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Tin Catalyst preparation for Silicon Nanowire synthesisModiba, Fortunate Mofao January 2018 (has links)
>Magister Scientiae - MSc / Solar cells offer SA an additional energy source. While Si cells are abundantly
available they are not at an optimal efficiency and the cost is still high. One
technology that can enhance their performance is SiNW. However, material
properties such as the diameter, porosity and length determine their effectiveness
during application to solar cell technology. One method of growing SiNW uses Sn
catalysts on a Si substrate. As the properties of the Sn nanoparticle govern the
properties of the SiNW, this thesis investigates their formation and properties by
depositing a Sn layer on a Si wafer and then subjecting it to different temperatures,
during process the layer forms into nanoparticles. At each temperature the
morphology, composition and crystallinity will be determined using XPS, SEM, TEM
and EDS. Thus, in Chapter 1 there is an overview, Chapter 2 deals with techniques
used in this study, Chapter 3 will give the quantitative and qualitative results on the
XPS analysis and Chapter 4 will illustrate the structural behaviour of the annealed Sn
film samples.
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Photoelectron Spectroscopy on HCl and DCl : Synchrotron Radiation Based Studies of Dissociation DynamicsBurmeister, Florian January 2003 (has links)
<p>Dissociation dynamics of the ionized molecules HCl and the deuterated system DCl has been studied in gas-phase using synchrotron based photoelectron spectroscopy (PES).</p><p>The inner-valence "(4σ)<sup>-1</sup>" photoionization band for DCl and HCl was recorded using maximum resolution in order to probe an interference pattern between a dissociative and a bound electronic state. For HCl<sup>+</sup>, we clearly observed distorted Fano-type peaks even for modest resolution, whereas for DCl<sup>+</sup>, the pattern was hardly discernible. The observation in HCl<sup>+</sup> has been explained by a coupling between two adiabatic electronic states, where the bound state was populated through non-adiabatic curve-crossing. The nuclear motion of HCl<sup>+</sup> is too fast for the Born-Oppenheimer approximation to be fully valid in this case. Whereas for DCl<sup>+</sup>, with larger reduced mass and therefore slower nuclear motion, the non-adiabatic coupling is less pronounced, and the vibrational progression vanishes.</p><p>A comparative study between PES and threshold photoelectron spectra (TPES) of the inner-valence bands of HCl and DCl has been performed, showing differences in intensities and shapes of the vibrational bands. These differences were attributed to the fact that the sudden approximation, which can be assumed to be valid for PES, is violated in the case of TPES.</p><p>A resonant Auger electron spectroscopy study of HCl and DCl has been performed, which shows an interference pattern between atomic and molecular Auger- and photoelectron channels. The atomic features are associated with ultra-fast dissociation of the molecules, on the same time scale as the Auger decay. The observation shows that the excited molecular system has to be regarded as a superposition of fragmented and molecular states.</p><p>A study of the <i>X</i>-state of HCl<sup>+</sup>, populated via a core-excited state, shows a selective population of the final state. The explanation was shown to be that the magnetic orientation of the core-hole is transferred to the final state of the molecule.</p><p>A setup for data acquisition of Photo-Electron Photo-Ion Photo-Ion COincidence (PEPIPICO) measurements using a Time-Of-Flight (TOF) spectrometer has been developed. A Time-to-Digital Converter (TDC) card has been linked together with the data treatment program Igor as a user interface. Furthermore, the PEPIPICO spectrometer has been characterized to provide a solid basis for the analysis of experimental data.</p>
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Free Metal Clusters Studied by Photoelectron SpectroscopyAndersson, Tomas January 2012 (has links)
Clusters are aggregates of a finite number of atoms or molecules. In the present work, free clusters out of metallic parent materials have been created and studied by synchrotron radiation-based photoelectron spectroscopy. The clusters have been formed and studied in a beam and the electronic structure of the clusters has been investigated. Conclusions have been drawn about the spatial distribution of atoms of different elements in bi-component clusters, about the development of metallicity in small clusters, and about the excitation of plasmons. Bi-component alloy clusters of sodium and potassium and of copper and silver have been produced. The site-sensitivity of the photoelectron spectroscopy technique has allowed us to probe the geometric distribution of the atoms of the constituent elements by comparing the responses from the bulk and surface of the clusters. In both cases, we have found evidence for a surface-segregated structure, with the element with the largest atoms and lowest cohesive energy (potassium and silver, correspondingly) dominating the surface and with a mixed bulk. Small clusters of tin and lead have been probed to investigate the development of metallicity. The difference in screening efficiency between metals and non-metals has been utilized to determine in what size range an aggregate of atoms of these metallic parent materials stops to be metallic. For tin this has been found to occur below ~40 atoms while for lead it happened somewhere below 20-30 atoms. The excitation of bulk and surface plasmons has been studied in clusters of sodium, potassium, magnesium and aluminium, with radii in the nanometer range. The excitation energies have been found to be close to those of the corresponding macroscopic solids. We have also observed spectral features corresponding to multi-quantum plasmon excitation in clusters of Na and K. Such features have in macroscopic solids been interpreted as due to harmonic plasmon excitation. Our observations of features corresponding to the excitation of one bulk and one surface plasmon however suggest the presence of sequential excitation in clusters.
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Gas phase molecular relaxation probed by synchrotron radiation experimentsRius i Riu, Jaume January 2002 (has links)
This thesis presents experimental studies of gas phasemolecular relaxation after excitation with synchrotron photonsin the 15-35 eV and in the 70-350 eV regions. In the 15-35 eV region, molecular relaxation by neutraldissociation processes and non Franck-Condon effects in N2 and O2 molecules have beenstudied by means of dispersed fluorescence and photoelectronspectroscopy experimental techniques, respectively. From thedispersed fluorescence data, excitation functions for themeasured atomic fluorescence spectra have been obtained. Fromthe recorded photoelectron spectra vibrational branching ratioshave been produced. The results obtained reveal that Rydbergseries and singly and doubly excited valence states of theappropriate symmetry energetically accessible in the studiedregion and interactions between themaccount for most of theobserved effects in these two type of experiments. In the 70-350 eV range, molecular relaxation processesresulting in fragmentation of CD4 and SF6 after absorption ofsynchrotron light have been studied by energy resolved electronion coincidence technique using a multicoincidence experimentalstation developed by our group during the last five years forsuch type of experiments. The coincidence measurements yieldedmass spectra from which information about the kinematics of thedetected fragments has been deduced by means of Monte Carlosimulations of the experimental peak shapes. The obtainedresults show completely different dissociation patternsdepending on the molecular electronic states studied. Thesepatterns reflect the bonding properties of the excited orbitalsand they permit the description and in some cases theidentification of the different molecular relaxation pathwaysobserved. The achievements presented in this thesis exemplifythe potential of the multicoincidence station used in thereported experiments.
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Photoelectron Spectroscopy on HCl and DCl : Synchrotron Radiation Based Studies of Dissociation DynamicsBurmeister, Florian January 2003 (has links)
Dissociation dynamics of the ionized molecules HCl and the deuterated system DCl has been studied in gas-phase using synchrotron based photoelectron spectroscopy (PES). The inner-valence "(4σ)-1" photoionization band for DCl and HCl was recorded using maximum resolution in order to probe an interference pattern between a dissociative and a bound electronic state. For HCl+, we clearly observed distorted Fano-type peaks even for modest resolution, whereas for DCl+, the pattern was hardly discernible. The observation in HCl+ has been explained by a coupling between two adiabatic electronic states, where the bound state was populated through non-adiabatic curve-crossing. The nuclear motion of HCl+ is too fast for the Born-Oppenheimer approximation to be fully valid in this case. Whereas for DCl+, with larger reduced mass and therefore slower nuclear motion, the non-adiabatic coupling is less pronounced, and the vibrational progression vanishes. A comparative study between PES and threshold photoelectron spectra (TPES) of the inner-valence bands of HCl and DCl has been performed, showing differences in intensities and shapes of the vibrational bands. These differences were attributed to the fact that the sudden approximation, which can be assumed to be valid for PES, is violated in the case of TPES. A resonant Auger electron spectroscopy study of HCl and DCl has been performed, which shows an interference pattern between atomic and molecular Auger- and photoelectron channels. The atomic features are associated with ultra-fast dissociation of the molecules, on the same time scale as the Auger decay. The observation shows that the excited molecular system has to be regarded as a superposition of fragmented and molecular states. A study of the X-state of HCl+, populated via a core-excited state, shows a selective population of the final state. The explanation was shown to be that the magnetic orientation of the core-hole is transferred to the final state of the molecule. A setup for data acquisition of Photo-Electron Photo-Ion Photo-Ion COincidence (PEPIPICO) measurements using a Time-Of-Flight (TOF) spectrometer has been developed. A Time-to-Digital Converter (TDC) card has been linked together with the data treatment program Igor as a user interface. Furthermore, the PEPIPICO spectrometer has been characterized to provide a solid basis for the analysis of experimental data.
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Generation, Characterization and Application of the 3rd and 4th Harmonics of a Ti:sapphire Femtosecond LaserWright, Peter 25 January 2012 (has links)
Femtosecond time-resolved photoelectron spectroscopy (fsTRPES) experiments have been used to study the photoelectron energy spectra of simple molecules since the 1980’s. Analysis of these spectra provides information about the ultrafast internal conversion dynamics of the parent ions. However, ultraviolet pulses must be used for these pump-probe experiments in order to ionize the molecules. Since current solid state lasers, such as the Ti:sapphire laser, typically produce pulses centered at 800nm, it is necessary to generate UV pulses with nonlinear frequency mixing techniques. I therefore constructed an optical setup to generate the 3rd and 4th harmonics, at 266.7nm and 200nm, respectively, of a Ti:sapphire (Ti:sa) chirped-pulse amplified (CPA) laser system that produces 35fs pulses centered at 800nm. Thin Beta-Barium Borate (β-BaB2O4 or BBO) crystals were chosen to achieve a compromise between short pulse durations and reasonable conversion efficiencies, since ultrashort pulses are quite susceptible to broadening from group velocity dispersion (GVD).
Output energies of around 11μJ and 230nJ were measured for the 266.7nm and 200nm pulses, respectively. The transform limits of the 3rd and 4th harmonic pulse lengths were calculated from their measured spectral widths. We found that the 266.7nm bandwidth was large enough to support sub-30fs pulses, and due to cutting at the lower-wavelength end of the 200nm spectrum, we calculated an upper limit of 38fs. The pulses were compressed with pairs of CaF2 prisms to compensate for dispersion introduced by transmissive optics. Two-photon absorption (TPA) intensity autocorrelations revealed fully compressed pulse lengths of 36 ± 2 fs and 42 ± 4 fs for the 3rd and 4th harmonics, respectively.
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Localization of metal ions in DNADinsmore, Michael John 28 April 2008
<p class=MsoNormal style='text-align:justify;text-indent:.5in;line-height:150%'><span
style='mso-bidi-font-weight:bold'>M-DNA is a novel complex formed between DNA
and transition metal ions under alkaline conditions.<span
style='mso-spacerun:yes'> </span>The unique properties of M-DNA were
manipulated in order to rationally place metal ions at specific regions within
a double-stranded DNA helix.<span style='mso-spacerun:yes'>
</span>Investigations using thermal denaturation profiles and the ethidium
fluorescence assay illustrate that the pH at which M-DNA formation occurs is
influenced heavily by the DNA sequence and base composition.<span
style='mso-spacerun:yes'> </span>For instance, DNA with a sequence consisting
of poly[d(TG)d(CA)] is completely converted to M-DNA at pH 7.9 while DNA consisting
entirely of poly[d(AT)] remains in the B-DNA conformation until a pH of 8.6 is
reached.<span style='mso-spacerun:yes'> </span>The pH at which M-DNA formation
occurs is further decreased by the incorporation of 4-thiothymine (s<sup>4</sup>T).<span
style='mso-spacerun:yes'> </span>DNA oligomers with a mixed sequence composed
of </span>half d(AT) and the other half d(TG)d(CA)<span style='mso-bidi-font-weight:
bold'> showed that only 50% of the DNA is able to incorporate Zn<sup>2+</sup>
ions at pH 7.9.<span style='mso-spacerun:yes'> </span>This suggests that only
regions corresponding to the tracts of <span class=GramE>d(</span>TG)d(CA) are
being transformed.<span style='mso-spacerun:yes'> </span><o:p></o:p></span></p>
<p class=MsoNormal style='text-align:justify;text-indent:.5in;line-height:150%'><span
style='mso-fareast-language:ZH-CN'>Duplex DNA monolayers were self-assembled on
gold through <span class=GramE>a</span> Au-S linkage and both B- and M-DNA
conformations were studied using X-ray photoelectron spectroscopy (XPS) in
order to better elucidate the location of the metal ions.<span
style='mso-spacerun:yes'> </span>The film thickness, density, elemental
composition and ratios for samples were analyzed and compared.<span
style='mso-spacerun:yes'> </span>The DNA surface coverage, calculated from
both XPS and electrochemical measurements, was <span class=GramE>approximately
1.2 x 10<sup>13 </sup>molecules/cm<sup>2</sup></span><sub> </sub>for
B-DNA.<span style='mso-spacerun:yes'> </span>All samples showed distinct peaks
for C 1s, O 1s, N 1s, P 2p and S 2p as expected for a thiol-linked DNA.<span
style='mso-spacerun:yes'> </span></span><span style='mso-bidi-font-weight:
bold'>On addition of Zn<sup>2+</sup> to form M-DNA the C 1s, P 2p and S 2p
showed only small changes </span><span style='mso-fareast-language:ZH-CN'>while
both the N 1s and O 1s spectra changed considerably.<span
style='mso-spacerun:yes'> </span>This result is consistent with Zn<sup>2+</sup>
interacting with oxygen on the phosphate backbone as well as replacing the
imino protons of thymine (T) and guanine (G) in M-DNA.<span
style='mso-spacerun:yes'> </span>Analysis of the Zn 2p spectra also
demonstrated that the concentration of Zn<sup>2+</sup> present under M-DNA
conditions is consistent with Zn<sup>2+</sup> binding to both the phosphate
backbone as well as replacing the imino protons of T or G in each base
pair.<span style='mso-spacerun:yes'> </span>After the M-DNA monolayer is
washed with a buffer containing only Na<sup>+</sup> the Zn<sup>2+</sup> bound
to the phosphate backbone is removed while the Zn<sup>2+</sup> bound internally
still remains. </span><span style='mso-bidi-font-weight:bold'>Variable angle x-ray
photoelectron spectroscopy (VAXPS) was also used to examine monolayers
consisting of mixed sequence oligomers.<span style='mso-spacerun:yes'>
</span>Preliminary results suggest that under M-DNA conditions, the zinc to
phosphate ratio changes relative to the position of the <span class=GramE>d(</span>TG)d(CA)
tract being at the top or bottom of the monolayer.<span
style='mso-spacerun:yes'> </span><span style='mso-spacerun:yes'> </span><o:p></o:p></span></p>
<p class=MsoNormal style='text-align:justify;text-indent:.5in;line-height:150%'><span
style='mso-bidi-font-weight:bold'>Electrochemistry was also used to investigate
the properties of M-DNA monolayers on gold and examine how the localization of
metal ions affects the resistance through the DNA monolayer.<span
style='mso-spacerun:yes'> </span>T</span>he effectiveness of using the IrCl<sub>6</sub><sup>2-/3-
</sup>redox couple to investigate DNA monolayers and the potential advantages
of this system over the standard Fe(CN)<sub>6</sub><sup>3-/4-</sup> redox
couple are demonstrated.<span style='mso-spacerun:yes'> </span>B-DNA
monolayers were converted to M-DNA by incubation in buffer containing 0.4 mM Zn<sup>2+</sup>
at pH 8.6 and studied by cyclic voltammetry (CV), electrochemical impedance
spectroscopy (EIS) and chronoamperometry (CA) with IrCl<sub>6</sub><sup>2-/3-</sup>.<span
style='mso-spacerun:yes'> </span><sup><span style='mso-spacerun:yes'> </span></sup>Compared
to B-DNA, M-DNA showed significant changes in CV, EIS and CA spectra.<span
style='mso-spacerun:yes'> </span>However, only small changes were observed
when the monolayers were incubated in Mg<sup>2+ </sup>at pH 8.6 or in Zn<sup>2+</sup>
at pH 6.0.<span style='mso-spacerun:yes'> </span>The heterogeneous
electron-transfer rate (<i style='mso-bidi-font-style:normal'>k</i><sub>ET</sub>)
between the redox probe and the surface of a bare gold electrode was determined
to be 5.7 x 10<sup>-3</sup> cm/s.<span style='mso-spacerun:yes'> </span>For a
B-DNA modified electrode, the <i style='mso-bidi-font-style:normal'>k</i><sub>ET</sub>
through the monolayer was too slow to be measured.<span
style='mso-spacerun:yes'> </span>However, under M-DNA conditions, a <i
style='mso-bidi-font-style:normal'>k</i><sub>ET</sub> of 1.5 x 10<sup>-3</sup>
cm/s was reached.<span style='mso-spacerun:yes'> </span>As well, the percent
change in resistance to charge transfer (R<sub>CT</sub>), measured by EIS, <span
class=GramE>was</span> used to illustrate the dependence of M-DNA formation on
pH.<span style='mso-spacerun:yes'> </span>This result is consistent with Zn<sup>2+</sup>
ions replacing the imino protons on thymine and guanine residues.<span
style='mso-spacerun:yes'> </span>Also, at low pH values, the percent change in
R<sub>CT</sub> seems to be greater for <span class=GramE><span
style='mso-bidi-font-weight:bold'>d(</span></span><span style='mso-bidi-font-weight:
bold'>TG)<sub>15</sub>d(CA)<sub>15</sub> compared to oligomers with mixed
d(AT) and d(TG)d(CA) tracts.<span style='mso-spacerun:yes'> </span></span>The
IrCl<sub>6</sub><sup>2-/3- </sup>redox couple was also effective in
differentiating between single-stranded and double-stranded DNA during
dehybridization and rehybridization experiments.<span
style='mso-spacerun:yes'> </span><span style='mso-bidi-font-weight:bold'><o:p></o:p></span></p>
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Generation, Characterization and Application of the 3rd and 4th Harmonics of a Ti:sapphire Femtosecond LaserWright, Peter 25 January 2012 (has links)
Femtosecond time-resolved photoelectron spectroscopy (fsTRPES) experiments have been used to study the photoelectron energy spectra of simple molecules since the 1980’s. Analysis of these spectra provides information about the ultrafast internal conversion dynamics of the parent ions. However, ultraviolet pulses must be used for these pump-probe experiments in order to ionize the molecules. Since current solid state lasers, such as the Ti:sapphire laser, typically produce pulses centered at 800nm, it is necessary to generate UV pulses with nonlinear frequency mixing techniques. I therefore constructed an optical setup to generate the 3rd and 4th harmonics, at 266.7nm and 200nm, respectively, of a Ti:sapphire (Ti:sa) chirped-pulse amplified (CPA) laser system that produces 35fs pulses centered at 800nm. Thin Beta-Barium Borate (β-BaB2O4 or BBO) crystals were chosen to achieve a compromise between short pulse durations and reasonable conversion efficiencies, since ultrashort pulses are quite susceptible to broadening from group velocity dispersion (GVD).
Output energies of around 11μJ and 230nJ were measured for the 266.7nm and 200nm pulses, respectively. The transform limits of the 3rd and 4th harmonic pulse lengths were calculated from their measured spectral widths. We found that the 266.7nm bandwidth was large enough to support sub-30fs pulses, and due to cutting at the lower-wavelength end of the 200nm spectrum, we calculated an upper limit of 38fs. The pulses were compressed with pairs of CaF2 prisms to compensate for dispersion introduced by transmissive optics. Two-photon absorption (TPA) intensity autocorrelations revealed fully compressed pulse lengths of 36 ± 2 fs and 42 ± 4 fs for the 3rd and 4th harmonics, respectively.
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Geometry and Electronic Structure of Doped Clusters via the Coalescence Kick MethodAverkiev, Boris 01 May 2009 (has links)
Developing chemical bonding models in clusters is one of the most challenging tasks of modern theoretical chemistry. There are two reasons for this. The first one is that clusters are relatively new objects in chemistry and have been extensively studied since the middle of the 20th century. The second reason is that clusters require high-level quantum-chemical calculations; while for many classical molecules their geometry and properties can be reasonably predicted by simpler methods.
The aim of this dissertation was to study doped clusters and explain their chemical bonding. The research was focused on three classes of compounds: aluminum clusters doped with one nitrogen atom, planar compounds with hypercoordinate central atom, partially mixed carbon-boron clusters, and transition metal clusters. The geometry of the two latter classes of compounds was explained using the concept of aromaticity, previously developed in our group.
Also the Coalescence Kick Method for finding global minima structure and low-lying isomers was implemented, tested, and applied to the considered cluster systems. Tests showed that the Kick Method works faster than other methods and provides reliable results. It finds global minima even for such large clusters as B17- and B19- in reasonable time.
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Localization of metal ions in DNADinsmore, Michael John 28 April 2008 (has links)
<p class=MsoNormal style='text-align:justify;text-indent:.5in;line-height:150%'><span
style='mso-bidi-font-weight:bold'>M-DNA is a novel complex formed between DNA
and transition metal ions under alkaline conditions.<span
style='mso-spacerun:yes'> </span>The unique properties of M-DNA were
manipulated in order to rationally place metal ions at specific regions within
a double-stranded DNA helix.<span style='mso-spacerun:yes'>
</span>Investigations using thermal denaturation profiles and the ethidium
fluorescence assay illustrate that the pH at which M-DNA formation occurs is
influenced heavily by the DNA sequence and base composition.<span
style='mso-spacerun:yes'> </span>For instance, DNA with a sequence consisting
of poly[d(TG)d(CA)] is completely converted to M-DNA at pH 7.9 while DNA consisting
entirely of poly[d(AT)] remains in the B-DNA conformation until a pH of 8.6 is
reached.<span style='mso-spacerun:yes'> </span>The pH at which M-DNA formation
occurs is further decreased by the incorporation of 4-thiothymine (s<sup>4</sup>T).<span
style='mso-spacerun:yes'> </span>DNA oligomers with a mixed sequence composed
of </span>half d(AT) and the other half d(TG)d(CA)<span style='mso-bidi-font-weight:
bold'> showed that only 50% of the DNA is able to incorporate Zn<sup>2+</sup>
ions at pH 7.9.<span style='mso-spacerun:yes'> </span>This suggests that only
regions corresponding to the tracts of <span class=GramE>d(</span>TG)d(CA) are
being transformed.<span style='mso-spacerun:yes'> </span><o:p></o:p></span></p>
<p class=MsoNormal style='text-align:justify;text-indent:.5in;line-height:150%'><span
style='mso-fareast-language:ZH-CN'>Duplex DNA monolayers were self-assembled on
gold through <span class=GramE>a</span> Au-S linkage and both B- and M-DNA
conformations were studied using X-ray photoelectron spectroscopy (XPS) in
order to better elucidate the location of the metal ions.<span
style='mso-spacerun:yes'> </span>The film thickness, density, elemental
composition and ratios for samples were analyzed and compared.<span
style='mso-spacerun:yes'> </span>The DNA surface coverage, calculated from
both XPS and electrochemical measurements, was <span class=GramE>approximately
1.2 x 10<sup>13 </sup>molecules/cm<sup>2</sup></span><sub> </sub>for
B-DNA.<span style='mso-spacerun:yes'> </span>All samples showed distinct peaks
for C 1s, O 1s, N 1s, P 2p and S 2p as expected for a thiol-linked DNA.<span
style='mso-spacerun:yes'> </span></span><span style='mso-bidi-font-weight:
bold'>On addition of Zn<sup>2+</sup> to form M-DNA the C 1s, P 2p and S 2p
showed only small changes </span><span style='mso-fareast-language:ZH-CN'>while
both the N 1s and O 1s spectra changed considerably.<span
style='mso-spacerun:yes'> </span>This result is consistent with Zn<sup>2+</sup>
interacting with oxygen on the phosphate backbone as well as replacing the
imino protons of thymine (T) and guanine (G) in M-DNA.<span
style='mso-spacerun:yes'> </span>Analysis of the Zn 2p spectra also
demonstrated that the concentration of Zn<sup>2+</sup> present under M-DNA
conditions is consistent with Zn<sup>2+</sup> binding to both the phosphate
backbone as well as replacing the imino protons of T or G in each base
pair.<span style='mso-spacerun:yes'> </span>After the M-DNA monolayer is
washed with a buffer containing only Na<sup>+</sup> the Zn<sup>2+</sup> bound
to the phosphate backbone is removed while the Zn<sup>2+</sup> bound internally
still remains. </span><span style='mso-bidi-font-weight:bold'>Variable angle x-ray
photoelectron spectroscopy (VAXPS) was also used to examine monolayers
consisting of mixed sequence oligomers.<span style='mso-spacerun:yes'>
</span>Preliminary results suggest that under M-DNA conditions, the zinc to
phosphate ratio changes relative to the position of the <span class=GramE>d(</span>TG)d(CA)
tract being at the top or bottom of the monolayer.<span
style='mso-spacerun:yes'> </span><span style='mso-spacerun:yes'> </span><o:p></o:p></span></p>
<p class=MsoNormal style='text-align:justify;text-indent:.5in;line-height:150%'><span
style='mso-bidi-font-weight:bold'>Electrochemistry was also used to investigate
the properties of M-DNA monolayers on gold and examine how the localization of
metal ions affects the resistance through the DNA monolayer.<span
style='mso-spacerun:yes'> </span>T</span>he effectiveness of using the IrCl<sub>6</sub><sup>2-/3-
</sup>redox couple to investigate DNA monolayers and the potential advantages
of this system over the standard Fe(CN)<sub>6</sub><sup>3-/4-</sup> redox
couple are demonstrated.<span style='mso-spacerun:yes'> </span>B-DNA
monolayers were converted to M-DNA by incubation in buffer containing 0.4 mM Zn<sup>2+</sup>
at pH 8.6 and studied by cyclic voltammetry (CV), electrochemical impedance
spectroscopy (EIS) and chronoamperometry (CA) with IrCl<sub>6</sub><sup>2-/3-</sup>.<span
style='mso-spacerun:yes'> </span><sup><span style='mso-spacerun:yes'> </span></sup>Compared
to B-DNA, M-DNA showed significant changes in CV, EIS and CA spectra.<span
style='mso-spacerun:yes'> </span>However, only small changes were observed
when the monolayers were incubated in Mg<sup>2+ </sup>at pH 8.6 or in Zn<sup>2+</sup>
at pH 6.0.<span style='mso-spacerun:yes'> </span>The heterogeneous
electron-transfer rate (<i style='mso-bidi-font-style:normal'>k</i><sub>ET</sub>)
between the redox probe and the surface of a bare gold electrode was determined
to be 5.7 x 10<sup>-3</sup> cm/s.<span style='mso-spacerun:yes'> </span>For a
B-DNA modified electrode, the <i style='mso-bidi-font-style:normal'>k</i><sub>ET</sub>
through the monolayer was too slow to be measured.<span
style='mso-spacerun:yes'> </span>However, under M-DNA conditions, a <i
style='mso-bidi-font-style:normal'>k</i><sub>ET</sub> of 1.5 x 10<sup>-3</sup>
cm/s was reached.<span style='mso-spacerun:yes'> </span>As well, the percent
change in resistance to charge transfer (R<sub>CT</sub>), measured by EIS, <span
class=GramE>was</span> used to illustrate the dependence of M-DNA formation on
pH.<span style='mso-spacerun:yes'> </span>This result is consistent with Zn<sup>2+</sup>
ions replacing the imino protons on thymine and guanine residues.<span
style='mso-spacerun:yes'> </span>Also, at low pH values, the percent change in
R<sub>CT</sub> seems to be greater for <span class=GramE><span
style='mso-bidi-font-weight:bold'>d(</span></span><span style='mso-bidi-font-weight:
bold'>TG)<sub>15</sub>d(CA)<sub>15</sub> compared to oligomers with mixed
d(AT) and d(TG)d(CA) tracts.<span style='mso-spacerun:yes'> </span></span>The
IrCl<sub>6</sub><sup>2-/3- </sup>redox couple was also effective in
differentiating between single-stranded and double-stranded DNA during
dehybridization and rehybridization experiments.<span
style='mso-spacerun:yes'> </span><span style='mso-bidi-font-weight:bold'><o:p></o:p></span></p>
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