鼠肝质膜蛋白质组研究的方法评估

细胞质膜是细胞中重要的细胞器, 在肝功能的发挥中具有非常重要的作用. 使用蔗糖密度梯度离心纯化细胞质膜, 通过电子显微镜观察和免疫印迹法检验膜的纯度. 结果显示, 与组织匀浆成分相比, 质膜富集了20倍, 线粒体的污染减少了约50%. 提取的蛋白质用二/一维凝胶电泳(2DE/1DE)分离、胰酶酶解、电喷雾四极杆飞行时间质谱(ESI-Q-TOF)和基质辅助激光解吸飞行时间串联质谱(MALDI-TOF-TOF)鉴定, 或者提取的蛋白质直接进行溶液内酶解、液相色谱串联电喷雾离子阱质谱(LC-LTQ)(鸟枪法)鉴定. 一共鉴定了547个非冗余蛋白质, 其中34%为质膜或质膜相关蛋白质. 优化和评估了质膜蛋白质组研究的方法, 且对鼠肝质膜蛋白质组进行了系统的分析.     

鼠肝质膜蛋白质组研究的方法评估

细胞质膜是细胞中重要的细胞器, 在肝功能的发挥中具有非常重要的作用. 使用蔗糖密度梯度离心纯化细胞质膜, 通过电子显微镜观察和免疫印迹法检验膜的纯度. 结果显示, 与组织匀浆成分相比, 质膜富集了20倍, 线粒体的污染减少了约50%. 提取的蛋白质用二/一维凝胶电泳(2DE/1DE)分离、胰酶酶解、电喷雾四极杆飞行时间质谱(ESI-Q-TOF)和基质辅助激光解吸飞行时间串联质谱(MALDI-TOF-TOF)鉴定, 或者提取的蛋白质直接进行溶液内酶解、液相色谱串联电喷雾离子阱质谱(LC-LTQ)(鸟枪法)鉴定. 一共鉴定了547个非冗余蛋白质, 其中34%为质膜或质膜相关蛋白质. 优化和评估了质膜蛋白质组研究的方法, 且对鼠肝质膜蛋白质组进行了系统的分析.     

多维色谱-串联质谱联用技术分离和鉴定小鼠肝脏质膜蛋白质

采用自动在线纳流多维液相色谱 串联质谱联用的方法分离和鉴定蔗糖密度梯度离心法分离和富集的小鼠肝脏质膜蛋白质 .以强阳离子交换柱为第一相 ,反相柱为第二相 ,在两相之间连接一预柱脱盐和浓缩肽段 .用含去污剂的溶剂提取细胞质膜中的蛋白质 ,获得的质膜蛋白质经酶解和适当的酸化后通过离子交换柱吸附 ,分别用 10个不同浓度的乙酸铵盐溶液进行分段洗脱 .洗脱物经预柱脱盐和浓缩后进入毛细管反相柱进行反相分离 ,分离后的肽段直接进入质谱仪离子源进行一级和二级质谱分析 .质谱仪采得的数据经计算机处理后用Mascot软件进行蛋白质数据库搜寻 ,共鉴定出 12 6种蛋白质 ,其中 4 1种为膜蛋白 ,包括与膜相关的蛋白质和具有多个跨膜区的整合膜蛋白 ,为建立质膜蛋白质组学研究的适宜方法和质膜蛋白质数据库提供了有价值的基础性研究资料 .     

大麦根质膜微囊的制备及其H~ ,Ca~(2 )转运活性

用蔗糖密度梯度离心法制备出密闭程度较高的大麦根细胞质膜微囊。喹吖咽荧光猝灭和~(45)Ca~(2 )同位素示踪测定表明所制备的微囊具H~ ,Ca~(2 )转运活性。对制备出的质膜制剂纯度和膜朝向进行了分析,并探讨了质膜纯化中影响膜微囊密闭性的因素。匀浆液和悬浮液巾的单价离子盐有利于密闭膜微囊的形成。蔗糖密度梯度和葡聚糖密度睇度离心法均可得到密闭性较高的膜微囊,但后者的纯化效果较差。     

发状念珠藻(发菜)细胞质膜的分离与性质分析

使用一种新方法首次从野生发菜(Nostoc flagelliforme Born.et Flah.)中分离得到细胞质膜并对其性质进行了分析,该方法的主要特点为联合使用细胞破碎仪和毛地黄皂甙对发菜细胞进行破碎.经过细胞破碎仪处理两次(80MPa)后,样品(20mg干重/mL)中的细胞可被毛地黄皂甙(3mg/mL)有效破碎,细胞质膜即可通过蔗糖密度梯度离心得以分离.纯化后的质膜,其吸收光谱中类胡萝卜素的3个吸收峰分别位于458、487和524 nm,另外一种叶绿素前体在673 nm处有少量吸收,质膜的荧光发射来自该叶绿素前体.通过变性电泳对其进行多肽组成分析,可分辨出30多条多肽,其中分子量为80、28、19和17 kD的多肽含量最高.其膜脂主要包含4种成分:单半乳糖甘油二酯(62.4%)、双半乳糖甘油二酯(18.9%)、硫代异鼠李糖甘油二酯(16.7%)和磷酯酰甘油(2.0%).膜脂酯酰基连接有棕榈酸(16:0)、十六碳烯酸(16:1[9])、硬脂酸(18:0)、油酸(18:1[9])、亚油酸(18:2[9,12])和亚麻酸(18:3[9,12,15])等六种脂肪酸,其中十六碳烯酸和亚麻酸为主要成分,分别占总脂肪酸含量的32.3%和34.4%.质膜中高含量的亚麻酸可能是发菜具有极强抗旱能力的一个重要因素.     

离心法分离毕赤酵母活细胞和死细胞

本文以毕赤酵母为研究对象,探索出一种分离活酵母细胞的新方法。研究发现,通过改变淋巴细胞分离液和50%聚蔗糖溶液的比例,获得不同密度的酵母细胞分离液,进而通过离心分层的方法可使毕赤酵母活细胞主要存留于离心液的上层。当酵母细胞分离液的密度为1.1467 g/mL (27.5%淋巴细胞分离液+72.5%聚蔗糖溶液),分离液上下层中酵母活细胞的分配比例差别达到最大,分别为94.67%(分离液上层)和5.33%(分离液下层)。毕赤酵母细胞浓度为4.35×108~1.13×109/mL时,活细胞在分离液上下两层的分配比例约为95%和5%。低毕赤酵母细胞存活率有利于离心分离。本方法可用于有效分离培养液中的毕赤酵母活细胞。     

用两相法纯化玉米精细胞质膜

纯系玉米(Zea mays L.)708的新鲜花粉经蔗糖溶液等渗温育、低渗胀破,用30％Percoll不连续密度梯度离心,制备大量的生活精细胞。精细胞用French压力室破碎后离心(90000×g,4℃),获得微粒体。随后,用16g的(6.2％Dextran T500/6.2％PEG3350)两相系统加以纯化。一级分离后,上相液(U_1)的K~ 刺激的Mg~(2 )-ATP酶活性稍低于下相液(L_1);对U_1进行二级分离后,U_2的K~ 刺激的Mg~(2 )-ATP酶活性远远高于下相液(U_2L),分离率达到61.1％。膜蛋白质的分离趋势与K~ 刺激的Mg~(2 )-ATP酶相似。选用细胞色素C氧化酶作为线粒体的标志酶,虽只经一级分离,但在U_1中已检测不到该酶活性。精细胞质膜的磷钨酸特异染色电镜观察结果显示,由二级分离所得质膜的纯度达到90％以上。     

温和过甲酸氧化辅助酶解结合液质联用技术鉴定大鼠大脑皮层质膜蛋白质

由于膜蛋白质尤其是内在膜蛋白的强疏水性,分析和鉴定质膜蛋白质仍然是以质谱为基础的蛋白质组学的方法中的一个难点.过甲酸氧化是一种应用广泛的打开二硫键的方法,温和的过甲酸试剂能完全的将半胱氨酸转化为半胱磺酸,将甲硫氨酸转化为甲硫氨酸砜,从而使目的蛋白更易溶于水介质.采用蔗糖密度梯度离心法纯化得到大鼠大脑皮层质膜,提取的质膜蛋白质经温和过甲酸氧化处理后经胰酶酶解消化得到肽段,利用LC-MS/MS对所得肽段进行质谱分析,采集的原始数据用Mascot软件进行库搜寻鉴定.此方法是研究质膜蛋白质的新方法,温和过甲酸氧化显示出很好的氧化效果却避免其它不利于鉴定的副反应.从大鼠大脑皮层膜提取物共鉴定出220种蛋白质,其中73种为整合膜蛋白,证明对质膜蛋白质直接进行温和过甲酸氧化然后酶解的方法辅助酶解可以有效的鉴定质膜蛋白质.     

猪脑突触体质膜(Ca2+-Mg2+)-ATPase的分离纯化与性质

以猪脑为材料,经匀浆、差速离心、蔗糖密度梯度离心分离突触体. 低渗破膜得到突触体膜. Triton X-100增溶后,经钙调蛋白亲和层析可得去脂的质膜Ca²⁺-ATPase. 用大体积亲和柱和大体积低Ca²⁺淋洗液淋洗,可得产率、纯度和活性均较高的质膜Ca²⁺-ATPase. 与大豆磷脂保温后,去脂的Ca²⁺-ATPase的水解活力可恢复达3.32 μmol/(mg·min).SDS-聚丙烯酰胺凝胶电泳银染显示单一蛋白质带,分子质量约为140 ku,纯度在90%以上. 不同Ca²⁺浓度明显影响酶的活力.     

大鼠背根神经节细胞质膜的双水相法纯化及其蛋白质组学研究

大鼠背根神经节(dorsal root ganglion, DRG)细胞是一种初级感觉神经元,能传导触觉、痛觉、温觉等神经冲动．为了对少量的DRG组织细胞进行质膜蛋白质组学分析,综合利用差速离心与双水相相结合的方法富集DRG质膜．然后通过SDS-PAGE、CapLC-MS/MS和生物信息学方法对其中的蛋白质进行鉴定和分析．Western blotting图谱扫描后经过Quantity One软件分析,双水相纯化后的质膜与差速离心后得到的粗质膜相比相对浓度增加了2.3倍,与匀浆液相比增加了15倍． 经过大鼠IPI数据库以及相关文献检索, 有729个蛋白质得到鉴定, 其中547个蛋白质具有GO (gene ontology)注释信息,有159 (21.8 %)个蛋白质定位在质膜上．通过对大鼠DRG质膜的蛋白质组学研究,得到了大鼠DRG的质膜蛋白质的分析数据,且提供了一种适用于少量样品的蛋白质组学的分析路线．     

Cellular fractionation and isolation of the plasma membrane of Burkitt's lymphoma cells

A procedure for cellular fractionation and preparation of plasma membrane from a Burkitt's lymphoma cell line is described. This procedure involves homogenization with a Polytron in buffered isotonic sucrose, and separation of cellular fractions by differential and isopycnic centrifugation in sucrose. The isolated plasma membrane fraction contains 44% of the cellular cholesterol, 50% of the ouabain-sensitive (Na⁺ + K⁺)-ATPase activity, 43% of the γ-glutamyltranspeptidase activities and 16% of the phospholipid. This fraction contains only 3% of cellular protein and is contaminated with less than 4% of the total cellular activities of microsomal, lysosomal, mitochondrial, Golgi and soluble marker enzymes. The cholesterol : phospholipid molar ratio of the crude plasma membrane is 0.56. The membranes in this fraction are in the form of vesicles. Further purification of plasma membrane is achieved by sucrose density gradient centrifugation and results in a 25- to 30-fold enrichment of plasma membrane markers. Plasma membrane markers band in these gradients between 1.10 and 1.15 g/cm³.The distribution patterns in the cell fractions of 18 cellular constituents are quantitatively determined. Most constituents are found to distribute in a fashion consistent with the results obtained in other systems. Thymidine-5′-phosphodiesterase (phosphodiesterase I), esterase, nucleoside diphosphatase and glucose-6-phosphatase, however, are shown to be poor markers of membrane fractions in this system.Lactoperoxidase-catalyzed iodination was used to identify several plasma membrane proteins which are exposed at the surface. After separation of labeled polypeptides by sodium dodecyl sulfate gel electrophoresis, the predominant labeled protein was identified as the heavy chain of IgM. Several lesser labeled proteins were observed.     

Proteomic analysis of rat hippocampal plasma membrane: characterization of potential neuronal-specific plasma membrane proteins

The hippocampus is a distinct brain structure that is crucial in memory storage and retrieval. To identify comprehensively proteins of hippocampal plasma membrane (PM) and detect the neuronal-specific PM proteins, we performed a proteomic analysis of rat hippocampus PM using the following three technical strategies. First, proteins of the PM were purified by differential and density-gradient centrifugation from hippocampal tissue and separated by one-dimensional electophoresis, digested with trypsin and analyzed by electrospray ionization (ESI) quadrupole time-of-flight (Q-TOF) tandem mass spectrometry (MS/MS). Second, the tryptic peptide mixture from PMs purified from hippocampal tissue using the centrifugation method was analyzed by liquid chromatography ion-trap ESI-MS/MS. Finally, the PM proteins from primary hippocampal neurons purified by a biotin-directed affinity technique were separated by one-dimensional electrophoresis, digested with trypsin and analyzed by ESI-Q-TOF-MS/MS. A total of 345, 452 and 336 non-redundant proteins were identified by each technical procedure respectively. There was a total of 867 non-redundant protein entries, of which 64.9% are integral membrane or membrane-associated proteins. One hundred and eighty-one proteins were detected only in the primary neurons and could be regarded as neuronal PM marker candidates. We also found some hypothetical proteins with no functional annotations that were first found in the hippocampal PM. This work will pave the way for further elucidation of the mechanisms of hippocampal function.     

Integration of a two-phase partition method into proteomics research on rat liver plasma membrane proteins

To comprehensively identify proteins of the rat liver plasma membrane (PM), we have adopted a proteomics strategy that utilizes sucrose density centrifugation in conjunction with aqueous two-phase partition for plasma membrane isolation, followed by SDS-PAGE, mass spectrometry and bioinformatics. Western blot analysis showed that this method results in highly purified plasma membrane fractions, which is a key to successful plasma membrane proteomics. The PM proteins were separated by SDS-PAGE and digested with trypsin. Through nano-ESI-LC MS/MS analysis we identified 428 rat liver membrane proteins, of which 304 had a gene ontology (GO) annotation indicating a cellular component, and 204 (67%) of the latter were known integral membrane proteins or membrane-associated proteins. In addition to proteins known to be associated with the plasma membrane, several hypothetical proteins have also been identified. This study not only provides a tool to study plasma membrane proteins with low levels of contamination, but also provides a data set for proteins of high to moderate abundance in rat liver plasma membranes, thus allowing for more comprehensive characterization of membrane proteins and a better understanding of membrane dynamics.     

Smooth muscle cell sarcolemma. Purification and properties of plasma membranes from the rat uterus

A membrane fraction with sarcolemmal properties was purified from the smooth muscle layers (myometrium) of rat uterus by successive differential and equilibrium centrifugation in sucrose. The putative sarcolemmal fraction was identified by iodination with [^125I]iodosulfanilic acid, had an equilibrium density of 1.15, and was enriched in enzyme activities usually associated with the plasma membrane including 5′-nucleotidase (EC 3.1.3.5) and (Na⁺ + K⁺) ATPase (EC 3.6.1.3). These membranes were free of mitochondrial or nuclear membrane contamination, suggesting the relative enrichment of sarcolemmal membranes in the fraction. Proteins of the membranes were heterogeneous with respect to molecular weight, but only a few were labelled when intact muscle was radioiodinated. Uniform resistance of sarcolemmal proteins to trypsin digestion and salt extraction suggested many are tightly bound or intrinsic membrane proteins and was a further indication of the homogeneity of membranes in this fraction.     

Isolation and partial characterization of chick brain synaptic plasma membranes

An isolation procedure for synaptic plasma membranes from whole chick brain is reported that uses the combined flotation-sedimentation density gradient centrifugation procedure described by Jones and Matus (Jones. D. H. and Matus. A. I. (1974) Biochim. Biophys. Acta 356, 276–287) for rat brain. The particulate of the osmotically shocked and sonicated crude mitochondrial fraction was used for a flotation-sedimentation gradient step. Four fractions were recovered from the gradient after 30 min centrifugation. The fractions were identified and characterized by electron microscopy and by several markers for plasma membrane and other subcellular organcelles. Fraction 2 was recovered from the 28.5–34% (w/v) sucrose interphase and contained the major part of the activities of the neuronal plasma membrane marker enzymes. The specific activities of the (Na⁺+K⁺)-activated ATPase (EC 3.6.1.3), acetylcholinesterase (EC 3.1.1.7) and 5′-nucleotidase (EC 3.1.3.5) were, respectively, 4.5. 2.0 and 1.2 times higher than in the homogenate. However, Fraction 2 also contained considerable amounts of activities of putative lysosomal and microsomal markers in addition to lower amounts of mitochondrial and myelin markers. Although no prepurification of synaptosomes from the crude mitochondrial fraction was performed, the synaptic plasma membranes obtained showed many properties analogous to similar preparations from rat brain described in recent years.     

Localization of the NaCl-Sensitive Membrane Fraction in Cucumber Roots by Centrifugation on Sucrose Density Gradients

Cucumber plants (Cucumis sativus L. cv. Shogoin) were treatedwith 200 HIM NaCl for one day and the root microsomal membraneswere fractionated by centrifugation on a continuous densitygradient of 10% to 45% sucrose, and the activity of K⁺-Mg²⁺-ATPasewas studied. The most significant difference in the ATPase activitybetween control and NaCl-stressed roots was detected in themembranes sedimented at sucrose concentrations of 40% to 45%.The ATPase activity associated with those fractions was vanadate-sensitive,and the membranes contained much lower levels of calcium andphospholipids after the treatment with NaCl. The putative plasmamembrane fraction collected after centrifugation on a discontinuousgradient of 34% and 45% sucrose appeared to originate from theplasma membrane, as judged by sensitivity to inhibitors andpH optimum of the ATPase activity. NaCl-stress caused a significantreduction in K⁺-Mg²⁺- ATPase activity despite the similarityin polypeptide components detected by SDS-polyacrylamide gelelectrophoresis on disc gels. The effects of NaCl-stress onthe levels of calcium and phospholipids in membranes are discussed,with reference to the disintegration of the membranes. (Received April 7, 1989; Accepted September 19, 1989)     

Separation of K+-and Cl --selective ion channels from rye roots on a continuous sucrose density gradient

Microsomal membranes from rye (Secale cereale L.) roots wereseparated by isopycnic sucrose density gradient centrifugation.The ion channels present in gradient fractions were assayedby reconstitution into planar 1-palmitoyl-2-oleoyl phosphatidylethanolaminebilayers (PLB) and the distributions of ion channel activitieswere compared with membrane markerenzyme activities. A numberof ion channel activities were observed and could be distinguishedon the combined bases of their conductance, selectivity, kineticsand pharmacology. A voltage-dependent maxi (498 pS) cation-channel,a voltage-dependent 199-pS cationchannel, 48-pS and 18-pS K⁺channels, and a 148-pS Cl^– channel (all unitary conductancesdetermined in asymmetrical cis trans 325:100mM KCl) colocalizedwith the plasma membrane marker-enzyme, vanadatesensitive ATPase.A weakly K ⁺-selective (108 pS) channel, a 1249-pS cation-channeland a 98-pS K ⁺ channel colocalized with the tonoplast markerenzyme,nitrate-sensitive ATPase. A 706-pS K⁺ channel colocalized withthe expected distribution of intact plastids and a 38-pS Cl^–channel colocalized with either plastid or ER membranes. Themembrane location of several other channels including a hypervoltage-sensitivemaxi (497 pS) cation-channel, a 270-pS K⁺ channel, an 8-pS K⁺channel and a 4-pS K⁺ channel was equivocal, but they were tentativelyassigned to the Golgi. Thus, the plasma membrane and tonoplastorigin of ion channels previously characterized following theincorporation of plasma membrane prepared by aqueous-polymertwo-phase partitioning or tonoplast derived from isolated vacuolesinto PLB was confirmed and the ion channel complement of previouslyunassayed membranes was defined. This demonstrates the usefulnessof PLB in identifying and characterizing ion channels from plantcell membranes, in particular, those of membranes which areinaccessible to patch-clamp electrodes. Key words: Chloride (Cl^–) channel, potassium (K⁺) channel, planar lipid bilayer, root, rye, Secale cerealeL.     

Isolation of the Ochromanas danica plasma membrane and identification of several membrane enzymes

Ochromonas danica cell homogenate can be fractionated by differential centrifugation into chloroplast, mitochondrial, ribosome, lysosomal, plasma membrane and soluble fractions. The plasma membrane fraction was further purified by discontinuous sucrose density gradient centrifugation and was found to be enriched 4–16-fold in the following enzymes: β-galactosidase, acid phosphatase, alkaline phosphatase, 5′-nucleotidase, and (Na⁺, K⁺)-ATPase. The role of plasma membrane phosphatase in the phosphate metabolism of plants is discussed.     

Evaluation of the application of sodium deoxycholate to proteomic analysis of rat hippocampal plasma membrane

Detergents have been widely used for the solubilization of membrane proteins and the improvement of their digestion. In this paper, we have evaluated the application of sodium deoxycholate (SDC) to the solubilization and digestion of rat hippocampal plasma membrane (PM) proteins. For in-solution digestion, rat hippocampal PM fraction from sucrose-density gradient centrifugation was solubilized by boiling in 1.0% SDC, and directly digested without dilution. During the in-gel digestion of the hippocampal PM proteins separated by SDS-PAGE, 0.1% SDC was added. Before analysis of peptide mixture by liquid chromatography and electrospray mass spectrometry, SDC in the tryptic digests was removed by centrifugation following acidification. Use of 1.0% SDC in solubilization and in-solution digestion of rat PM proteins had led to 77 PM or membrane-associated proteins identified, a more than 2-fold increase over that by use of SDS. The addition of 0.1% SDC to the in-gel digestion of SDS-PAGE-resolved membrane proteins remarkably enhanced the coverage of tryptic peptides and the number of hydrophobic membrane proteins identified. Being a cheaper and more tractable acid-insoluble detergent, SDC could be used at higher concentration in the solubilization and tryptic digestion of proteins including PM proteins with the purpose of enhancing the protein solubility and at the same time making no interference with trypsin activity and subsequent analyses.     

Purification of plasma membranes from roots of barley: specificity of the phosphotungstic Acid-chromic Acid stain

Plasma membrane vesicles from roots of barley (Hordeum vulgare L., var. Arivat) had an equilibrium density in sucrose of about 1.16 grams per cubic centimeter, but could not be purified satisfactorily with the procedure developed for roots of other plant species. The reported procedure involving differential centrifugation to remove mitochondria (peak density of 1.18 grams per cubic centimeter) and subsequent density gradient centrifugation to purify plasma membrane vesicles was modified to include a narrower differential centrifugation fraction (13,000 to 40,000g instead of 13,000 to 80,000g) and a narrower density range in the sucrose gradient (1.15 to 1.18 grams per cubic centimeter instead of 1.15 to 1.20 grams per cubic centimeter). The fraction obtained by the modified procedure was between 60 and 70% pure as determined by staining with the phosphotungstic acid-chromic acid procedure, which was judged to be reliable for identifying plasma membrane vesicles in subcellular fractions from barley roots. The plasma membrane fraction was enriched in K⁺-stimulated ATPase activity at pH 6.5. The presence of nonspecific ATP-hydrolyzing activity in the plasma membrane fraction made it difficult to determine if the ATPase had properties in common with those reported for cation absorption in barley roots.