以2, 4, 6-三羟基苯乙酮为基体使用基体辅助激光解吸/电离质 谱法测定核酸分 子的研究

报道以2,4,6-三羟基苯乙酮(2,4,6-THAP)为基体用基体辅助激光解吸/电离飞行时间质谱法(MALDI-TOF-MS)测定核酸分子的研究。2,4,6-THAP解吸和电离DNA分子的效率很高,测定DNA分子d(T)~1~0的[M-H]^-分辨率可达1130.0,信噪比为366.0,检出限达5×10^-^1^4mol,可以测定相对分子质量高达14800以上混合碱基组成的DNA分子。为提高基体对样品解吸/电离效率,对纯化DNA样品的方法进行了讨论。     

多孔磁性硅胶微球的制备及其在基因组脱氧核糖核酸提取中的应用

采用模板法制备了多孔磁性硅胶微球,用于生物样品中基因组脱氧核糖核酸(DNA)的分离纯化。以球形和无定型硅胶为对照,考察了吸附液组成和洗脱时间等实验参数对小牛胸腺基因组DNA在磁性硅胶固相载体上的提取回收率的影响。实验结果表明:20%(W/V)聚乙二醇和2 mol/L氯化钠,洗脱10 m in,DNA的回收率可达80%;采用简单的细胞裂解体系和合适的吸附液组成,磁性微球应用于酿酒酵母中基因组DNA的提取,得到了平均长度约为5 kb、A260/A280大于1.77的高纯度DNA片段。     

在线样品制备技术耦合液相色谱-质谱系统在食品危害物检测中的应用进展

食品安全检测具有重要意义,但食品样品基质复杂,测定其中危害物时,通常需要以下几个步骤：样品制备,即采用适合的样品前处理方法,在不同基质中将目标物分离出来;分离纯化,利用色谱系统进一步分离纯化目标物;定性定量分析,基于目标化合物的性质选择合适的检测器进行分析。其中样品制备是关键步骤之一,将样品制备过程与液相色谱系统耦合可以实现样品的在线自动化分析。与传统人工处理过程相比,在线分析不仅能够减少人工操作误差,保证良好的精密度和重复性,而且可以降低溶剂消耗,避免样品间交叉污染,同时节约分析时间,提高检测效率。本文主要介绍目前常用的在线样品制备技术,包括在线固相萃取(on-line SPE)、管内固相微萃取(in-tube SPME)、湍流色谱法(TFC),详细阐述了其基本原理和耦合设备。在线样品制备技术耦合液相色谱-质谱系统分为两个维度,主要依赖于阀切换技术,将样品制备(第一维度)和液相色谱系统(第二维度)之间建立物理连接,随后采用相应的检测器进行分析。第一维度的作用主要是去除样品杂质,净化分离目标物,为第二维度对目标物进行定性定量检测做准备。此外,文章对3种在线净化系统适用的不同净化填料进行...     

单链构象多态性-毛细管电泳分析中样品纯化研究

聚合酶链反应(PCR)样品中的Cl^-、引物等小分子对单链构象多态性一毛细管电泳分析有重要影响。本文用毛细管电泳一间接紫外法测定了PCR样品中的Cl^-浓度,并对乙醇沉淀法和试剂盒纯化法用于PCR样品的纯化效果进行比较,在此基础上研究了Cl^-浓度、引物及其二聚体在SSCP-CE分析中的影响。结果表明,它们主要影响DNA进样量而对分离效率影响不大。     

亲和色谱纯化超螺旋质粒DNA的研究进展

非病毒载体质粒DNA已被广泛应用于基因治疗和DNA疫苗,目前迫切需要开发其大规模制备和分离纯化方法。亲和色谱是一种高分辨率、高选择性的分离技术,在蛋白质、抗体、核酸等生物大分子的分离纯化方面显示了良好的应用前景。本文综述了亲和色谱技术在超螺旋质粒DNA分离纯化中的研究进展,总结了各种亲和色谱方法分离超螺旋质粒DNA的机理和优缺点,并展望了亲和纯化技术在质粒DNA生产和制备中的应用前景。     

Ru（bpy）3^2＋ -DNA体系的共振光散射光谱研究及其分析应用

研究了Ru(bpy)32 与脱氧核糖核酸(DNA)作用的共振光散射光谱。基于DNA对Ru(bpy)32 共振光散射的增强效应,建立了共振光散射法测定DNA的新方法。在最佳实验条件下,Ru(bpy)32 在373nm处的共振光散射增强与DNA的质量浓度呈线性关系,线性范围为0.04~3.2μg/mL,检出限为16ng/mL。应用于合成样品及实际样品中DNA的测定。     

固相萃取法纯化制备水飞蓟宾和异水飞蓟宾

水飞蓟宾和异水飞蓟宾是水飞蓟素中的主要有效成分,其纯化制备主要借助柱色谱法,制备量大,纯化效果好,但过程非常费时。该研究的主要目的是利用更为快速高效的固相萃取(SPE)法从水飞蓟粗提物中分离纯化水飞蓟宾和异水飞蓟宾。建立了用于分析水飞蓟宾和异水飞蓟宾的高相液相色谱法,通过优化洗脱梯度,实现了水飞蓟宾、异水飞蓟宾与其他组分的分离。试用了3种保留机理不同的SPE填料,包括亲水亲脂(HLB)填料、亲水色谱(HILIC)填料及反相C18硅胶填料。通过对比发现C18硅胶对目标化合物的选择性最佳。进一步控制SPE的淋洗及洗脱条件,收集相应的洗脱液,经氮吹干燥后得到纯化的样品。提纯后的水飞蓟宾和异水飞蓟宾混合物的纯度可达94%以上。水飞蓟宾和异水飞蓟宾的平均回收率分别为70.5%~81.7%和66.7%~81.8%,相对标准偏差分别为2.7%~9.4%和1.5%~6.1%。该方法简单、高效,免去传统分离纯化过程中长时间的柱色谱分离过程,适合制备纯度较高的水飞蓟宾和异水飞蓟宾的二元混合标准样品。     

基于捕集柱阵列的制备型二维液相色谱纯化烟草中的4个组分

二维液相色谱(2D-LC)因具有较高的峰容量,在复杂样品的分离分析中获得了广泛的关注。然而,制备型2D-LC以纯化高纯单体为目标,在方法开发和设备构成等方面与分析型2D-LC有较大的不同,目前尚未得到充分的开发,在大规模的制备纯化中应用较少。本文以一套制备液相色谱模块为分离系统,以稀释泵、切换阀和捕集柱阵列为接口,构建了新型的制备型2D-LC系统,旨在规模化纯化多个活性成分。以烟叶中可以用作医药原料的烟碱、绿原酸、芦丁和茄尼醇等组分为目标物,考察了不同类型填料对样品的捕集效率、过载条件下的色谱保留行为等,优化了制备色谱条件。进而利用在线2D-LC系统实现了烟叶提取物的纯化,通过一次运行获得了4个高纯化合物。该系统具有中压色谱纯化成本低、系统在线运行自动化程度高、稳定性好及容易放大等优点。烟叶中活性化学成分的回收利用对促进烟草行业的发展及带动地方农业经济开发具有重大的意义。     

双孔色谱介质的制备和质粒DNA快速色谱纯化

以甲基丙烯酸缩水甘油酯为单体,二甲基丙烯酸乙二酯为交联剂,环己醇与十二醇为有机致孔剂,200 g/L的碳酸钙悬浮液为内水相(超孔致孔剂),用二次乳化法制备了(W/O)/W乳液,通过紫外光引发悬浮聚合生成两类孔型高分子微球(DEA-B).DEA-B孔径为双峰分布,范围分别为50~200 nm和500~5000 nm.其体积平均粒径、湿密度与不含超孔的微孔介质(DEA-M)接近.在流速为0.5 mL/min(150 cm/h)及相同的洗脱条件下,比较了所制备的微孔色谱介质填充的色谱柱与双孔色谱介质填充的色谱柱对5.4 kb质粒DNA的分离效果.结果表明,仅双孔介质色谱柱可以纯化质粒DNA,并且可以在1500 cm/h的高流速下得到色谱纯的质粒DNA,证明该双孔色谱介质可以用于质粒DNA的高速分离.     

有机聚合物整体柱的改性与应用进展

有机聚合物整体柱具有制备简单、易于改性和通透性好的优点,不仅可作为微柱色谱分离分析的固定相,而且可用作样品纯化富集的载体,广泛应用于基体复杂的生化样品分析领域.该文综述了近年来有机聚合物整体柱的研究进展,重点介绍了其制备方法、改性技术及在生化样品预处理领域的研究动态.针对其制备方法,从制备过程、制备原料(单体、交联剂、...     

Spectral and Electrochemical Investigation of Intercalations of Adrenaline and CT－DNA

A strong interaction between double stranded calf-thymus DNA (ds-DNA) and adrenaline in solution, but no interaction between single stranded calf-thymus DNA (ss-DNA) and adrenaline was observed by the use of UV-visible spectroscopy and voltammetric techniques. It is suggested that the interaction leads to an intercalation of adrenaline molecules into the groove of ds-DNA and the formation of ds-DNA (adrenallne)n complex. The binding site size of the interaction of adrenaline with CT-DNA in nucleotide phosphate [ NP] has been determined as 25. The interaction of different concentration adrenaline with DNA modified GCE shows that the DNA modified GCE can be a good tool to detect lower concentration adrenaline.     

Hybridization of oligonucleotide by using DNA self-assembled monolayer

The interaction between DNA immobilized on surface and oligonucleotides at the interface is important in detection and diagnostic processes. However, it is difficult to immobilize DNA with maintaining its activity and to realize an efficient hybridization in previous methods. Here, to establish a novel DNA-functionalized surface, the DNA self-assembled monolayer (SAM) was constructed on a gold substrate using thiolated DNA composed of double-stranded (ds) and single-stranded (ss) portion. The DNA SAM was characterized by surface plasmon resonance (SPR), XPS. The hybridization of ss portion of DNA was attempted using the SAM, and in situ monitored by SPR. XPS measurement indicated that the thiolated DNA could form a stable monolayer on a gold substrate through sulfur–gold interaction. SPR measurement implied that the long axis of the DNA standing on the substrate. These results indicated formation of the DNA SAM on the substrate. Hybridization of target DNA containing a complementary sequence for the probe portion was observed by SPR. Moreover, one mismatch of oligonucleotide could be distinguished using the DNA SAM. The SPR result indicates that hybridization of target DNA and probe DNA on the DNA SAM occurs on the DNA SAM.     

DNA分子结构的多态性研究 (Ⅱ) 吖啶橙凝聚体变化诱导的质粒DNA大分子构象的研究

利用吸收光谱和荧光光谱方法,研究了吖啶橙（ＡＯ）与质粒ＤＮＡ水溶液、以及含胶束介质的吖啶橙与质粒ＤＮＡ溶液体系的相互结合作用及减色效应。结果表明：吖啶橙对质粒ＤＮＡ的吸收光谱有减色效应;含十二烷基硫酸钠（ＳＤＳ）的ＡＯ水溶液体系中,随着ＳＤＳ浓度的增加,其光谱结果表现为由凝聚态向单体的转化。而在含十二烷基硫酸钠（ＳＤＳ）的ＡＯ与质粒ＤＮＡ溶液体系中,吖啶橙凝聚态随ＳＤＳ浓度的增加,对ＡＯ与质粒ＤＮＡ相互结合产生协同的减色效应,使质粒ＤＮＡ空间结构发生缩拢。进一步采用电泳法研究了ＡＯ凝聚态可能对质粒ＤＮＡ构象的影响,结果表明：在ＡＯ与质粒ＤＮＡ溶液体系中,ＡＯ浓度的增加对质粒ＤＮＡ构象未产生影响;而在含有ＳＤＳ的ＡＯ与质粒ＤＮＡ的溶液体系中,由于ＳＤＳ对ＡＯ凝聚态的解聚作用,以及ＳＤＳ对质粒ＤＮＡ减色效应的协同作用,使得质粒ＤＮＡ的构象发生变化,诱导质粒ＤＮＡ形成超螺旋构象     

High resolution mass spectrometry based profiling of diet-related deoxyribonucleic acid adducts

Exposure of DNA to endo- and exogenous DNA binding chemicals can result in the formation of DNA adducts and is believed to be the first step in chemically induced carcinogenesis. DNA adductomics is a relatively new field of research which studies the formation of known and unknown DNA adducts in DNA due to exposure to genotoxic chemicals. In this study, a new UHPLC-HRMS(/MS)-based DNA adduct detection method was developed and validated. Four targeted DNA adducts, which all have been linked to dietary genotoxicity, were included in the described method; O⁶-methylguanine (O⁶-MeG), O⁶-carboxymethylguanine (O⁶-CMG), pyrimidopurinone (M1G) and methylhydroxypropanoguanine (CroG). As a supplementary tool for DNA adductomics, a DNA adduct database, which currently contains 123 different diet-related DNA adducts, was constructed. By means of the newly developed method and database, all 4 targeted DNA adducts and 32 untargeted DNA adducts could be detected in different DNA samples. The obtained results clearly demonstrate the merit of the described method for both targeted and untargeted DNA adduct detection in vitro and in vivo, whilst the diet-related DNA adduct database can distinctly facilitate data interpretation.     

Biochemical Characterization of Translesion Synthesis by Sulfolobus acidocaldarius DNA Polymerases

To study the DNA synthesis mechanism of Sulfolobus acidocaldarius, a thermophilic species from Crenarchaeota, two DNA polymerases of B family(polB1 and polB3), and one DNA polymerase of Y family(polIV) were recombinantly expressed, purified and biochemically characterized. Both DNA polymerases polB1(Saci_1537) and polB3(Saci_0074) possessed DNA polymerase and 3' to 5' exonuclease activities; however, both the activities of B3 were very inefficient in vitro. The polIV(Saci_0554) was a polymerase, not an exonuclease. The activities of all the three DNA polymerases were dependent on divalent metal ions Mn²⁺ and Mg²⁺. They showed the highest activity at pH values ranging from 8.0 to 9.5. Their activities were inhibited by KCl with high concentration. The optimal reaction temperatures for the three DNA polymerases were between 60 and 70℃. Deaminated bases dU and dI on DNA template strongly hindered primer extension by the two DNA polymerases of B family, not by the DNA polymerase of Y family. DNA polymerase of Y Family bypassed the two AP site analogues dSpacer and propane on template more easily than DNA polymerases of B family. Our results suggest that the three DNA polymerases coordinate to fulfill various DNA synthesis in Sulfolobus acidocaldarius cell.     

Application of magdala red as a fluorescence probe in the determination of nucleic acids

A fluorescence quenching method was developed for the rapid determination of DNA and RNA using magdala red as fluorescence probe. In weakly acidic medium, the fluorescence of magdala red (lambdaex/lambdaem = 540/555 nm) can be largely quenched by DNA or RNA. The calibration graphs are linear over the range 0.01-1.2 microg/mL for both calf thymus DNA (CT DNA) and salmon DNA (SM DNA), and 0.015-1.0 microg/mL for yeast RNA, respectively. The corresponding detection limits are 6.0 ng/mL for CT DNA, 7.0 ng/mL for SM DNA and 15.0 ng/mL for yeast RNA, respectively. CT DNA could be determined in the presence of 20% (w/w) yeast RNA, and the relative standard deviation of six replicate measurements is 3.18% for 400 ng/mL of CT DNA. Interference from coexisting substances in the determination of DNA was also examined. Real samples were determined with satisfactory results.     

Liposome-mediated conformation transition of DNA detected by molecular probe: methyl green

Recent studies have focused on the structural features of DNA-lipid assemblies. In this paper, we take methyl green (MG) as a probe molecule to detect the conformational change of DNA molecule induced by dimethyldioctadecylammonium bromide (DDAB) liposomes before the condensation process of DNA begins. DDAB-induced DNA topology changes were investigated by cyclic voltammetry (CV), circular dichroism (CD) and UV-VIS spectrometry. We find that upon binding to DNA, positively charged liposomes induce a conformational transition of DNA molecules from the native B-form to the C motif. Conformational transition in DNA results in the binding modes of MG to DNA, changing and being isolated from DNA to the solution. More stable complexes are formed between DNA and DDAB. That is also proved by the melting study of DNA.     

Effects of condensing agent and nuclease on the extent of ejection from phage lambda

We have recently demonstrated, that DNA ejection from bacteriophage lambda can be partially or completely suppressed in vitro by external osmotic pressure. This suggests that DNA ejection from phage is driven by an internal mechanical force consisting of DNA bending and DNA-DNA electrostatic repulsion energies. In the present work we investigate the extent to which DNA ejection is incomplete at zero osmotic external pressure when phage is opened with its receptor in vitro. The DNA fragment remaining in the capsid and the tail that is no longer bent or compressed -and hence for which there is no internal driving force for ejection- is shown not to be ejected. We also demonstrate that DNA can be "pulled" out from the capsid by DNase I acting as a DNA binding protein or spermine acting as a DNA condensing agent. In particular, cryo electron microscopy and gel electrophoresis experiments show the following: (i) DNA ejection from bacteriophage lambda incubated in vitro with its receptor is incomplete at zero external osmotic force, with several persistence lengths of DNA remaining inside the phage capsid, if no nuclease (DNase I) or DNA condensing agent (spermine) is present in the host solution; (ii) in the presence of both DNase I and spermine in the host solution, 60% (approximately 29 kbp) of wild-type lambda DNA (48.5 kbp) remains unejected inside the phage capsid, in the form of an unconstrained toroidal condensate; (iii) with DNase I added, but no spermine, the ejection is complete; (iv) with spermine, but without DNase I added, all the DNA is again ejected, and organized as a toroidal condensate outside.     

Sensitive voltammetric detection of DNA damage at carbon electrodes using DNA repair enzymes and an electroactive osmium marker

This paper presents a new approach to electrochemical sensing of DNA damage, using osmium DNA markers and voltammetric detection at the pyrolytic graphite electrode. The technique is based on enzymatic digestion of DNA with a DNA repair enzyme exonuclease III (exoIII), followed by single-strand (ss) selective DNA modification by a complex of osmium tetroxide with 2,2'-bipyridine. In double-stranded DNA possessing free 3'-ends, the exoIII creates ss regions that can accommodate the electroactive osmium marker. Intensity of the marker signal measured at the pyrolytic graphite electrode responded well to the extent of DNA damage. The technique was successfully applied for the detection of (1) single-strand breaks (ssb) introduced in plasmid DNA by deoxyribonuclease I, and (2) apurinic sites generated in chromosomal calf thymus DNA upon treatment with the alkylating agent dimethyl sulfate. The apurinic sites were converted into the ssb by DNA repair endonuclease activity of the exoIII enzyme. We show that the presented technique is capable of detection of one lesion per approximately 10(5) nucleotides in supercoiled plasmid DNA.     

Construction and control of plasmid DNA network

The influences of different cations on plasmid DNA network structures on a mica substrate were investigated by atomic force microscopy (AFM). Interactions between the DNA strands and mica substrate, and between the DNA strands themselves were more strongly influenced by the complex cations (Fe(phen)3(2+), Ni(phen)3(2+), and Co(phen)3(3+)) than by the simple cations (Mg2+, Mn2+, Ni2+, Ca2+, Co3+). The mesh height of the plasmid DNA network was higher when the complex cations were added to DNA samples. The mesh size decreased with increasing DNA concentration and increased with decreasing DNA concentration in the same cation solution sample. Hence, plasmid DNA network height can be controlled by selecting different cations, and the mesh size can be controlled by adjusting plasmid DNA concentration.