Quantitative detection of N(7)-(2-hydroxyethyl)guanine adducts in DNA using high-performance liquid chromatography/electrospray ionization tandem mass spectrometry

High-performance liquid chromatography (HPLC) was combined with electrospray ionization tandem mass spectrometry (ESI-MS/MS) to develop a sensitive and selective method for the quantitative measurement of N(7)-(2-hydroxyethyl)guanine (N(7)-HEG) adducts in DNA obtained from ethylene oxide-exposed biological samples. Selected reaction monitoring (SRM) was used as the detection mode while the fragmentation product ion at m/z 152 generated from the precursor protonated N(7)-HEG (m/z 196) was monitored. The detection limits for N(7)-HEG were estimated by twofold serial dilution and determined to be 4 fmol in neat standard solution and 16 fmol when a matrix effect is considered. When the mass spectrometer was operated in the selected ion monitoring mode using only the first quadrupole (without MS/MS function), the detection limits increased to 128 fmol and 1 pmol (when matrix effect is considered), respectively. A good linear correlation (R(2) = 0.999) was observed for signal intensities obtained by injecting 16 fmol--33 pmol of N(7)-HEG into the HPLC/ESI-MS/MS system. Hep G2 cells were incubated for 8 h with medium containing various concentrations of ethylene oxide (ranging from 0.05 to 5.0 mM). A dose-response relationship was established, indicating that the adduct formation increases with the exposure level. The method shows potential, although the detection limit needs to be lowered for practical applications, for use in monitoring N(7)-HEG formation in other biological systems.     

Fe(II) in different macrocycles: electronic structures and properties

A theoretical comparative study of complexes of porphyrin (P), porphyrazine (Pz), phthalocyanine (Pc), porphycene (Pn), dibenzoporphycene (DBPn), and hemiporphyrazine (HPz) with iron (Fe) has been carried out using a density functional theory (DFT) method. The difference in the core size and shape of the macrocycle has a substantial effect on the electronic structure and properties of the overall system. The ground states of FeP and FePc were identified to be the 3A2g [(d(xy))2(d(z)2)2(d(pi))2] state, followed by 3E(g) [(d(xy))2(d(z)2)1(d(pi))3]. For FePz, however, the 3E(g)-3A2g energy gap of 0.02 eV may be too small to distinguish between the ground and excited states. When the symmetry of the macrocycle is reduced from D4h to D2h, the degeneracy of the d(pi) (d(xz), d(yz)) orbitals is removed, and the ground state becomes 3B2g [(d(xy))2(d(z)2)1(d(yz))2(d(xz))1] or 3B3g [...(d(yz))1(d(xz))2] for FePn, FeDBPn, and FeHPz. The calculations also show how the change of the macrocycle can influence the axial ligand coordination of pyridine (Py) and CO to the Fe(II) complexes. Finally, the electronic structures of the mono- and dipositive and -negative ions for all the unligated and ligated iron macrocycles were elucidated, which is important for understanding the redox properties of these compounds. The differences in the observed electrochemical (oxidation and reduction) properties between metal porphycenes (MPn) and metal porphyrins (MP) can be accounted for by the calculated results (orbital energy level diagrams, ionization potentials, and electron affinities).     

Development and validation of an isotope-dilution electrospray ionization tandem mass spectrometry method with an on-line sample clean-up device for the quantitative analysis of the benzene exposure biomarker S-phenylmercapturic acid in human urine

An isotope-dilution electrospray ionization tandem mass spectrometry (ESI-MS/MS) method with an on-line sample clean-up device, for the quantitative analysis of human urine for the benzene exposure biomarker S-phenylmercapturic acid (SPMA), was developed and validated. The sample clean-up system was constructed from an autosampler, a reversed-phase C18 trap cartridge, a two-position switching valve, and controlling computer software and hardware. The sample clean-up system was interfaced via 1/20 splitting to the ESI source of a triple-quadrupole mass spectrometer using negative ion mode and multiple reaction monitoring for SPMA and the isotope-labeled internal standard. A strategy was adopted to acquire pooled blank urine matrix and quality control samples spiked with standards. Validated procedures and data on method specificity, detection limits, standard curves, precision and recovery, sample storage stability, and inter-laboratory comparison are presented. The analytical system was fully automated. No tedious manual sample clean-up procedures are required. With the selectivity and the sensitivity provided by ESI-MS/MS detection, the analytical system can be used for high-throughput and accurate determination of SPMA levels in human urine samples, as a biomarker for environmental as well as occupational benzene exposure.     

两个双核铁（Ⅲ）和三足配体的配合物的合成和晶体结构

运用三足四齿配体三（2－甲基吡啶）胺（TPA）或三（2－甲基苯丙咪唑）胺（TBA）,得到两个双核铁(III)配合物，[Fe₂L₂(μ₂-O)(μ₂-p-NH₂-C₆H₄COO)]³⁺ (L = TPA, 1 和 L = TBA, 2)。两个配合物均为单斜晶系，空间群为P2(1)/c.晶胞参数 1: a = 1.4529(4), b = 1.6622(5), c = 2.0625(6) nm, β= 100.327(5)º, V = 4.900(3) nm³, z = 4, F(000) = 2344, 分子量M_r = 1142.91, Dc = 1.549 g/cm³, R₁ = 0.0544, R₂ = 0.0962. 2: a = 1.3378(4), b = 2.1174(7), c = 2.4351(7) nm, β= 97.315(6)º, V = 6.842(4) nm³, z = 4, F (000) = 3116, 分子量M_r = 1505.08, Dc = 1.444 g/cm³, R₁ = 0.0793, R₂ = 0.1623. 在两个双核铁(III)配合物中，中心的三价铁和配体TPA或TBA上的四个氮原子和两个氧原子通过不同的桥形成一个畸变的八面体构型。     

LiM2(NCN)Br3 (M = Sr,Eu): Synthesis and Crystal Structures of Solid‐State Carbodiimides with Empty Tetrahedral Metal Entities

Two solid‐state carbodiimide compounds, LiM₂(NCN)Br₃ (M = Sr, Eu), with characteristic empty tetrahedral M₄ entities have been synthesized using a flux route, and their structures were determined by single‐crystal X‐ray diffraction. The new phases LiSr₂(NCN)Br₃ and LiEu₂(NCN)Br₃ are isotypical with the corresponding iodides and crystallize in the cubic system (( , Z = 16) but with smaller unit cells (a = 14.641(1) Å for LiSr₂(NCN)Br₃ and 14.572(1) Å for LiEu₂(NCN)Br₃). The extended structures comprise two interpenetrating three‐dimensional networks: the first one is built from isolated M₄ tetrahedra capped by NCN^2? anions on their triangular faces while the second is made from vertex‐sharing LiBr₆ octahedra. The linear NCN^2? anions exhibit the symmetrical carbodiimide shape and serve as linkers between the tetrahedral entities.     

Effects of soluble surfactants on the deformation and breakup of stretching liquid bridges

Surfactants are routinely used to control the breakup of drops and jets in many applications such as inkjet printing, crop spraying, and DNA or protein microarraying. The breakup of surfactant-free drops and jets has been extensively studied. By contrast, little is known about the closely related problem of interface rupture when surfactants are present. Solutions of a nonionic surfactant, pentaethylene glycol monododecyl ether, or C12E5, in water and in 90 wt % glycerol/water are used to show the effects of surfactant and viscosity on the deformation and breakup dynamics of stretching liquid bridges. Equilibrium surface tensions for both solutions can be fitted with the Langmuir-Szyskowski equation. All experiments have been done at 24 degrees C. The critical micelle concentrations for C12E5 are 0.04 and 0.4 mM in water and the glycerol/water solution, respectively. With high-speed imaging, the dynamic shapes of bridges held captive between two rods of 3.15 mm diameter are captured and analyzed with a time resolution of 0.1-1 ms. The bridge lengths are 3.15 mm initially and about 5-7 mm at pinch-off. Breakup occurs after stretching for about 0.2-0.3 s, depending on the solution viscosity and the surfactant concentration. When the liquid bridges break up, the volume of the sessile drop left on the bottom rod is about 3 times larger than that of the pendant drop left on the top rod. This asymmetry is due to gravity and is influenced by the equilibrium surface tensions. Surfactant-containing low-viscosity water bridges are shown to break up faster than surfactant-free ones because of the effect of gravity. With or without surfactant, water bridges form satellite drops. Surfactant-containing high-viscosity glycerol/water bridges break up more slowly than surfactant-free ones because of strong viscous effects. Moreover, the shapes of the sessile drops close to breakup exhibit a "pear-like" tip; whether a satellite forms depends on the surface age of the bridge before stretching commences. These unexpected effects arising from the addition of surfactants are due to the capillary pressure reduction and Marangoni flows linked to dynamic surface tension.     

Analysis of particle-wall interactions during particle free fall

In this study, the vertical motion of a particle in a quiescent fluid falling toward a horizontal plane wall is analyzed, based on simplified models. Using the distance between the particle and wall as a parameter, the effects of various forces acting on the particle and the particle motion are examined. Without the colloidal and Brownian forces being included, the velocity of small particles is found to be approximately equal to the inverse of the drag force correction function used in this study as the particle approaches the near-wall region. Colloidal force is added to the particle equation of motion as the particle moves a distance comparable to its size. It is found that the particle might become suspended above or deposited onto the wall, depending on the Hamaker constant, the surface potentials of the particle and wall, and the thickness of the electrical double layer (EDL). For strong EDL repulsive force and weaker van der Waals (VDW) attractive force, the particle will become suspended above the wall at a distance at which the particle velocity is zero. This location is referred to as the equilibrium distance. The equilibrium distance is found to increase with increased in EDL thickness when a repulsive force barrier appears in the colloidal force interaction. For the weak EDL repulsive force and strong VDW attractive force case, the particle can become deposited onto the wall without the Brownian motion effect. The Brownian jump length was found to be very small. Many Brownian jumps would be required in a direction toward the wall for a suspended particle to become deposited.     

General combinatorics of RNA hairpins and cloverleaves

For an abstract single-strand RNA, a combinatorial analysis is given for two important structures, hairpins and cloverleaves. The total number of hairpins and cloverleaves of a given length with minimal hairpin loop length m(m > 0) and with minimal stack length l(l > 0) is computed, under the assumption that all base pairs can occur.     

The effect of phenyl substituents on the release rates of esterase-sensitive coumarin-based prodrugs

A coumarin-based prodrug system has been recently developed in our laboratory for the preparation of esterase-sensitive prodrugs of amines, peptides, and peptidomimetics. The drug release rates from this prodrug system were found to be dependent on the structural features of the drug moiety. In certain cases, the release can be undesirably slow for drugs that are secondary amines with relatively high pKa's. Aimed at finding ways to manipulate the release rates to suit the need of different drugs, we have examined the effect of the phenyl ring substitutions on the release kinetics of such prodrugs and found that appropriately positioned alkyl substituents on the phenyl ring could help to facilitate the release by as much as 16-fold. Therefore, introduction of alkyl substituents on the phenyl ring should allow us to manipulate the release rates and, therefore, time profiles for different drugs.     

Photochemistry of bicyclo[2.2.2]oct-7-ene-2,5-diones and the corresponding 5-hydroxyimino and 5-methylene derivatives

Synthesis and photochemistry of several title compounds 1-3 containing multiple chromophoric systems are described. The Diels-Alder reactions of 2,6,6-trimethylcyclohexa-2,4-dienone (5) with acetylenes 6a-d provided the adducts 7a-d, which upon hydrolysis furnished the desired bicyclo[2.2.2]octenediones 1a-d. Oximes 2a-d were prepared from diones 1a-d by treatment with hydroxylamine hydrochloride in pyridine. 5-Methylenebicyclo[2.2.2]oct-7-en-2-ones 3a-d were obtained via chemoselective Wittig reaction of the corresponding diones 1a-d. Bicyclo[2.2.2]octenediones 1a-c underwent chemoselective oxa-di-pi-methane rearrangement under sensitized conditions and suffered formal ketene extrusion upon direct irradiation. Direct irradiation of 1d afforded 11d via formal ketene extrusion but under sensitization it remained unchanged. Oximes 2a-d suffered ketene extrusion upon direct irradiation and E/Z isomerization under sensitized conditions. On the other hand, 5-methylenebicyclo[2.2.2]oct-7-en-2-ones 3a-d generally underwent 1,3-acyl shift. The plausible courses of all these photochemical processes are discussed.