应用蛋白质组学技术初步分析HeLa细胞饥饿诱导的自噬相关蛋白

应用双向凝胶电泳(2-DE)结合质谱技术研究饥饿诱导自噬的HeLa细胞(实验组)与正常培养的HeLa细胞(对照组)的差异表达蛋白质。结果显示对照组样本的2-DE图谱检测到1253±100个蛋白斑点,实验组样本检测到1216±125个蛋白斑点,二者主要斑点的位置与数量基本一致。对差异表达蛋白进行质谱分析,首次发现前折叠素2,转胶蛋白2,乳腺癌扩增序列2和Annexin A3在自噬细胞中表达上调,提示这4种蛋白可能参与饥饿诱导的细胞自噬。本研究为自噬的机制初步提供了线索。     

液相等电聚焦结合双向凝胶电泳分离碱性蛋白

在蛋白组学研究中, 经典的双向凝胶电泳法(2-DE)对碱性蛋白及低丰度蛋白的分离存在技术障碍, 但预分离技术的应用可弥补其缺陷. 液相等电聚焦可有效地分离富集复杂蛋白样品. 碱性胶条用于2-DE可极大地提高蛋白上样量和凝胶分辨率. 将上述两种技术相结合用于碱性蛋白质和低丰度蛋白质的分离鉴定, 可使碱端区域双向凝胶图谱质量显著提高, 蛋白点更清晰且点数增多, 质谱鉴定确信度提高, 碱性蛋白和低丰度蛋白质谱鉴定成功率提高, 对于蛋白组学研究具有一定的意义.     

双向电泳-串联飞行时间质谱对急性脊髓损伤大鼠差异蛋白质的分离鉴定

为研究急性脊髓损伤的病理和修复机制,建立了正常和急性脊髓损伤大鼠脊髓组织的双向电泳图谱,确认了16个变化3倍以上的差异蛋白斑点,其中在急性脊髓损伤组蛋白斑点表达上调的10个,表达下调的6个.利用基质辅助激光解析电离串联飞行时间质谱(MALDI-TOF/TOF-MS)成功鉴定出16个差异蛋白质,其中,6个蛋白质是新鉴定的,2个蛋白为同一蛋白的不同修饰.除髓磷脂碱性蛋白(MBP)和中相对分子质量神经丝蛋白(NF-M)已证实与脊髓损伤密切相关外,其它蛋白与脊髓损伤的关系有待研究.     

拟南芥和甜菜夜蛾相互作用的差异蛋白分析

以甜菜夜蛾(Spodoptera exigua)和模式植物拟南芥(Arabidopsis thanliana)作为研究体系, 应用蛋白质双向凝胶电泳(Two-dimensional gel electrophoresis, 2-DE)分析了在甜菜夜蛾取食诱导条件下拟南芥蛋白表达的差异, 从蛋白质水平揭示昆虫取食诱导条件下植物的化学防御机制. 结果发现, 在昆虫取食诱导条件下, 有28个蛋白发生显著变化, 其中17个蛋白点上调表达, 11个蛋白点下调表达. 利用基质辅助激光解吸电离飞行时间质谱(MALDI-TOF MS)对差异蛋白进行了鉴定, 结果发现转酮酶、S-腺苷甲硫氨酸合成酶、二氢硫辛酰胺脱氢酶和脂肪酸合成酶在植物诱导化学防御中具有重要的作用, 其中脂肪酸合成酶与茉莉酸代谢通路相关.     

2D-DIGE-HPLC-nESIMS/MS对2,4-二硝基苯磺酸损伤HaCaT细胞差异蛋白质的鉴定

采用Cy2、Cy3和Cy5荧光染料标记蛋白,建立了人角质形成细胞HaCaT受2,4-二硝基苯磺酸(DNBS)刺激前后的双向胶内差异凝胶电泳(2D-DIGE)图谱,每组平行样本数为3。凝胶采用蛋白荧光染料Deep Purple进行后染色(Post-stain)。DeCyder定量分析软件在每块凝胶上平均检测到1 200个以上蛋白斑点,每块胶上都匹配得到的相同蛋白质斑点有846个。其中有7个斑点丰度变化在50%以上,统计学意义显著(P值小于0.05)。利用高效液相色谱-电喷雾串联质谱(HPLC-nESI MS/MS)成功鉴定5个表达上调的斑点分别为X染色体开放阅读框26(Cxorf26)、人辅分子伴侣23(PTGES3)、钙调蛋白(CALM3)、肌球蛋白轻链6(MYL6)和断裂点丛集区蛋白1(BANF1);2个表达下调蛋白斑点被鉴定为转录延伸因子B肽链2(TCEB2)和核糖体蛋白L23(RPL23)。除MYL6被报道与皮肤疾病相关外,其它蛋白与皮肤病变的关系有待研究。该研究得到的7个差异表达蛋白为DNBS类化学致癌物职业接触者皮肤病变研究提供了有价值的线索。     

应用蛋白质组学方法分析猪晶状体不同区域上皮细胞中蛋白质的表达差异

应用蛋白质组学方法分析比较猪晶状体中央和周边上皮细胞的蛋白质表达差异。将32个正常猪晶状体前囊膜所附着于的上皮细胞分为中央和周边两部分，经二维凝胶电泳分离和凝胶考马斯亮兰染色，质谱（MALDI—TOF—MS）鉴定差异蛋白质斑点，并对鉴定的蛋白质进行分类。结果显示来自中央与周边区域的猪晶体上皮细胞的蛋白在二维凝胶上分别有801和886个蛋白质斑点，鉴定出差异表达蛋白84个：差异表达的蛋白质在功能上有一定趋向性，主要涉及代谢、细胞骨架、信号转导／细胞周期／转录因子等。     

在镉盐胁迫下扇贝鳃组织应激蛋白的研究

采用透射电子显微镜观察了虾夷盘扇贝(Patinopecten yessoensis)鳃组织细胞的超微结构, 发现镉盐能胁迫鳃组织中的腮丝、细胞核和线粒体产生病变. 利用双向凝胶电泳(2D-PAGE)优化分离扇贝鳃组织的全蛋白, 获得约800个蛋白质斑点, 并筛选出37个由于镉盐胁迫而产生的差异蛋白质斑点. 选用基质辅助激光解吸离子化-飞行时间质谱(MALDI-TOF MS)技术和数据库检索鉴定差异蛋白, 结果发现7个与镉毒性密切相关的蛋白质, 即热休克蛋白70和β-淀粉酶等上调蛋白质及原肌球蛋白、肌动蛋白和钙活化核苷酸酶1等下调蛋白质. 此外, 还发现转录调节子Crp/Fnr家族为低表达蛋白质, 而ABC转运子为高表达蛋白质. 在这些差异蛋白中, 部分蛋白质适合作为连续监测流动海水中镉污染程度及评价其危害性的蛋白指示物.     

维拉帕米作用下急性心梗大鼠比较蛋白质组学研究

以急性心梗大鼠为研究对象, 应用双向凝胶电泳法(2-DE)分析比较了维拉帕米作用下急性心梗大鼠心肌蛋白表达的差异, 从蛋白质水平探讨了维拉帕米心肌保护作用的发生机制. 结果表明, 与假手术组及模型组相比, 维拉帕米给药组心肌组织中有8个蛋白点表达显著上调, 7个蛋白点表达显著下调. 采用质谱(MALDI-TOF-MS)分析结合数据库检索, 共鉴定了其中的15种蛋白质, 可按功能分为如下4类: (1) 能量代谢及线粒体功能相关蛋白; (2) 氧化应激相关蛋白; (3) 细胞骨架蛋白; (4) 其它蛋白. 研究结果表明, 维拉帕米的心肌保护作用与恢复心肌损伤过程中的能量供应及对抗氧化应激等作用有关.     

钆对费氏中华根瘤菌抑制效应的蛋白质组分析

运用双向凝胶电泳和MALDI-TOF质谱技术,分析了Gd3+对费氏中华根瘤菌USDA 205的抑制效应。结果表明,经1 mmol.L-1Gd3+处理12 h后,22个蛋白质表达量有显著变化,其中13个蛋白质表达量增加,9个蛋白质表达量下降。这些蛋白质可根据功能分为8类,包括转运蛋白、胁迫相关蛋白、代谢相关蛋白等。     

人脑枕叶区衰老进程的比较蛋白质组学研究

分别从23岁、64岁、72岁、83岁以及94岁无神经性和精神性疾病史个体大脑皮层枕叶区取样．制备蛋白质样晶．进行双向凝胶电泳(2-DE)、考马斯亮蓝染色、凝胶扫描和Image Master 2D Elite软件分析，每张胶上平均可检测到1000个以上蛋白质点．通过软件半定量分析．进一步研究了衰老过程中枕叶蛋白质的差异表达，发现随年龄增长有7种蛋白质有一致的显著上升或下降趋势．应用质谱进行肽质量指纹图谱(PMF)和／或肽序列标签(PST)分析．数据库检索共鉴定了11种蛋白质．其中有5种具有一致的上调或下调性．包括神经元突触结构蛋白低分子量神经丝蛋白(Neurofilament triplet L protein．NF—L)、参与抗氧化反应的硫氧还原蛋白过氧化物酶(Peroxiredoxin)、三羧酸循环关键酶(顺)乌头酸水合酶(Aconitate hydratase)和糖代谢途径中的关键酶烯醇化酶2(Enolase 2)以及分子伴侣蛋白T复合物蛋白l(T-complex protein 1)．首次建立了正常人脑枕叶区的双向电泳蛋白质表达图谱．针对人脑枕叶区蛋白质在衰老过程中的差异表达进行了研究，并对差异表达蛋白在衰老进程中可能的生物学意义做了探讨．     

Two-dimensional electrophoresis of plasma proteins and high density lipoproteins during inflammation

Plasma protein and lipoprotein fractions of five patients were analyzed on day 1, 5, and 15 after severe head injury by combining three types of two-dimensional electrophoresis (2-DE) to obtain information on lipoprotein and apolipoprotein composition. On analysis under nondenaturing conditions in both dimensions on day 5, the samples show modifications of isoelectric point (pI) and molecular weight (Mr) properties of the high density lipoprotein (HDL) fraction in addition to an increase in inflammatory proteins and a return to a normal pattern on day 15. In the second type of 2-DE the samples were analyzed employing isoelectric focusing without denaturant in the first dimension, followed by sodium dodecyl sulfate (SDS) in the second dimension in order to study the protein composition of lipoprotein fractions. On day 5, a decrease of the apolipoproteins apo A-I, apo A-II, and apo C were noted, with simultaneous appearance of an unidentified protein with Mr 12,000 and pI 6.0. In the third type of 2-DE, employing urea and Nonidet P-40 in the first and SDS in the second dimension, the plasma polypeptide composition was studied. The presence of an unidentified polypeptide could be confirmed on day 5, tending to disappear thereafter. This Mr 12,000 component consists of two major spots at pI 5.7 and 6.0 and four minor ones between pI 6.0 and 8.0. These properties suggest that this protein corresponds to serum amyloid A apolipoprotein.     

Two-dimensional electrophoresis of the fatty acid binding protein from human heart: evidence for a thiol group which can form an intermolecular disulfide bond

A 100,000 g supernatant from human heart muscle, containing cytosolic proteins with some contaminating plasma proteins, was analyzed for fatty acid binding protein (FABP) by two-dimensional electrophoresis (2-DE) using isoelectric focusing under nondenaturing conditions in the first dimension. FABP purified from human heart muscle was found to comigrate with a major spot in 2-DE gels of the supernatant. This spot was comparable with those of the myoglobins in staining intensity. When purified FABP was charged with [3H]palmitate and subjected to nondenaturing 2-DE, radioactivity always comigrated with this protein. Under denaturing and reducing conditions in the second dimension, FABP was found to have a pI of 5.3 and an apparent molecular weight of 15,000. Isoforms of FABP, reported here for the first time to occur in human heart muscle, were observed as minor spots focusing at pH 5.1 and 5.7. When electrophoresis in the second dimension was carried out under denaturing but nonreducing conditions, an additional protein appeared at pH 5.3 with an apparent molecular weight of about 30,000. This protein was identified as a dimer of FABP and evidence for the involvement of an intermolecular disulfide bond in this dimerization is presented.     

Two-dimensional gel electrophoresis maps of the proteome and phosphoproteome of primitively cultured rat mesangial cells

Mesangial cells (MC) play an important role in maintaining the structure and function of the glomerulus. The proliferation of MC is a prominent feature of many kinds of glomerular disease. The first reference 2-DE maps of rat mesangial cells (RMC), stained with silver staining or Pro-Q Diamond dye, have been established here to describe the proteome and phosphoproteome of RMC, respectively. A total of 157 selected protein spots, corresponding to 118 unique proteins, have been identified by MALDI-TOF-MS or LC-ESI-IT-MS/MS, in which 37 protein spots representing 28 unique proteins have also been stained with Pro-Q Diamond, indicating that they are in phosphorylated forms. All the identified proteins were bioinformatically annotated in detail according to their physiochemical characteristics, subcellular location, and function. Most of the separated or identified protein spots are distributed in the area of mass 10-70 kDa and pI 5.0-8.0. The identified proteins include mainly cytoplasmic and nuclear proteins and some mitochondrial, endoplasmic reticulum, and membrane proteins. These proteins are classified into different functional groups such as structure and mobility proteins (21.2%), metabolic enzymes (16.9%), protein folding and metabolism proteins (13.6%), signaling proteins (14.4%), heat-shock proteins (7.6%), and other functional proteins (12.7%). While structure and mobility proteins are mostly represented by protein spots with high abundance, signaling proteins are mostly represented by protein spots with relatively low abundance. Such a 2-DE database for RMC, especially with many signaling proteins and phosphoproteins characterized, will provide a valuable resource for comparative proteomics analysis of normal and pathologic conditions affecting MC function or pathologic progress.     

人卵巢癌耐药细胞株的比较蛋白质组分析

本文采用高分辨二维凝胶电泳分离技术对人卵巢癌细胞株COC1及其耐药细胞株COC1/DDP中的蛋白质进行分离和差异表达分析, 应用基质辅助激光解吸电离-飞行时间质谱对酶解多肽进行测定[即测定蛋白质的肽质量指纹图(Peptide mass fingerprinting, PMF)], 并通过相应的数据库搜索来鉴定蛋白质. 为获得更准确的检索结果, 采用串联质谱技术对各肽段进行氨基酸测序, 并应用IPI-HUMAN数据库对上述检索结果进一步加以确认.      

Proteomic profiling of mature leaves from oil palm (Elaeis guineensis Jacq.)

Oil palm is one of the most productive oil bearing crops grown in Southeast Asia. Due to the dwindling availability of agricultural land and increasing demand for high yielding oil palm seedlings, clonal propagation is vital to the oil palm industry. Most commonly, leaf explants are used for in vitro micropropagation of oil palm and to optimize this process it is important to unravel the physiological and molecular mechanisms underlying somatic embryo production from leaves. In this study, a proteomic approach was used to determine protein abundance of mature oil palm leaves. To do this, leaf proteins were extracted using TCA/acetone precipitation protocol and separated by 2DE. A total of 191 protein spots were observed on the 2D gels and 67 of the most abundant protein spots that were consistently observed were selected for further analysis with 35 successfully identified using MALDI TOF/TOF MS. The majority of proteins were classified as being involved in photosynthesis, metabolism, cellular biogenesis, stress response, and transport. This study provides the first proteomic assessment of oil palm leaves in this important oil crop and demonstrates the successful identification of selected proteins spots using the Malaysian Palm Oil Board (MPOB) Elaeis guineensis EST and NCBI‐protein databases. The MS data have been deposited in the ProteomeXchange Consortium database with the data set identifier PXD001307.     

Use of principal components analysis for mutation detection with two-dimensional electrophoresis protein separations.

The application of two-dimensional electrophoresis (2-DE) to mutation detection requires the capability to monitor each protein in a 2-DE pattern for significant changes in abundance indicative of a mutation event. Previously, mutation searches were done using a univariate outlier detection method in which each protein spot was considered independently in a classical outlier search. An alternative approach to analysis of 2-DE patterns for quantitative changes is a multivariate procedure which takes advantage of the observation that protein spots in a 2-DE pattern often represent correlated rather than independent measurements. We have compared the efficiency of univariate and multivariate procedures for mutation detection using data from the Argonne National Laboratory 2-DE database of mouse liver proteins. Analyses involving a total of over 1500 gels were performed to compare the performance of a multivariate method based on principal components analysis (PCA) with the univariate method. Up to 279 spots from each pattern were used for PCA. First, a simulation was performed to assess the detection efficiency of PCA for single protein spots decreased in abundance by 50%. Then, the ability to detect actual mutations was tested using eight confirmed mutations. Results show that, compared to a univariate approach to analysis of data from the mouse model system, the multivariate method increases the number of protein spots on each 2-DE pattern that can be monitored for quantitative changes indicative of mutations by compensating for variables that contribute to the background quantitative variability of protein spots.     

温敏核不育系水稻株1S及其矮秆突变体SV14茎的蛋白质组学比较

采用双向凝胶电泳对温敏核不育水稻株1S和其矮秆突变体SV14的茎(穗颈下第1节和第2节)蛋白进行了分离, 通过银染显色, 获得了分辨率和重复性较好的双向电泳图谱. 选取了26个蛋白质点采用MALDI-TOF-MS进行肽质谱指纹图分析, 最终有12个蛋白质点得到了可靠鉴定. 其中在SV14中相对于株1S上调的仅有OSJNBa0039C07.13 蛋白, 其它蛋白均表现为下调. 这些差异蛋白按照功能可分为4类: (1) 能量代谢相关蛋白; (2) 次生代谢相关蛋白; (3) 调控蛋白; (4) 未知蛋白. 对光合系统Ⅱ氧延伸复合物蛋白质前体2, 果糖二磷酸醛缩酶, UDP-葡糖醛酸脱羧酶对应的基因进行了半定量RT-PCR分析, 发现这几个基因与蛋白质的表达不一致, 可能是RNA发生了翻译后修饰而减少了蛋白表达量的结果. 这些差异蛋白很可能与水稻矮化有关, 为水稻矮秆基因的寻找提供了另一个有效途径.     

A human myocardial two-dimensional electrophoresis database: protein characterisation by microsequencing and immunoblotting.

This communication briefly describes how a human heart two-dimensional electrophoresis (2-DE) protein database is being established in our laboratory. The database contains more than 1500 polypeptides and approximately fifty proteins from 2-DE gels of human myocardial tissue have been characterised. Information about the proteins has been compiled including molecular weight (M(r)), isoelectric point (pI), sample spot (SSP) number, protein name, partial sequence, and antibody reacting with the protein. The first stage of this project involves the investigation of protein with pIs in the range pH 4-7. Future studies will employ immobilised pH gradient (IPG) gels as the first dimension of the 2-DE to examine basic proteins. The ultimate goal of this project is to establish a global picture of human heart protein expression in both normal and disease conditions.     

The protein composition of ferret parotid saliva as revealed by high-resolution electrophoretic methods.

Ferret parotid saliva has been analysed using sodium dodecyl sulfate-polyacrylamide gel electrophoresis (SDS-PAGE) and two-dimensional electrophoresis (2-DE) to determine, for the first time, its protein composition. SDS-PAGE, in combination with Coomassie Brilliant Blue (CBB) staining, revealed up to 20 bands and the patterns were characterised by major protein constituents of Mr 105000, 51000, 47000, 33000, 22000 and 16 400 common to all samples from all animals. Sequential samples collected from the same animal during prolonged stimulation of the parasympathetic nerve (40 min at 40 Hz) showed subtle but reproducible protein changes. Saliva collected from different animals varied widely in the amount of a protein Mr 66000. 2-DE, in combination with silver staining, revealed up to 300 spots and the patterns were characterised by major protein constituents of Mr 105000 (pI 6.3-7.2), Mr 66000 (pI 4.7-5.3), Mr 51000 (pI 5.0-5.7), Mr 47000 (pI 6.0-7.5), and Mr 33000 (pI 4.7-6.0). Many of the polypeptide spot clusters consisted of one or more horizontal strings of spots suggesting extensive microheterogeneity. Both SDS-PAGE and 2-DE indicated that the protein patterns of ferret parotid saliva evoked by electrical stimulation of the parasympathetic nerve in the absence or presence of atropine are similar, i.e., the protein composition of the atropine-resistant nonadrenergic, noncholinergic (NANC) secretion is similar to that of saliva evoked in the absence of muscarinic receptor blockade.