人体肝癌细胞急性低氧及低氧习服差异表达基因分析

本文分析了人体肝癌细胞(HepG2)急性低氧处理以及低氧习服处理后基因表达谱的改变。急性低氧处理为细胞在1％氧气中培养48h,低氧习服处理为细胞在1％氧气中培养24h,常氧培养24h,以此作为一个周期,重复6个周期。联合应用抑制消减杂交技术和cDNA芯片技术,筛选HepG2细胞经急性低氧处理与正常培养细胞相比差异表达的基因,以及经低氧习服处理细胞与正常培养细胞相比差异表达的基因。结果显示,HepG2细胞经急性低氧处理与在常氧条件下培养相比,差异表达的基因有37个,表达水平全部表现为下调,其中包括参与细胞周期、细胞应激、细胞信号转导、细胞骨架形成、转录相关蛋白及细胞代谢相关蛋白的基因,1个未知基因序列、4个EST序列、5个线粒体蛋白基因,另外有功能不明的蛋白质基因12个。低氧习服处理的细胞与常氧条件下培养的细胞相比,差异表达的基因有6个,其中包括两个线粒体蛋白基因、金属蛋白酶1基因、转铁蛋白基因、Thymosin ．beta-4和TPT1基因。其中线粒体蛋白ND4、转铁蛋白、Thymosin.beta-4和TPT1基因的表达呈上调,线粒体NDl及金属蛋白酶1基因的表达水平呈下调。经低氧习服处理后,细胞低氧耐受力提高,低氧习服处理细胞基因的表达与急性低氧处理细胞和正常培养细胞的基因表达不同,这种变化可能与低氧习服细胞低氧耐受力的增强有关。     

Split-plot microarray design allows sensitive detection of expression differences after ultraviolet radiation in the inbred parental lines of a key maize mapping population

Gene expression levels were quantified after ultraviolet radiation treatment in the parental inbred lines of the maize mapping (IBM) population. This allows us to take advantage of natural variation between maize lines to analyse variation in gene expression. Using a statistically sound split‐plot experiment cDNAs were identified with differently regulated expression in B73 and Mo17 after UV treatment. Fewer genes were down‐regulated in B73; this global strain difference in the number of genes up‐ and down‐regulated does not appear to reflect general hybridization differences. Contrary to our expectation, there was a higher proportion of highly expressed genes (based on EST recovery) that were differently expressed by UV between lines. Genes affected by UV (but not significantly different between B73 and Mo17) include gene types proposed to function in UV acclimation and adaptation based on experiments in other species or other experiments in maize. Several new functional classes were identified as UV‐regulated, including genes encoding proteins that modulate chromatin structure.     

小麦花粉特异性表达的cDNA的分离及表达特性

应用抑制差示杂交和5′/3′RACE PCR方法分离了小麦(Triticum aestivum L.)花粉特异性表达的全长cDNA(TaPSG719,GenBank:AY451238)),该基因全长1172 bp,5′非编码区序列长达329 bp,包含多个上游可译框架(uORF);该基因编码188个氨基酸的蛋白质,大小约20 kD,等电点为12.1。Northern杂交和RT-PCR分析表明该基因在成熟花粉特异表达,而在小孢子、叶片、根和未成熟的种子、幼茎和子房等组织几乎检测不到。进一步研究小麦花粉发育过程的表达水平表明,TaPSG719在单核和双核小孢子阶段不表达,在开花前5d(已完成有丝分裂)开始表达并迅速增强达到高峰,但随着花粉的成熟表达水平逐渐下降。表明TaPSG719是一个花粉中晚期特异性表达基因。经BLAST同源性分析表明,与目前已登录的基因没有显著的同源性。Southern杂交表明TaPSG719可能为一个多拷贝基因。为研究TaPSG719 cDNA 5′非编码区序列的uORF对可译框架的翻译的影响,构建不同缺失或突变的表达载体,采用麦胚体外翻译系统,结果显示含uORF的5′非编码区序列能显著抑制蛋白质的翻译水平,表明TaPSG719基因表达至少部分是在翻译水平上调控。     

宽果苁菔适应昼夜变化ESTs的分离与分析

以流石滩地区植物广布种宽果苁菔为实验材料,应用磁珠介导的抑制消减杂交方法,分离昼夜差异基因。随机挑选了136个差异ESTs克隆并进行测序,测序结果使用Blast2go程序进行功能注释和分析。结果表明绝大部分ESTs功能与稳定细胞状态和抗性响应相关,其次与物质能量代谢和信号传导相关,宽果苁菔适应昼夜变化过程的机制非常复杂,本研究为进一步研究高山植物适应流石滩恶劣环境的机制奠定了基础。     

单眼视网膜摘除后鸽左右前脑基因的差异表达

利用消减抑制杂交（SSH）技术分析左眼视网膜摘除后成鸽左右前脑基因差异表达情况,对14个重线子经反Northern杂交去除假阳性,最终获得4个阳性重组子,对阳性重组子进行克隆和测序,其中PFB／SSH－8片段长226bp,它的138bp与人CaM I基因外显子有85％的同泊性,PFB／SSH－15片段长252bp,与nexin I alpha非表达序列有低的同源性,另外2个片段未发现有同源物。     

The influence of ultraviolet radiation on growth,photosynthesis and phenolic levels of green and red lettuce: potential for exploiting effects of ultraviolet radiation in a production system

Studies have shown that natural ultraviolet (UV) radiation increases secondary products such as phenolics but can significantly inhibit biomass accumulation in lettuce plants. In the work presented here, the effect of UV radiation on phenolic concentration and biomass accumulation was assessed in relation to photosynthetic performance in red and green lettuce types. Lettuce plants in polythene clad tunnels were exposed to either ambient (UV transparent film) or UV-free conditions (UV blocking film). The study tested whether growth reduction in lettuce plants exposed to natural UV radiation is because of inhibition of photosynthesis by direct damage to the photosynthetic apparatus or by internal shading by anthocyanins. Ambient levels of UV radiation did not limit the efficiency of photosynthesis suggesting that phenolic compounds may effectively protect the photosynthetic apparatus. Growth inhibition does, however, occur in red lettuce and could be explained by the high metabolic cost of phenolic compounds for UV protection. From a commercial perspective, UV transparent and UV blocking films offer opportunities because, in combination, they could increase plant quality as well as productivity. Growing plants continuously under a UV blocking film, and then 6 days before the final harvest transferring them to a UV transparent film, showed that high yields and high phytochemical content can be achieved complementarily.     

Photoinhibition by visible and ultraviolet radiation in the red macroalga Porphyra umbilicalis grown in the laboratory

Photosynthetic oxygen production and PAM fluorescence measurements were used to follow photoinhibition in the red macroalga Porphyra umbilicalis. Exposure to simulated solar radiation caused inhibition of the effective photosynthetic quantum yield from which the thalli partially recovered in the shade in subsequent hours. There were no significant differences between samples exposed to unfiltered radiation and those exposed to radiation from which increasing portions of UV radiation had been removed indicating that the thalli are well adapted to current levels of solar PAR and UV radiation. This notion was supported by the finding of high concentrations of UV screening pigments which were even enhanced by exposure to increased UV radiation. However, when exposed to (only) UV radiation about 50% higher than that encountered by the organisms in their natural habitat, the photosynthetic yield decreased slowly and did not show any recovery even when the degree of inhibition did not exceed 10%.     

Identification of over-expressed genes in human renal cell carcinoma by combining suppression subtractive hybridization and cDNA library array

To isolate the over-expressed genes in human renal cell carcinoma (RCC) and analyze its molecular basis of carcinogenesis, we used the mRNA from human RCC tissues as tester and that from the matched normal kidney tissues as driver to construct the suppression subtractive hybridization library. 379 of the subtracted clones were arrayed onto a nylon membrane and the over-expressed genes were then screened by hybridizing the filter with radioactively labeled cDNA from RCC and matched normal kidney tissues. 67 clones over-expressed in RCC by a factor of 6 or more were sequenced and its identities were analyzed in GenBank database. 4 clones were previously unknown fragments and 2 clones represent KIAA genes. The rest clones were the known genes and some of them were RCC-related, including vascular endothelial growth factor, vimentin and tissue factor. Most of the known genes were the RCC-related genes previously unknown, including zinc ribbon domain-containing 1 protein (ZNRD1), pituitary tumor transforming gene1 (PTTG1). Northern blot and semi-quantitative RT-PCR confirmed that the mRNA levels of the 3 novel fragments and 1 KIAA and 3 known genes were significantly higher in RCC than in the matched normal kidney tissues. Immunohistochemical and Western blot analysis for PTTG1 and ZNRD1 revealed increased protein level in RCC. The over-expressed genes in RCC are the potential molecular targets for diagnosis and therapy and it is very important to understand the molecular mechanism of RCC through the profile of over-expressed genes.     

离心机训练对大鼠脑和心脏组织基因表达的影响

 分析离心机训练对大鼠脑和心脏组织基因表达的影响 ,并从中筛选正加速度 (forwardaccel eration ,+Gz)高耐力相关基因 .雄性SD大鼠在动物离心机上训练 ,刺激G值从 + 7Gz～ + 12Gz ,每天增加 + 0 5Gz ,第 12d重复 + 12Gz刺激 ,第 13d在离心机上通过测定动物的 +Gz耐力筛选出高耐力动物 ,立即断头处死 ,取全脑和心脏组织 ,分离其mRNA .将此mRNA与未处理动物相应组织来源的mRNA进行抑制性消减杂交 (SSH) ,获得的相关EST(expressionsequencetag ,EST)进行序列测定 ,并经BLAST进行计算机分析 .结果获得 88条与离心机训练相关的EST ,其中 4 4条为已知基因的部分序列 ,4 4条为未知基因的部分序列 .提示离心机训练对大鼠脑和心脏组织基因表达有影响 ;这些相关基因可能与 +Gz高耐力的产生有关     

Differential gene expression profiles in the venom gland/sac of Orancistrocerus drewseni (Hymenoptera: Eumenidae)

To determine differential gene expression profiles in the venom gland and sac (gland/sac) of a solitary hunting wasp species, Orancistrocerus drewseni Saussure (1857), a subtractive cDNA library was constructed by suppression subtractive hybridization. A total of 498 expressed sequence tags (EST) were clustered and assembled into 205 contigs (94 multiple sequences and 111 singletons). About 65% (134) of the contigs had matched BLASTx hits (E≤10^?4). Among these, 115 contigs had similarity to proteins with assigned molecular function in the Gene Ontology database, and most of them (112 contigs, 83%) were homologous to genes from Hymenoptera, particularly to Apis mellifera (98 contigs). The contigs encoding hyaluronidase and phospholipase A2, known to be main components of wasp venoms, were found in high frequencies (27 and 4%, respectively, as judged by the number of ESTs) in the gene ontology category of catalytic activity. Full‐length open reading frames of hyaluronidase and phospholipase A2 were characterized and their abundance in the venom gland/sac was confirmed by quantitative real‐time PCR. Several contigs encoding enzymes, including zinc‐metallopeptidases that are likely involved in the processing and activation of venomous proteins or peptides, were also identified from the library. Discovery of venom gland/sac‐specific genes should promote further studies on biologically active components in the venom of O. drewseni. © 2009 Wiley Periodicals, Inc.     

Representational Difference Analysis (RDA) reveals differential expression of conserved as well as novel genes during caste-specific development of the honey bee (Apis mellifera L.) ovary

In highly eusocial insects, such as the honey bee, Apis mellifera, the reproductive bias has become embedded in morphological caste differences. These are most expressively denoted in ovary size, with adult queens having large ovaries consisting of 150-200 ovarioles each, while workers typically have only 1-20 ovarioles per ovary. This morphological differentiation is a result of hormonal signals triggered by the diet change in the third larval instar, which eventually generate caste-specific gene expression patterns. To reveal these we produced differential gene expression libraries by Representational Difference Analysis (RDA) for queen and worker ovaries in a developmental stage when cell death is a prominent feature in the ovarioles of workers, whereas all ovarioles are maintained and extend in length in queens. In the queen library, 48% of the gene set represented homologs of known Drosophila genes, whereas in the worker ovary, the largest set (59%) were ESTs evidencing novel genes, not even computationally predicted in the honey bee genome. Differential expression was confirmed by quantitative RT-PCR for a selected gene set, denoting major differences for two queen and two worker library genes. These included two unpredicted genes located in chromosome 11 (Group11.35 and Group11.31, respectively) possibly representing long non-coding RNAs. Being candidates as modulators of ovary development, their expression and functional analysis should be a focal point for future studies.     

Identification of over-expressed genes in human renal cell carcinoma by combining suppression subtractive hybridization and cDNA library array

Renal cell carcinoma (RCC) is a common uro- genital malignancy and often shows odd biological features. RCC accounts for approximately 2% of ma- lignancies worldwide. The incidence of and mortality from RCC have continuously increased during the last 50 years. One third of the patients already have me- tastases when first consulting the doctors. Another 30%—40% of patients develop metastasis after surgi- Identification of over-expressed genes in human RCC 149 cal excision of the pri…     

筛选大鼠血管钙化消退差异表达基因及初步分析

目的：探讨大鼠在血管钙化消退过程中基因表达的变化。方法：选取6周龄SPF级雄性SD大鼠24只,随机分成3组（n=8）,分别为对照组、钙化组和消退组。钙化组和消退组制作血管钙化模型（vitamin D3 plus nieotine,VDN）,对照组生理盐水和花生油灌胃。钙化组和对照组于实验第8周处死,消退组继续饲养至16周处死,测定各组大鼠动脉组织钙含量并作病理检查。采用抑制性消减杂交方法将消退组和钙化组大鼠血管cDNA作差减杂交,分离消退组较钙化组高表达或低表达基因的cDNA片段,建立消退组和钙化组的差异表达文库,扩增、鉴定文库并测序阳性克隆,BLAST比对测序序列。随机挑选4个基因进行RT-PCR验证和DNA条带半定量分析。结果：①血管组织钙含量测定显示钙化组（（15．34±2．51）mg／g）较对照组（（5．20±0．75）mg／g）血管组织钙含量明显升高（P〈0．01）;消退组（（12．73±1．89）mg／g）较钙化组降低（P〈0．05）;②构建了血管钙化的差减文库,对所获阳性克隆进行测序和BLAST比对分析,获得28个表达上调基因和22个表达下调基因。RT-PCR验证示Prdx3,Ank2,Ror2,Abcel等基因在消退组和钙化组间差异表达,消退组较钙化组表达增高,平均约为后者的1．7倍。结论：VDN模型诱导的大鼠血管钙化可以发生主动消退。钙化消退过程中焦磷酸合成相关基因、谷氨酸信号相关基因、还原及凋亡调节基因表达上调,同时见较多骨化相关基因及氧化活性等基因表达下调。钙化抑制基因的表达增多而钙化促进基因表达的下降可能是钙化发生主动消退的内源性机制。     

猪链球菌2型全基因组DNA芯片的研制及基因表达谱技术平台的建立

目的：研制猪链球菌2型（SS2）全基因组DNA芯片,建立SS2基因表达谱技术平台。方法：利用SS2全基因组序列,挑选出2194条基因,经PCR扩增出2156条基因并将产物纯化,点样制备芯片;将芯片用于表达谱研究,采用实时定量PCR验证表达谱结果,对芯片进行可靠性分析。结果：芯片杂交数据与实时定量PCR验证显示了较高的相关性,二者相关系数r=0.87。结论：研制了一批SS2全基因组DNA芯片,并建立了基于DNA芯片的表达谱技术平台。     

Gene expression in the hippocampus of inbred alcohol-preferring and -nonpreferring rats

The hippocampus is sensitive to the effects of ethanol and appears to have a role in the development of alcohol tolerance. The objective of this study was to test the hypothesis that there are innate differences in gene expression in the hippocampus of inbred alcohol-preferring (iP) and -nonpreferring (iNP) rats that may contribute to differences in sensitivity to ethanol and/or in the development of tolerance. Affymetrix microarrays were used to measure gene expression in the hippocampus of alcohol-naive male iP and iNP rats in two experiments (n=4 and 6 per strain in the two experiments). Combining data from the two experiments, there were 137 probesets representing 129 genes that significantly differed (P < or = 0.01); 62 probesets differed at P < or = 0.001. Among the 36% of the genes that were expressed more in the iP than iNP rat at this level of significance, many were involved in cell growth and adhesion, cellular stress reduction and anti-oxidation, protein trafficking, regulation of gene expression, synaptic function and metabolism. Among the 64% of the genes that had lower expression in the hippocampus of iP than iNP rats were genes involved in metabolic pathways, cellular signaling systems, protein trafficking, cell death and neurotransmission. Overall, the data indicate that there are significant innate differences in gene expression in the hippocampus between iP and iNP rats, some of which might contribute to the differences observed in the development of alcohol tolerance between the selectively bred P and NP lines.