Furan-oxidation-triggered inducible DNA cross-linking: acyclic versus cyclic furan-containing building blocks--on the benefit of restoring the cyclic sugar backbone

Oligodeoxynucleotides incorporating a reactive functionality can cause irreversible cross-linking to the target sequence and have been widely studied for their potential in inhibition of gene expression or development of diagnostic probes for gene analysis. Reactive oligonucleotides further show potential in a supramolecular context for the construction of nanometer-sized DNA-based objects. Inspired by the cytochrome P450 catalyzed transformation of furan into a reactive enal species, we recently introduced a furan-oxidation-based methodology for cross-linking of nucleic acids. Previous experiments using a simple acyclic building block equipped with a furan moiety for incorporation into oligodeoxynucleotides have shown that cross-linking occurs in a very fast and efficient way and that substantial amounts of stable, site-selectively cross-linked species can be isolated. Given the destabilization of duplexes observed upon introduction of the initially designed furan-modified building block into DNA duplexes, we explore here the potential benefits of two new building blocks featuring an extended aromatic system and a restored cyclic backbone. Thorough experimental analysis of cross-linking reactions in a series of contexts, combined with theoretical calculations, permit structural characterization of the formed species and allow assessment of the origin of the enhanced cross-link selectivity. Our experiments clearly show that the modular nature of the furan-modified building blocks used in the current cross-linking strategy allow for fine tuning of both yield and selectivity of the interstrand cross-linking reaction.     

基于多壁碳纳米管和纳米金修饰电极测定特殊序列DNA的电化学生物传感器的制备

基于多壁碳纳米管和纳米金复合膜修饰电极制备了特殊序列的靶DNA的电化学生物传感器.该传感器以六氨基合钌为杂交指示剂,用差示脉冲伏安法进行检测DNA杂化,其响应信号与靶DNA浓度在1.0×10<'-12>～1.0×10<'-7>mol/L范围内呈线性关系,检测限达3.5×10<'-13>mol/L.该传感器能区分单碱基错配的靶DNA.     

Ionic liquid-functionalized graphene as modifier for electrochemical and electrocatalytic improvement: comparison of different carbon electrodes

Electrochemical activities of typically electrochemical targets at three kinds of modified carbon electrodes, i.e. carbon ionic liquid electrode (CILE), graphene/carbon paste electrode (CPE), and ionic liquid-functionalized graphene (IL-graphene)/CPE, were compared in detail. The redox processes of the probes at IL-graphene/CPE were faster than those at CILE and graphene/CPE from cyclic voltammetry. An electrochemical method for the simultaneous determination of guanine and adenine was described with detection limits of 6.5 × 10⁻⁸ mol L⁻¹ (guanine) and 3.2 × 10⁻⁸ mol L⁻¹ (adenine). Single A → G mutation of sequence-specific DNA could be discriminated by the IL-graphene/CPE.     

Studies on the adsorption of cell impurities from plasmid-containing lysates to phenyl boronic acid chromatographic beads

Plasmid DNA (pDNA) is purified directly from alkaline lysis-derived Escherichia coli (E. coli) lysates by phenyl boronate (PB) chromatography. The method explores the ability of PB ligands to bind covalently, but reversibly, to cis-diol-containing impurities like RNA and lipopolysaccharides (LPS), leaving pDNA in solution. In spite of this specificity, cis-diol free species like proteins and genomic DNA (gDNA) are also removed. This is a major advantage since the process is designed to keep the target pDNA from binding. The focus of this paper is on the study of the secondary interactions between the impurities (RNA, gDNA, proteins, LPS) in a pDNA-containing lysate and 3-amino PB controlled pore glass (CPG) matrices. Runs were designed to evaluate the role of adsorption buffer composition, feed type (pH, salt content), CPG matrix and sample pretreatment (RNase A, isopropanol precipitation). Water was chosen as the adsorption buffer over MgCl(2) solutions since it maximised pDNA yield (96.2±4.9%) and protein removal (61.3±3.0%), while providing for a substantial removal of RNA (65.5±3.5%) and gDNA (44.7±14.1%). Although the use of pH 3.5 maximised removal of impurities (~75%), the best compromise between plasmid yield (~96%) and RNA clearance (~60-70%) was obtained for a pH of 5.2. Plasmid yield was maximal (>96%) when the concentration of acetate and potassium ions in the incoming lysate feed were 1.7 M and 1.0 M, respectively. The pre-treatment of lysates with RNase A deteriorated the performance since the resulting oligoribonucleotides lack the cis-diol group at their 3' termini. Overall, the results support the idea that charge transfer interactions between the boron atom at acidic pH and electron donor groups in the aromatic bases of nucleic acids and side residues of proteins are responsible for the non-specific removal of gDNA, RNA and proteins.     

Performance of a non-grafted monolithic support for purification of supercoiled plasmid DNA

The use of therapeutics based on plasmid DNA (pDNA) relies on procedures that efficiently produce and purify the supercoiled (sc) plasmid isoform. Several chromatographic methods have been applied for the sc plasmid purification, but with most of them it is not possible to obtain the required purity degree and the majority of the supports used present low capacity to bind the plasmid molecules. However, the chromatographic monolithic supports are an interesting alternative to conventional supports due to their excellent mass transfer properties and their high binding capacity for pDNA. The separation of pDNA isoforms, using short non-grafted monolithic column with CarbonylDiImidazole (CDI) functional groups, is described in the current work. The effect of different flow rates on plasmid isoforms separation was also verified. Several breakthrough experiments were designed to study the effect of different parameters such as pDNA topology and concentration as well as flow rate on the monolithic support binding capacity. One of the most striking results is related to the specific recognition of the sc isoform by this CDI monolith, without flow rate dependence. Additionally, the binding capacity has been found to be significantly higher for sc plasmid, probably because of its compact structure, being also improved when using feedstock with increased plasmid concentrations and decreased linear velocity. In fact, this new monolithic support arises as a powerful instrument on the sc pDNA purification for further clinical applications.     

“三明治式”多层Au/Pt复合薄膜的制备及其对甲醇的电氧化

采用界面组装、欠电位沉积和氧化还原置换反应组合方法制备了单层Pt/Au复合薄膜, 并且不需要任何有机偶联剂; 组装单层Pt/Au复合薄膜为三类多层Pt/Au复合薄膜: (Pt/Au)_n、Pt_m/Au和(Pt₃/Au)_k (n、m和k分别为Pt/Au、Pt和Pt₃/Au的层数). 采用电子显微镜研究了Au纳米粒子单层膜和Pt/Au复合多层膜的形貌. 对于所有的多层膜电极而言, 其电化学活性面积随着层数的增加而增加. 通过研究甲醇在每一类Pt/Au复合薄膜上的氧化电流密度, 考察了其对甲醇的电催化和抗毒化性能. 对于同一类复合薄膜而言, 甲醇分别在(Pt/Au)₃、Pt₃/Au和(Pt₃/Au)₂电极上均具有最大的氧化电流密度, 且优于本体Pt电极. 在这三种电极中, (Pt/Au)₃电极无论从电流密度上还是从抗毒化能力上讲, 其性能是最好的, 而且其抗毒化能力也优于商业Pt/C催化剂. 这种良好的催化性能源于Au和Pt之间最大化的协同效应, 这取决于Pt和Au原子比率以及Pt纳米层和Au纳米层之间的排布方式.     

竹红菌乙素镁、锌配位聚合物的光物理和光生物性质

竹红菌乙素(HB)能与Mg2+和Zn2+形成重复单元数为5-20的配位聚合物(Mg2+-HB,Zn2+-HB),利用紫外-可见(UV-Vis)吸收光谱,傅里叶变换红外(FTIR)光谱,核磁共振氢谱(1H NMR)对其进行了表征.Mg2+-HB和Zn2+-HB的单重态氧量子产率分别为HB的1.2倍和0.42倍.瞬态吸收实验表明:氧气能够猝灭Mg2+-HB和Zn2+-HB的三重态,其效率可超过96％.系间窜越效率(φT)和将能量传递给氧气并能产生单重态氧的三重态光敏剂的比例(fT△)对HB及其金属配合物的单重态氧量子产率有较大影响.电子自旋共振(EPR)实验结果表明:Mg2+-HB和Zn2+-HB产生半醌负离子自由基的能力较弱,进而降低了Mg2+-HB和Zn2+-HB光敏产生超氧负离子自由基的能力.紫外-可见吸收光谱与小牛胸腺脱氧核糖核酸(CT DNA)熔链温度实验表明:Mg2+-HB和Zn2+-HB可通过静电作用与DNA结合.有氧条件下,Mg2+-HB,HB和Zn2+-HB对小牛胸腺DNA的光敏损伤效率分别为32％,25％和22％.活性氧猝灭实验表明Mg2+-HB主要通过单重态氧光敏损伤DNA.     

亲水作用色谱法测定组织中全基因组DNA甲基化水平

建立了亲水作用色谱(HILIC)测定组织中全基因组DNA甲基化水平的方法。采用苯酚-氯仿提取组织中的DNA,提取的DNA用88%甲酸在140 ℃下裂解,经N2吹干后,加乙腈-水(9:1, v/v)溶解,用Waters BEH HILIC柱进行分离,在277 nm波长下检测胞嘧啶(Cyt)及5-甲基胞嘧啶(5-mCyt)含量。结果表明,以乙腈-10 mmol/L甲酸铵溶液(94:6, v/v)为流动相,流速为0.5 mL/min, Cyt与5-mCyt分离较好,保留时间分别为2.6与3.1 min。胞嘧啶的线性范围为1～900 μmol/L,相关系数为0.9999; 5-甲基胞嘧啶的线性范围为1～64 μmol/L,相关系数为0.9998。胞嘧啶和5-甲基胞嘧啶的检出限为54 nmol/L(柱中为0.54 pmol),定量限为250 nmol/L(柱中为2.5 pmol);在5～900 μmol/L的添加水平下,胞嘧啶和5-甲基胞嘧啶的平均加标回收率为94.7%～100.5%,相对标准偏差小于1.48%。用该方法检测了结肠癌组织中DNA甲基化水平,结果显示该癌组织中全基因组的DNA甲基化均值为4.0%。该方法快速、简单,稳定性好,灵敏度较高,能满足全基因组DNA甲基化的检测要求。     

静电自组装制备纳米TiO2/SiO2光催化材料

采用静电自组装方法制备了纳米TiO2/SiO2光催化材料。采用巯丙基三甲氧基硅烷偶联剂对SiO2进行干法改性,采用双氧水/冰醋酸将偶联剂巯基基团氧化为磺酸基基团。在正负电荷的吸引下,带负电荷的SiO2与带正电荷的钛聚合阳离子自发地组装在一起,经一定温度热处理得到纳米TiO2/SiO2光催化材料。采用XRD、FTIR、PL、UV-Vis DRS、SEM和ICP等对材料进行了分析和表征。采用甲基橙溶液评价材料的光催化性能。结果表明:SiO2促使锐钛矿的形成,抑制锐钛矿向金红石的转变,减小TiO2的晶粒尺寸,使得TiO2光吸收波长发生蓝移。TiO2与SiO2通过Si-O-Ti键发生结合。采用静电自组装方法制备的材料中TiO2的含量高于传统方法,导致材料的光催化性能有所提高。     

三元TBZ/HPB-铜(Ⅱ)-L-蛋氨酸配合物的合成、表征、抑菌活性及与DNA的作用

本文合成了2个新的三元铜(Ⅱ)配合物:[Cu(TBZ)(L-Met)(H2O)]ClO4.H2O(1)和[Cu(HPB)(L-Met)]ClO4(2)[TBZ=2-(4′-噻唑基)苯并咪唑,HPB=2-(2-吡啶)苯并咪唑,L-Met=L-蛋氨酸]。通过元素分析、摩尔电导率、IR、UV-Vis及电喷雾质谱对这些配合物进行了表征。用二倍稀释法研究了配合物的抗菌活性,发现配合物对金黄色葡萄球菌(Staphylococcus aureus,G+),枯草杆菌(Bacillussubtilis,G+),沙门氏杆菌(Salmonella,G-)和大肠杆菌(Escherichia coil,G-)具有良好的抑制作用。采用电子吸收光谱、荧光光谱、粘度测定及琼脂凝胶电泳方法研究了配合物与DNA的相互作用,结果表明,配合物以插入方式与DNA作用,在维生素C存在下通过羟自由基.OH,单线态氧1O2或者1O2类似物如Cu-O2,切割pBR322 DNA双螺旋结构。