadvantages caused by the selectable marker gene is developed.We summarized correlative marker genes used in transgenic plants and some methods of its removal.     

Identification of a Highly Conserved Epitope on Avian Influenza Virus Non-Structural Protein 1 Using a Peptide Microarray

Avian influenza virus (AIV) non-structural protein 1 (NS1) is a multifunctional protein. It is present at high levels in infected cells and can be used for AIV detection and diagnosis. In this study, we generated monoclonal antibody (MAb) D7 against AIV NS1 protein by immunization of BALB/c mice with purified recombinant NS1 protein expressed in Escherichia coli. Isotype determination revealed that the MAb was IgG₁/κ-type subclass. To identify the epitope of the MAb D7, the NS1 protein was truncated into a total of 225 15-mer peptides with 14 amino acid overlaps, which were spotted for a peptide microarray. The results revealed that the MAb D7 recognized the consensus DAPF motif. Furthermore, the AIV NS1 protein with the DAPF motif deletion was transiently expressed in 293T cells and failed to react with MAb D7. Subsequently, the DAPF motif was synthesized with an elongated GSGS linker at both the C- and N-termini. The MAb D7 reacted with the synthesized peptide both in enzyme-linked immunosorbent assay (ELISA) and dot-blot assays. From these results, we concluded that DAPF motif is the epitope of MAb D7. To our knowledge, this is the first report of a 4-mer epitope on the NS1 protein of AIV that can be recognized by MAb using a peptide microarray, which is able to simplify epitope identification, and that could serve as the basis for immune responses against avian influenza.     

基因表达谱芯片杂交影响因素的初步研究

通过对K562细胞基因表达谱芯片杂交影响因素的研究表明,用限制性显示技术制备的cDNA探针长度较均一,适合基因芯片杂交;在42℃条件下含甲酰胺的杂交液中杂交16．20h,可保证样品的有效杂交。并表现出很好的杂交特异性;用RD-PCR或线性PCR对少量样品进行扩增,并用荧光(Cy3或Cy5)标记的通用引物对样品进行标记,可提高芯片检测的灵敏度;一次杂交反应总RNA的用量仅需0．5～10μg,在每cm^2约含1000～1500个点的阵列中杂交时,标记样品用量1～2μg为宜;用PCR产物纯化柱对荧光标记产物进行纯化,可大大减小背景荧光,提高信噪比;同一批芯片经同一样品杂交结果的重复性很好,相关系数高达97．8％     

用SARS冠状病毒全基因组芯片杂交方法分析SARS-CoV

为从临床样品中检测和分析SARSCoV病毒打基础,并为分析SARSCoV病毒的复制和转录等机理提供一种有效方法。以SARS冠状病毒TOR2株序列作为标准设计和制备一种覆盖SARS冠状病毒全基因组的寡聚核苷酸芯片,探针长度为70nt,每相邻的探针序列重复25nt,共660条。用该芯片分析了细胞培养的SARSCoV病毒总RNA、7个SARSCoV病毒的基因克隆片段。对RNA样品用随机引物进行反转录PCR获得cDNA。对DNA用随机引物扩增和dUTPcy3标记。结果用这种芯片杂交检测SARSCoV病毒RNA可见阳性信号呈全基因组分布,并且有多处连续的阳性信号点;用正常人的白细胞RNA为对照,杂交未出现明显阳性信号。检测7个SARSCoV病毒基因克隆片段,在该片段相应的探针区段出现连续阳性信号点。这种方法可有效地检测和分析样品中SARS冠状病毒全基因组的信息。     

Deep Sequencing and Microarray Hybridization Identify Conserved and Species-Specific MicroRNAs during Somatic Embryogenesis in Hybrid Yellow Poplar

Background

To date, several studies have indicated a major role for microRNAs (miRNAs) in regulating plant development, but miRNA-mediated regulation of the developing somatic embryo is poorly understood, especially during early stages of somatic embryogenesis in hardwood plants. In this study, Solexa sequencing and miRNA microfluidic chips were used to discover conserved and species-specific miRNAs during somatic embryogenesis of hybrid yellow poplar (Liriodendron tulipifera×L. chinense).

Methodology/Principal Findings

A total of 17,214,153 reads representing 7,421,623 distinct sequences were obtained from a short RNA library generated from small RNAs extracted from all stages of somatic embryos. Through a combination of deep sequencing and bioinformatic analyses, we discovered 83 sequences with perfect matches to known miRNAs from 33 conserved miRNA families and 273 species-specific candidate miRNAs. MicroRNA microarray results demonstrated that many conserved and species-specific miRNAs were expressed in hybrid yellow poplar embryos. In addition, the microarray also detected another 149 potential miRNAs, belonging to 29 conserved families, which were not discovered by deep sequencing analysis. The biological processes and molecular functions of the targets of these miRNAs were predicted by carrying out BLAST search against Arabidopsis thaliana GenBank sequences and then analyzing the results with Gene Ontology.

Conclusions

Solexa sequencing and microarray hybridization were used to discover 232 candidate conserved miRNAs from 61 miRNA families and 273 candidate species-specific miRNAs in hybrid yellow poplar. In these predicted miRNAs, 64 conserved miRNAs and 177 species-specific miRNAs were detected by both sequencing and microarray hybridization. Our results suggest that miRNAs have wide-ranging characteristics and important roles during all stages of somatic embryogenesis in this economically important species.