mRNA差别显示技术在植物发育研究中的应用

mRNA差别显示技术是近年发展起来的研究基因表达差异的有效方法。它不仅可比较基因表达差异、追踪已知基因的表达情况,而且可作为寻找特异表达基因的重要手段。本文介绍此方法在植物春化作用、光周期反应、花发育、雄性不育、成熟、衰老、种子发育和休眠及根发育等研究领域的应用概况。     

红莲优6号杂交水稻与亲本三系不同发育时期幼苗叶片基因表达差异分析

运用DDRT-PCR对红莲型杂交稻组合红莲优6号及其亲本、保持系（粤泰A、粤泰B、9311）的一叶期、三叶期叶片基因表达状况进行分析。结果表明：杂种与亲本之间在同一发育时期基因表达既有质量上又有数量上的差异,但差异表达基因所占比较较小;而对于同一材料,一叶期、三叶期的叶片cDNA扩增带型相似,没有发现基因质上的差异表达,说明一叶期与三叶期幼苗叶片基因表达差异很小。实验也证明DDRT-PCR技术结合银染方法是一种简单快速分析差异表达基因的有效方法。     

乳腺癌转移相关基因与功能识别的可重复性

基于基因表达谱识别乳腺癌转移相关差异表达基因及其功能时,由于基因表达在个体间的变异相对较高而样本量相对较少,由不同研究识别的差异表达基因的可重复性较低。本文基于两套乳腺癌转移基因表达谱,评价两组差异表达基因及其所富集的功能的可重复性。结果显示:在两套表达谱中识别的差异表达基因的表达改变方向高度一致并具有显著的表达相关性;基于两组差异表达基因识别的转移相关功能在两套表达谱中高度可重复,主要涉及细胞分裂、细胞周期、DNA复制、染色体分离、磷酸肌醇介导信号转导和DNA损伤刺激应答等。     

FaSPS1基因对草莓果实成熟调控的分子机理

该研究以草莓品种‘红颜’(Fragaria×ananassa‘Benihoppe’)为试材,分析了草莓果实发育不同阶段蔗糖磷酸合成酶基因(FaSPS1)的表达量变化,采用PCR方法克隆FaSPS1基因,构建带有报告基因的e-GFP植物表达载体,通过瞬时转基因方法转化草莓果实,采用观察绿色荧光和检测目的基因表达量的方法鉴定转基因植物,并分析FaSPS1基因超表达和反义表达后草莓果实的成熟发育以及与成熟相关的基因表达量变化,探究FaSPS1基因在果实成熟发育中的特殊作用,为深入了解草莓果实发育和成熟调控的分子机理提供思路。结果显示:(1)成功克隆得到FaSPS1基因(GenBank登录号AB267868.1);成功构建带有报告基因e-GFP的FaSPS1基因超表达载体和反义基因表达载体,通过瞬时转基因方法转化并经荧光和目的基因表达量检测的方法鉴定获得转FaSPS1基因草莓植株。(2)与空载对照和非转基因果实相比,FaSPS1基因过表达可促进草莓果实成熟,能够使草莓果实成熟期提前,且果实中蔗糖果糖含量升高;但反义表达后会抑制草莓果实成熟,果实中苹果酸含量升高。(3)基因超表达或者反义表达后,草莓果实成熟相关基因的表达量受到不同程度调控,其中糖代谢基因FaSPS2/3、FaSUT1,果实成软化基因FaEXP1、FaEXP3、FaXYL1以及激素代谢基因FaJAZ1、FaJAZ2、FaJAZ8、FaOPR3、FaPYL1、FaPYL8、FaPYL9、FaNCED1表达量变化最明显。研究推测,FaSPS1基因可能通过影响草莓果实中和成熟相关的糖代谢基因、果实软化基因以及激素代谢基因来调控草莓果实成熟。     

果蝇发育中细胞决定和分化与基因表达环境

胚胎发育是个程序化的,复杂而有趣的生命现象。在胚胎发育中,不同细胞的分化和其 功能由基因决定,受到核内遗传物质的控制。而细胞的决定和分化则是在不同的细胞质对细胞核的不断作用下,才能逐步进行。核质之间的相互作用先建立特定的基因表达状态,从而选择性表达发育调控基因或分化基因。发育调控基因产物一旦进入胞质,就可改变原来的基因表达环境,使细胞核进入新的基因表达状态,选择表达新的发育调控基因。如果新的发育调控基因的产物再影响细胞核,改变原来的基因表达状态,其它的发育调控基因的表达就可使胚胎细胞进一步分化。在发育过程中,细胞质和细胞核的这个相互作用不断进行,使控制发育程序的不同基因群在特定的时空中表达,受精卵分裂产生的子细胞才能不断决定和逐步分化,最后形成组成个体所必须的各种细胞类型。     

杜仲叶片不同发育时期数字基因表达谱分析

为在转录水平解析杜仲叶片发育过程中的基因表达模式,该研究通过数字基因表达谱技术对‘华仲6号’杜仲叶片从展叶(4月)到落叶(10月)不同发育时期的基因表达水平进行比较分析,共获得差异基因3 002个,其中1 764个表达量上调,1 238个下调,这些差异表达基因主要行使催化、氧化还原等功能,参与代谢过程和生物过程等;进一步Pathway富集分析发现,苯丙素类生物合成途径相关基因被富集,其中调控绿原酸合成的6个基因差异表达显著;对这些基因表达模式进行分析显示,4月中旬和9月中旬基因的表达量较高,暗示这两个时期对于绿原酸的合成具有重要作用。荧光定量RT-PCR检测6个绿原酸合成相关基因和12个随机选择的差异表达基因,验证结果显示表达谱测序结果可靠。该研究结果为揭示杜仲叶片在不同发育时期的分子调控机制奠定了基础,并为深入解析杜仲绿原酸合成机理,进而通过分子育种手段提高杜仲绿原酸含量提供新的路径。     

茶树种子发育过程的转录组分析

该研究以‘铁观音’茶树品种的种子为试验材料,采用转录组测序技术分析种子发育的3个时期(幼果期、膨大期、成熟期)的表达差异,探究茶树种子油脂代谢的分子机制。结果表明:(1)经转录组测序、组装后共获得30 940 581个clean reads,经数据合并拼接最终得到36 951条非冗余Unigene序列,其中28 476个Unigene可得到功能注释;在转录本中能够被注释到GO分类的Unigene有11 201条(30.3%),KEGG分析发现共有17 172个基因参与了127个代谢通路。(2)经KEGG通路筛选出14条与脂肪酸代谢相关的通路,且随着茶籽的发育,大部分脂肪酸调控途径相关基因呈下调趋势,其中上调基因数最多的有α-亚麻酸代谢途径和脂肪酸降解途径(有17个基因表达量上调),下调基因数最多的是甘油磷脂代谢途径(有58个基因表达量下调);在茶籽发育幼果期α-亚麻酸代谢途径中表达量上调的基因数超过表达量下调的基因数。(3)研究发现茶籽脂肪酸合成相关的基因涉及14个脂类调控途径,共409条差异基因;随着茶树种子发育到成熟期,上调的差异表达基因数量在减少,下调的差异表达基因数量增加,其中α-亚麻酸途径中的基因PLA2G16、DAD1、pldA、FabF、FabI表达量上调显著,随后表达量下调。(4)qRT-PCR检测结果表明,7个茶树FAD和1个ACP差异表达基因的水平与转录组测序结果基本一致;随着茶籽的发育,基因CsFAD7和Δ6-CsFAD从幼果期、果实膨大期至果实成熟期都为差异下调表达,CsFAD2、CsFAD6和Δ7-CsFAD为差异上调表达,CsFAD8、Δ8-CsFAD和CsACP在幼果期至果实膨大期差异上调表达,在果实膨大期至果实成熟期差异下调表达。     

通过诱导剂作用于启动子的条件性基因表达(英文)

通过遗传工程技术获得的转基因动植物对分析某些生化过程和发育途径极为有用。通过化学诱导剂作用于启动子的条件性基因表达是分子生物学和生物技术应用研究中的强有力的手段。建立于目标基因激活和失活基础之上的几个化学分子诱导基因表达系统已有报道。将来自于原核生物、昆虫和其它动物的调节因子应用于新的物种有利于促进转基因技术的应用和有关基因的时空表达研究。本文综述了有关的基因表达调节系统 ,启动子激活的基因表达系统 ,启动子失活的基因表达系统 ,以及可诱导的基因过度表达和反义抑制系统     

斑马鱼VEGF基因的siRNA表达载体构建、有效序列筛选及其对基因表达的干预性研究

为探索小干扰RNA（small interfering RNA,siRNA）表达质粒在研究斑马鱼血管内皮生长因子（vascular endothelial growth factor,VEGF）基因调控网络中的应用,构建了4个以斑马鱼VEGF基因为靶点的siRNA表达载体pSI—VEGF、pS2-VEGF、pS3-VEGF及pS4-VEGF。通过显微注射的方法将载体导入1-2细胞期斑马鱼体内,于胚胎发育的48h采用RT-PCR的方法检测VEGF基因的表达量,研究不同干扰序列对VEGF基因表达的干涉作用。结果显示,成功地构建了siRNA表达载体。针对不同位点的寡核苷酸序列抑制VEGF基因表达的效率有显著差异,其中注射了ps1-VEGF的胚胎出现了心包膜水肿、血流速度减慢、循环红细胞堆积等症状,同时肠下静脉、节间血管以及其它血管出现不同程度的发育缺陷。实验结果说明,pS1-VEGF可引起斑马鱼胚胎血管发育缺陷。     

不同视觉经验中zif268基因的表达模式

zif268基因编码一转录因子ZIF268. 在发育的视皮层中,zif268基因的表达模式受发育的调节. 在具有正常视觉经验的视皮层中,zif268基因有较高水平的表达. 视觉废置后,视皮层内该基因的表达水平显著降低. 通过视觉刺激可显著增强该基因的表达. 有关zif268基因表达模式的研究对于阐明该基因在哺乳动物视觉系统中的生理功能起到借鉴的作用.     

The routine differential leukocyte count vs automated differential counts

The clinical use of the proposed performance standards for differential leukocyte counts is determined by multiple factors. Their use must be considered according to the specific use of the differential count, the sources of variability in differential counting, the relation between specific use and sources of variability, the role of analytic errors in the detection of nonspecific changes, the use of qualitative vs quantitative data, the sensitivity and specificity of the routine eye count, the role of disease or specific cell prevalence in determination of predictive value, the effect on use of automated instruments for screening, and whether abnormal specimen flagging can be done. The routine eye-count differential method, as performed by a well-trained technologist or technician, seems to lack both sensitivity and specificity. Because of the magnitude of technique- and method-related and biologic sources of variability, the 100- or 200-cell eye-count differential method is not a good screening method for detection of hematologic illnesses, particularly those that are uncommon. The automated differential leukocyte instruments address many of the technique- and method-related errors and are thus able to equal or exceed the performance of the routine eye-count differential method.     

mRNA差异显示条件的优化

运用优化的mRNA差异显示技术分离受内生真菌诱导的差异基因。优化差异显示条件表现在增如指定引物和随机引物的长度、改变PCR参数和再扩增程序、运用银染显色等。应用这些条件共获得7个阳性差异片段。用未优化的PCR程序1筛选35条差异带,得到3个两端均为随机引物的差示片段。而用优化的PCR程序2,52条差异带中得到9条只能用锚定引物和随机引物才能扩增出的片段。地高辛标记的反向-Northern鉴定为阳性后进行克隆和测序。PCR方法1所得的3个差示片段均无开放的阅读框。PCR程序2得到7个差异表达的基因中,2个为已知基因,5个为未知基因。因此可运用优化的差显技术分离差异表达的基因。     

Genome-wide co-expression based prediction of differential expressions

MOTIVATION: Microarrays have been widely used for medical studies to detect novel disease-related genes. They enable us to study differential gene expressions at a genomic level. They also provide us with informative genome-wide co-expressions. Although many statistical methods have been proposed for identifying differentially expressed genes, genome-wide co-expressions have not been well considered for this issue. Incorporating genome-wide co-expression information in the differential expression analysis may improve the detection of disease-related genes. RESULTS: In this study, we proposed a statistical method for predicting differential expressions through the local regression between differential expression and co-expression measures. The smoother span parameter was determined by optimizing the rank correlation between the observed and predicted differential expression measures. A mixture normal quantile-based method was used to transform data. We used the gene-specific permutation procedure to evaluate the significance of a prediction. Two published microarray data sets were analyzed for applications. For the data set collected for a prostate cancer study, the proposed method identified many genes with weak differential expressions. Several of these genes have been shown in literature to be associated with the disease. For the data set collected for a type 2 diabetes study, no significant genes could be identified by the traditional methods. However, the proposed method identified many genes with significantly low false discovery rates. AVAILABILITY: The R codes are freely available at http://home.gwu.edu/~ylai/research/CoDiff, where the gene lists ranked by our method are also provided as the Supplementary Material.     

崔-Lawson和Logistic方程参数的优化估计方法

本文提出用单形寻优与微分方程数值解法的联合方法,进行生态学中一些微分动力系统的参数的优化估计。用这种方法来估计崔-Lawson和Logistic方程的各参数效果极好。     

崔—Lawson和Logistic方程参数的优化估计方法

本文提出用单形寻优与微分方程数值解法的联合方法,进行生态学中一些微分动力系统的参数的优化估计。用这种方法来估计崔-Lawson和Logistic方程的各参数效果极好。     

含扩散和时滞的偏微分方程解的振动性

研究一类含扩散和时滞的偏微分方程解的振动性,利用平均法,通过使用偏泛函微分方程上、下解思想和泛函微分方程振动性理论,获得了其解的非负性和关于正平衡态振动的充分条件．     

Synaptic integration of NMDA and non-NMDA receptors in large neuronal network models solved by means of differential equations

Alpha functions are commonly used to describe different receptor channel kinetics (non-NMDA, GABA_A and GABA_B). In this paper we show that they may be represented as solutions to simple ordinary differential equations. This alternative method is compared with the commonly used direct summation of the alpha function conductances in a high-level neuronal circuit model. A parametric study shows that the differential equation method greatly speeds up the previous summation method. The forward Euler method used to solve this differential equation is shown to be accurate for this type of simulation. The modelling of NMDA receptor channel kinetics is also discussed. Received: 18 December 1992/Accepted in revised form: 28 June 1993     

Rapid and Reliable Differential Display from Minute Amounts of Tissue: Mass Cloning and Characterization of Differentially Expressed Genes from Loblolly Pine Embryos

Performing RNA differential display analysis on small tissue samples is difficult since much RNA, the initial template for the reaction, is lost during conventional isolation procedures. We have developed a rapid method which employs oligo-dT beads to capture mRNA from cell lysates. Subsequent reactions are primed directly from the beads, thus RT and PCR reactions can be completed within a few hours of tissue harvest. This approach allows us to perform differential display on a single pine embryo. We describe strategies for distinguishing classes of co-migrating bands excised from differential display gels and outline a PCR-based method for confirming differential expression of large numbers of cloned bands in cases where RNA quantities are limiting.     

Determination of cell capacitance using the exact empirical solution of partial differential Y/partial differential Cm and its phase angle

Measures of membrane capacitance offer insight into a variety of cellular processes. Unfortunately, popular methodologies rely on model simplifications that sensitize them to interference from inevitable changes in resistive components of the traditional cell-clamp model. Here I report on a novel method to measure membrane capacitance that disposes of the usual simplifications and assumptions, yet is immune to such interference and works on the millisecond timescale. It is based on the exact empirical determination of the elusive partial derivative, partial differential Y/partial differential C(m), which heretofore had been approximated. Furthermore, I illustrate how this method extends to the vesicle fusion problem by permitting the determination of partial differential Y(v)/partial differential C(v), thereby providing estimates of fusion pore conductance and vesicle capacitance. Finally, I provide simulation examples and physiological examples of how the method can be used to study processes that are routinely interrogated by measures of membrane capacitance.