Absolute electronic excitation cross sections for low-energy electron (5-12 eV) scattering from condensed thymine

The absolute cross sections for electronic excitations of thymine by electron impact between 5 and 12 eV are determined by means of electron-energy loss (EEL) spectroscopy for the molecule deposited at submonolayer coverage on an inert Ar substrate. The lowest EEL features at 3.7 and 4.0 eV are attributed to the excitation of the triplet 1 3A'(pi --> pi*) and 1 3A'(n --> pi*) valence states of the molecule. The higher EEL features located at 4.9, 6.3, 7.3, and 9 eV with a weak shoulder around 6 eV are ascribed mostly to triplet valence (pi --> pi*) excitation manifold of the molecule. The energy dependence of the cross section for both the lowest triplet valence excitations shows essentially a peak at about 5 eV reaching a value of 2.9 x 10(-17) cm2. The cross sections for the higher EEL features are generally characterized by a common broad maximum around 8 eV. The latter reaches a value of 1.36 x 10(-16) cm2 for the combined 6 and 6.3 eV excitation region. The maxima in the present cross sections are found to correspond to the resonances that have been reported at about the same energies in the O- yield from electron impact on thymine in the gas phase.     

Single,double, and multiple double strand breaks induced in DNA by 3-100 eV electrons

Nonthermal secondary electrons with initial kinetic energies below 100 eV are an abundant transient species created in irradiated cells and thermalize within picoseconds through successive multiple energy loss events. Here we show that below 15 eV such low-energy electrons induce single (SSB) and double (DSB) strand breaks in plasmid DNA exclusively via formation and decay of molecular resonances involving DNA components (base, sugar, hydration water, etc.). Furthermore, the strand break quantum yields (per incident electron) due to resonances occur with intensities similar to those that appear between 25 and 100 eV electron energy, where nonresonant mechanisms related to excitation/ionizations/dissociations are shown to dominate the yields, although with some contribution from multiple scattering electron energy loss events. We also present the first measurements of the electron energy dependence of multiple double strand breaks (MDSB) induced in DNA by electrons with energies below 100 eV. Unlike the SSB and DSB yields, which remain relatively constant above 25 eV, the MDSB yields show a strong monotonic increase above 30 eV, however with intensities at least 1 order of magnitude smaller than the combined SSB and DSB yields. The observation of MDSB above 30 eV is attributed to strand break clusters (nano-tracks) involving multiple successive interactions of one single electron at sites that are distant in primary sequence along the DNA double strand, but are in close contact; such regions exist in supercoiled DNA (as well as cellular DNA) where the double helix crosses itself or is in close proximity to another part of the same DNA molecule.     

Absolute vibrational and electronic cross sections for low-energy electron (2-12 eV) scattering from condensed pyrimidine

Low-energy vibrational and electronic electron-energy-loss (EEL) spectra of pyrimidine condensed on a thin film of solid argon held at 18 K are reported for the incident-energy range of 2-12 eV. Sensitivity to symmetry and spin forbidden transitions as well as correlations to the triplet states of benzene make it possible to ascribe the main features, below 7 eV in the electronic part of the EEL spectrum, to triplet transitions. The lowest EEL feature with an energy onset at 3.5 eV is attributed to a transition to the (3)B(1)(n-->pi(*)) valence electronic state and the next triplet n-->pi(*) transition to a (3)A(2) state located around 4.5 eV. The remaining EEL features at 4.3, 5.2, 5.8, and 6.5 eV are all assigned to pi-->pi(*) transitions to states of symmetry (3)B(2), (3)A(1), (3)B(2), and (3)B(2)+(3)A(1), respectively. The most intense maximum at 7.6 eV is found to correspond to both (1)B(2) and (1)A(1) transitions, as in the vacuum ultraviolet spectra. Absolute inelastic cross sections per scatterer are derived from a single collision treatment described herein. Their values are found to lie within the 10(-17) cm(2) range for both the electronic and the vibrational excitations. Features in the energy dependence of the cross sections are discussed, whenever possible, by comparison with data and mechanisms found in the gas phase. A maximum over the 4-5 eV range is attributed to a B (2)B(1) shape resonance and another one observed in the 6-7 eV range is ascribed to either or both sigma(*) shape resonances of (2)A(1) and (2)B(2) symmetries.     

Site-selective abstraction in the reaction of 5-20 eV O+ with a self-assembled monolayer

Site-specific reaction of hyperthermal O+ with a self-assembled monolayer is described. Isotopic labeling experiments reveal the percentage of abstraction products formed from hydrogen atoms bound originally to the top three carbon atoms in the chain.     

Induction of strand breaks in DNA films by low energy electrons and soft X-ray under nitrous oxide atmosphere

Five-monolayer (5 ML) plasmid DNA films deposited on glass and tantalum substrates were exposed to Al K_α X-rays of 1.5 keV under gaseous nitrous oxide (N₂O) at atmospheric pressure and temperature. Whereas the damage yields for DNA deposited on glass are due to soft X-rays, those arising from DNA on tantalum are due to both the interaction of low energy photoelectrons from the metal and X-rays. Then, the differences in the yields of damage on glass and tantalum substrates, essentially arises from interaction of essentially low-energy electrons (LEEs) with DNA molecules and the surrounding atmosphere. The G-values (i.e., the number of moles of product per Joule of energy absorbed) for DNA strand breaks induced by LEEs (G_LEE) and the lower limit of G-values for soft X-ray photons (G_XL) were calculated and the results compared to those from previous studies under atmospheric conditions and other ambient gases, such as N₂ and O₂. Under N₂O, the G-values for loss of supercoiled DNA are 103±15 nmol/J for X-rays, and 737±110 nmol/J for LEEs. Compared to corresponding values in an O₂ atmosphere, the effectiveness of X-rays to damage DNA in N₂O is less, but the G value for LEEs in N₂O is more than twice the corresponding value for an oxygenated environment. This result indicates a higher effectiveness for LEEs relative to N₂ and O₂ environments in causing SSB and DSB in an N₂O environment. Thus, the previously observed radiosensitization of cells by N₂O may not be only due to OH radicals but also to the reaction of LEE with N₂O molecules near DNA. The previous experiments with N₂ and O₂ and the present one demonstrate the possibility to investigate damage induced by LEEs to biomolecules under various types of surrounding atmospheres.     

Fragmentation dynamics of condensed phase thymine by low-energy (10-200 eV) heavy-ion impact

We report measurements of the formation and desorption of ionic fragments induced by very low-energy (10-200 eV) Ar(+) irradiation of thymine (T) films, deposited on a polycrystalline Pt substrate. A multitude of dissociation channels is observed, among which the major cation species are identified as HNCH(+), HNC(3)H(4) (+), C(3)H(3) (+), OCNH(2) (+), [T-OCN](+), [T-OCNH(2)](+), [T-O](+), and [T+H](+) and the major anions as H(-), O(-), CN(-),and OCN(-). Cation fragment desorption appears at much lower threshold energies (near 15 eV) than anion fragment desorption, where the latter depends strongly on the film thickness. It is proposed that anion fragment formation and desorption results from projectile impact-induced excitation of either (1) a neutral thymine molecule, followed by fragmentation and charge exchange between the energetic neutral fragment and the substrate (or film) and/or (2) a deprotonated monoanionic thymine molecule to a dissociative state, followed by a unimolecular fragmentation of the excited thymine anion. The H(-) and O(-) fragment formations may have a further contribution from dipolar dissociation, e.g., formation of electronically excited neutral thymine, followed by dissociation into O(-)+[T-O](+), due to their reduced sensitivity to the film thickness. Positive-ion fragment desorption exhibits no significant dependence on film thickness before the emergence of surface charging, and originates from a kinetically assisted charge-transfer excitation. The results suggest that the potential energy of the incident ion plays a significant role in lowering the threshold energy of kinetic fragmentation of thymine. Measurements of the time-dependent film degradation yields for 100-eV Ar(+) suggest a quantum efficiency for degradation of about six thymine molecules per incident ion.     

Oriented immobilization of antibodies by a self-assembled monolayer of 2-(biotinamido)ethanethiol for immunoarray preparation

Orientation of antibodies is very important in the preparation of immunoarrays to keep the activity of antibodies on solid surfaces. Thus, we synthesized a new bifunctional compound, 2-(biotinamido)ethanethiol, and investigated whether the thiol compound is useful to analyze antibody-antigen interactions on immunoarrays with a spectral SPR biosensor. The synthesized organic thiol was characterized by nuclear magnetic resonance spectroscopy and mass spectrometry. 2-(Biotinamido)ethanethiol formed a monolayer on a gold surface and properly immobilized antibodies via streptavidin and biotinylated protein G. Optimal molar ratio of 2-(biotinamido)ethanethiol and mercaptohexanol for antigen-antibody interactions was 1:2. Thus, 2-(biotinamido)ethanethiol is an useful bifunctional linker in the preparation of immunoarrays on gold surfaces.     

Mass spectrometry investigation of the degradation of polyethylene terephtalate induced by low-energy (<100 eV) electrons

Polyethylene terephtalate (PET) thin films were damaged by low-energy (0–100 eV) electron irradiation to simulate the degradation of this polymer in electronic devices. The products formed were analyzed by mass spectrometry. The emission of anions from the polymer surface is associated with dissociative electron attachment (DEA) and dipolar dissociation (DD) for H⁻, and with DD for O⁻. The monotonic emission rise in O⁻ desorption as a function of incident electron energy is produced by mid-chain C–O–C cleavage, leading to chain scission. The signal of the positive mass fragments showed only a monotonic increase with electron energy. In this case, chemical recombination with hydrogen atoms also leads to chain scission.     

Resonant vibrational excitation and de-excitation of N2(v) by low-energy electrons

We have calculated cross sections and rate coefficients for low-energy electron impact excitation of the nitrogen molecule from vibrationally excited levels N2(v) 1-8. Calculations are performed in the 2Pig shape resonance energy region, from 0 to 5 eV. The cross sections are determined by using our recent integral cross section measurements of the ground level vibrational excitation and the most recent cross sections for elastic electron scattering, applying the principle of detailed balance. The rate coefficient calculations are performed for the Maxwellian electron energy distribution. By using extended Monte Carlo simulations, the electron energy distribution functions (EEDF) and the rate coefficients are also determined for the nonequilibrium conditions, in the presence of the homogeneous external electric field for the typical, moderate values of the electric field over gas number density ratios, E/N.     

Molecular packing density of a self-assembled monolayer formed from N-(2-aminoethyl)-3-aminopropyltriethoxysilane by a vapor phase process

The molecular density of an aminosilane self-assembled monolayer formed from N-(2-aminoethyl)-3-aminopropyltriethoxysilane (AEAPS) by a vapor phase method has been estimated to be about 3 AEAPS molecules per nm(2) based on chemical labeling, optical absorption spectroscopy and X-ray photoelectron spectroscopy.     

Emission cross sections of balmer-α,β,γ radiation for electrons (0–2000 eV) on H2 and D2

Absolute emission cross sections (σ_em) of Balmer-α,β, γ radiation have been measured in the case of electrons (0–2000 eV) incident on H₂ and D₂. The H Balmer σ_em's are larger than the corresponding D Balmer σ_em's for every electron impact energy. It has been found that this isotope effect varies strongly as a function of the incident electron energy below 100 eV. The isotope effect will be interpreted using the H₂ and D₂ potential energy curves.     

Experimental and theoretical (e,2e) ionization cross sections for a hydrogen target at 75.3 eV incident energy in a coplanar asymmetric geometry

Very recently it was shown that the molecular three-body distorted wave (M3DW) approach gives good agreement with the shape of the experimental data for electron-impact ionization of H(2) in a coplanar symmetric geometry, providing the incident electrons have an energy of 35 eV or greater. One of the weaknesses of these studies was that only the shape of the cross section could be compared to experiment, since there was no absolute or relative normalization of the data. Here we report a joint experimental/theoretical study of electron-impact ionization of H(2) in a coplanar asymmetric geometry where the energy of the incident electron was fixed, and different pairs of final state electron energies were used. In this case, the experimental data can be normalized such that only one renormalization factor is required. It is shown that the M3DW is pretty good in agreement with experiment. However, a better treatment of polarization and exchange between the continuum and bound state electrons is required before quantitative agreement between experiment and theory is achieved.     

N-hydroxy-4-(4-chlorophenyl)thiazole-2(3H)-thione as a photochemical hydroxyl-radical source: photochemistry and oxidative damage of DNA (strand breaks) and 2'-deoxyguanosine (8-oxodG formation)

On irradiation of N-hydroxythiazole-2(3H)-thione 3 at 300 nm, the photoproducts disulfide 4, bisthiazole 5 and thiazole 6 are formed. During this photolysis, hydroxyl radicals are released, which have been detected by spin trapping with 5,5-dimethyl-1-pyrroline N-oxide (DMPO), coupled with electron paramagnetic resonance spectroscopy. In the presence of supercoiled pBR322 DNA, irradiation of thiazolethione 3 induces strand breaks through the photogenerated hydroxyl-radicals, as confirmed by control experiment with the hydroxyl-radical scavenger isopropanol. Singlet oxygen appears not to be involved, as attested by the lack of a D2O isotope effect. During the photoreaction of thiazolethione 3 in the presence of 2'-deoxyguanosine (dG), the latter is photooxidized (ca 10% conversion after 2 h of irradiation) to the 7,8-dihydro-8-oxo-2'-deoxyguanosine as the main oxidation product. The dG conversion levels off after complete consumption of thiazolethione 3 and is suppressed by the addition of the hydroxyl-radical scavenger 2,6-di-tert-butylcresol or DMPO. Since the photoproducts 4-6 are ineffective as sensitizers for the photooxidation of dG and DNA, the hydroxyl radicals released in the photolysis of thiazolethione 3 are the oxidizing species of DNA and dG. These results suggest that the thiazolethione 3 may serve as a novel and effective photochemical hydroxyl-radical source for photobiological studies.     

Zinc(II)- and copper(I)-mediated large two-photon absorption cross sections in a bis-cinnamaldiminato Schiff base

A Schiff base ligand has been synthesized by condensing 1,2-diaminobenzene with 4-(dimethylamino)cinnamaldehyde to give a donor-pi-acceptor-pi-donor system which does not show any two-photon absorption cross section but which does, upon complexation with Zn(II) or Cu(I), exhibit very high two-photon absorption cross sections.     

Silylation of an OH-terminated self-assembled monolayer surface through low-energy collisions of ions: a novel route to synthesis and patterning of surfaces

Using a multi-sector ion-surface scattering mass spectrometer, reagent ions of the general form SiR(3) (+) were mass and energy selected and then made to collide with a hydroxy-terminated self-assembled monolayer (HO-SAM) surface at energies of approximately 15 eV. These ion-surface interactions result in covalent transformation of the terminal hydroxy groups at the surface into the corresponding silyl ethers due to Si--O bond formation. The modified surface was characterized in situ by chemical sputtering, a low-energy ion-surface scattering experiment. These data indicate that the ion-surface reactions have high yields (i.e. surface reactants converted to products). Surface reactions with Si(OCH(3))(3) (+), followed by chemical sputtering using CF(3) (+), yielded the reagent ion, Si(OCH(3))(3) (+), and several of its fragments. Other sputtered ions, namely SiH(OCH(3))(2)OH(2) (+) and SiH(2)(OCH(3))OH(2) (+), contain the newly formed Si--O bond and provide direct evidence for the covalent modification reaction. Chemical sputtering of modified surfaces, performed using CF(3) (+), was evaluated over a range of collision energies. The results showed that the energy transferred to the sputtered ions, as measured by their extent of fragmentation in the scattered ion mass spectra, was essentially independent of the collision energy of the projectile, thus pointing to the occurrence of reactive sputtering.A set of silyl cations, including SiBr(3) (+), Si(C(2)H(3))(3) (+) and Si(CH(3))(2)F(+), were similarly used to modify the HO-SAM surface at low collision energies. A reaction mechanism consisting of direct electrophilic attack by the cationic projectiles is supported by evidence of increased reactivity for these reagent ions with increases in the calculated positive charge at the electron-deficient silicon atom of each of these cations. In a sequential set of reactions, 12 eV deuterated trimethylsilyl cations, Si(CD(3))(3) (+), were used first as the reagent ions to modify covalently a HO-SAM surface. Subsequently, 70 eV SiCl(3) (+) ions were used to modify the surface further. In addition to yielding sputtered ions of the modified surface, SiCl(3) (+) reacted with both modified and unmodified groups on the surface, giving rise not only to such scattered product ions as SiCl(2)OH(+) and SiCl(2)H(+), but also to SiCl(2)CD(3) (+) and SiCl(2)D(+). This result demonstrates that selective, multi-step reactions can be performed at a surface through low-energy ionic collisions. Such processes are potentially useful for the construction of novel surfaces from a monolayer substrate and for chemical patterning of surfaces with functional groups.     

Absolute photoionization cross section of the ethyl radical in the range 8-11.5 eV: synchrotron and vacuum ultraviolet laser measurements

The absolute photoionization cross section of C(2)H(5) has been measured at 10.54 eV using vacuum ultraviolet (VUV) laser photoionization. The C(2)H(5) radical was produced in situ using the rapid C(2)H(6) + F → C(2)H(5) + HF reaction. Its absolute photoionization cross section has been determined in two different ways: first using the C(2)H(5) + NO(2) → C(2)H(5)O + NO reaction in a fast flow reactor, and the known absolute photoionization cross section of NO. In a second experiment, it has been measured relative to the known absolute photoionization cross section of CH(3) as a reference by using the CH(4) + F → CH(3) + HF and C(2)H(6) + F → C(2)H(5) + HF reactions successively. Both methods gave similar results, the second one being more precise and yielding the value: σ(C(2)H(5))(ion) = (5.6 ± 1.4) Mb at 10.54 eV. This value is used to calibrate on an absolute scale the photoionization curve of C(2)H(5) produced in a pyrolytic source from the C(2)H(5)NO(2) precursor, and ionized by the VUV beam of the DESIRS beamline at SOLEIL synchrotron facility. In this latter experiment, a recently developed ion imaging technique is used to discriminate the direct photoionization process from dissociative ionization contributions to the C(2)H(5)(+) signal. The imaging technique applied on the photoelectron signal also allows a slow photoelectron spectrum with a 40 meV resolution to be extracted, indicating that photoionization around the adiabatic ionization threshold involves a complex vibrational overlap between the neutral and cationic ground states, as was previously observed in the literature. Comparison with earlier photoionization studies, in particular with the photoionization yield recorded by Ruscic et al. is also discussed.     

Microwave synthesis and fluorous purification of 4-(tetrathienyl)butyric acid for self-assembled monolayer semiconductor applications

Microwave-promoted synthesis and fluorous purification procedures have been employed successfully to generate 4-(tetrathienyl)butyric acid rapidly. Initially, a fluorous tag 1H,1H-perfluorooctylamine was tethered to 4-(thienyl)butyric acid via an amide traceless linkage. Subsequent, sequential α-bromination and Stille cross-coupling reactions with 2-(tributylstannyl)thiophene grew the fluorous-tagged 4-(oligothienyl)butyric acid efficiently. Each synthetic transformation was followed by a fluorous-solid phase extraction procedure to isolate the fluorous-tagged compound intermediate in excellent yield. Finally, the fluorous tag was cleaved by microwave-promoted saponification of the amide bond to liberate the desired 4-(tetrathienyl)butyric acid.