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X-Ray Microscopy: Chemical Imaging Analysis
X-Ray Microscopy: Chemical Imaging Analysis
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2.4.3 Micro-XAFS
As brighter synchrotron sources have become available it has become possible to
obtain smaller focal spot sizes and to design instruments capable of increasingly
higher spatial resolution. In fact, the field of X-ray microscopy has progressed
very rapidly in recent years; lateral resolutions of the order of 10 nm have been
obtained with photoelectron imaging techniques, e.g., the photo emission electron
microscope or PEEM (see Locatelli et al. [100] for an example of a spectromicroscopy
beamline using photoelectron imaging, and Ratto et al. [100] for an example of
application to Ge dots on Si).
There is a great interest in performing XAFS with high lateral resolution (micro-XAFS)
as it allows a new level of description of heterogeneous samples, combining mi-
croscopy with the atomic-scale structural information obtainable from XAFS; with
sufficiently small focal spots the local atomic environment of single nanostructures
might be determined. The challenge is to record XAFS spectra free of systematic
errors and with sufficiently good signal-to-noise ratio. At present, XAFS spectra can
be recorded with spot sizes of the order of a few square micrometers, for example,
on the ID22 beamline [101] of the ESRF or on the LUCIA beamline [102] of the SLS;
micro-XAFS is often complemented with microfluorescence mapping. Applications
of micro-XAFS to semiconductors have been relatively limited so far, but it is expect-
ed much progress will be made in this field. Micro-XAFS is particularly useful when
the samples investigated exhibit lateral inhomogeneities and it is not surprising
that many applications in the field of semiconductors have been on samples the
growth of which has yet to be optimized, for example DMSs based on GaN, as
will be discussed in Section 3. In several synchrotron radiation laboratories, efforts
are on the way to combine the information which can be derived from XAFS with
the nanometer-level lateral resolution which can be obtained by using atomic force
microscope tips [103]. While photon-based techniques might maybe never reach the
sub-angstrom spatial resolution obtainable in electron microscopy, the advances in
recent years have been really dramatic as they involve many orders of magnitude
improvement in spatial resolution. In the future, micro-XAFS will certainly become
a powerful tool in materials science, complementing spatially averaged techniques
which have been the key to the success and widespread use of X-rays for structural
determination.
RO Membrane Characterization
Ahmad Fauzi Ismail, ... Takeshi Matsuura, in Reverse Osmosis, 2019
Figure 8.8. Cross-section of the hexagonal arrangement of myosin (large circles) and
actin (small filled circles) in the muscle cell.
“Free” myosin molecules associate spontaneously into bundles like those in the
muscle cell. The molecule is one of the longest known in nature (155 nm) with
twin-heads extending from the bundle in a helical fashion and the tail consisting
of a coiled coil double helix (pitch 7.5 nm). The distal part of this tail (110 nm) forms
the bundle and the heads are pointed outwards by a “hinge” (45 nm). The period
between the heads along the axis of a bundle is 14.3 nm.
It should be remarked, however, that calcium plays a crucial role in the actin-myosin
association/dissociation process. Calcium has a binding site on troponin, located on
the surface of the actin thread, and binding of calcium triggers the contraction cycle.
(Without calcium there is no association whatsoever.)
The most intriguing problem in this process is the mechanism behind the produc-
tion of force and motion from ATP-hydrolysis. It is of interest here to cite Pollard [21]:
“Those who believe the lovely textbook drawings that depict tilting crossbridges pulling
actin filaments past myosin thick filaments may even think that the problem has been
solved. Much has been learned, but the secrets of cross-bridge motion have resolutely
evaded the efforts of a generation of biophysicists and biochemists”.
Various theories have been introduced to explain the relative movement. Huxley
proposed that the myosin head changed its orientation after binding to actin (the
“rotating-head” model). According to the helix-coil transition, the normally -helical
coiled-coil structure “melts” to a random coil conformation, which implies a reduc-
tion in length. Movements of the myosin tails, as well as conformation changes of
the actin have also been considered. It now seems clear, however, that the force
production takes place in or very near the myosin heads [22]. Furthermore, among
the three different states of myosin - empty actin site, ATP bound to the actin site
and ADP-Pi bound to the actin site - all of which can either be free or bound to actin,
there is evidence that the motion is produced by dissociation by the products of ATP
hydrolysis.
The interpenetrating structure (Fig. 8.9) wherein the mobility originates can be
described by the Q* surface (discussed above). The long-range periodicity, which
is a consequence of such a structural description, is relevant to understand the
cooperativity and the requirement of synchronisation of the movement of the in-
dividual myosin/actin. The phase/curvature approach to the structure of the muscle
cell outlined here not only has a didactic value, but adds a new dimension to the
discussion of function mechanisms.
Figure 8.9(a). The rectangular nets forming the Q* surface. Two such nets seen along
the c-axis are shown above (distance c/6) (broken and full lines). (b) The hexagonal
network, characteristic of the desmin network.
The muscle cell contains predominantly water, and the organisation of the self-as-
sembled actin and myosin threads, which is based on hydrophobic interaction,
must follow the general principles outlined in Chapter 4. In contrast to the simple
liquid-crystalline systems considered there, we do not know the curvature of the
interface. A description based on surfaces with constant average curvature nonethe-
less appears the most reasonable line of attack, due to the analogy with other
self-assembled systems.
The myosin heads are helically distributed and the actin molecules form helical
double strands. There are also additional helical elements attached to the actin
threads, but they can be ignored in this context. The cross-sectional arrangement
of actin and myosin shown in Fig. 8.8 is consistent with the Q* surface. The myosin
molecules are centred on the 62 axes and actin on 31 axes, which occur in the
proportion 2:1. The Q* surface partitioning of space into helical channel systems cor-
responds to the position of the myosin threads. There is thus no connection between
adjacent channel systems, i.e. between neighbouring myosin threads. To understand
the connections between these channels, we can consider the rectangular nets,
which span this surface, shown in Fig. 8.9. The channels exhibit four-coordination;
alternatively we can regard the units as four-armed.
Two of these directions correspond to up and down along the myosin thread, and
the connections in the two lateral directions are also directed upwards and down-
wards. It is natural then to relate these four-coordinated channel regions of the Q*
surface to the myosin heads. Thus the possible connections via the 31-centred actin
threads of myosin threads have only two directions, which fulfil the crystallographic
symmetry of the surface. It is proposed here that these two directions correspond
to the initial direction of the myosin head before movement and the end direction
after movement, respectively. In this model of the contraction, the time-phase of
mobility represents a transient disorder condition of adjacent structure elements,
whereas the structure as a whole fulfils the required crystallographic symmetry. If
the individual molecular conformational changes must be accommodated within
the periodicity of the surface, the necessary perfect long-range synchronisation of
mobility over the entire muscle seems a natural consequence.
There is a further interesting structural feature of the muscle periodicity. The actin
threads in the opposite two directions of the perpendicular cross-section are linked
by the so-called “desmin” network, containing a rectangular cross-section. The
change from a rectangular to a hexagonal arrangement can take place continuously
between two surfaces produced by the same network, shown in Fig. 8.9(b). If the
adjacent networks are not twisted we obtain the rectangular surface, which can go
over to the Q* surface on twisting.
The characterization of microfocus X-ray tubes mainly is based on spot size mea-
surement. Even though significant progress has been made in decreasing spot
sizes below 1 μm, there are still no standardized methods for determination of focal
spot sizes smaller than 5 μm. The currently applied measurement procedures in
the submicron regime are based on test patterns, eg, JIMA “RT-RC 02” (cf. Fig. 3.2)
or the Siemens star-pattern used by companies like Carl Zeiss (formerly XRadia),
providing finest periodic structures of discrete or continuously decreasing size.
Some representative experimental results on this topic will be discussed in more
detail in Section 3.7 of this chapter.
Figure 3.2. Focal spot determination using a JIMA “RT-RC 02” resolution test pat-
tern. Highly magnified radiograph of pattern (left), enlarged view on the 1 μm
pattern (middle), extracted profile from the 1 μm structure (right).
Figure 3.4. Wood cell structure as an example of a CT with a liquid metal jet X-ray
source.
To further reduce the focal spot size toward the nanometer-focus range—compared
to state-of-the-art microfocus X-ray tubes, which are based on transmission target-
s—a new pin target concept is realized inside an electron microscope (cf. Figs. 3.5
and 3.6). Especially produced needles, made of molybdenum or tungsten (Stahlhut,
2012) with tips in the range of about 50 nm will be placed directly into the electron
beam and thus produce X-rays with a focal spot size, limited only by the diameter of
the metal tip.
Volume II
Anthony D. Rollett, Katayun Barmak, in Physical Metallurgy (Fifth Edition), 2014
2.4.3 Micro-XAFS
One of the consequences of the orders-of-magnitude increase in the brightness of
synchrotron sources has been the possibility of obtaining smaller focal spot sizes
and to design instruments capable of increasingly higher spatial resolution. In fact,
the field of X-ray microscopy has progressed very rapidly in recent years; lateral
resolutions of the order of 10 nm can be obtained nowadays.
There is a great interest in performing XAFS with high lateral resolution (micro-XAFS)
since it allows a new level of description of heterogeneous samples, combining
microscopy with the atomic-scale structural information obtainable from XAFS; with
sufficiently small focal spots the local atomic environment of single nanostructures
might be determined. For details and up-to-date references the reader is referred to
chapter 9 by Martinez-Criado et al. [49]. Applications of micro-XAFS to semiconduc-
tors have been relatively limited so far, but it is expected they will be more numerous
in the future. Micro-XAFS is particularly useful when the samples investigated
exhibit lateral inhomogeneities and it is not surprising that many applications in
the field of semiconductors have been on samples the growth of which has yet to
be optimized, for example dilute magnetic semiconductors based on GaN, as will be
discussed in section 3. While photon-based techniques might maybe never reach the
sub-angstrom spatial resolution obtainable in electron microscopy, the advances in
recent years have been really dramatic since they involve many orders of magnitude
improvement in spatial resolution. In the future, micro-XAFS will certainly become
a powerful tool in materials science, complementing spatially averaged techniques
which have been the key to the success and widespread use of X-rays for structural
studies.
Recently, the limitations of the Abbe criterion for resolution in the visible have been
seriously challenged, and, in fact, several super-resolution techniques have been
developed. The first of these techniques is Stimulated Emission Depletion (STED),
which operates in fluorescence.96,97 The light emanates from the primarily focused
beam. However, by adding a donut-shaped beam which depletes the excited state
due to stimulated emission, the fluorescence can be limited to the center of the
donut, taking advantage of the non-linearity in the saturation process. In this way
a spatial resolution down to about 20 nm has been achieved. Figure 14.8 illustrates
the principles of STED. Similar non-linearities can be used in the frequency domain
to achieve a spectral resolution below the natural radiation width limit.99,100
14.8. (a–d) Principles of STED, resolution improvement, and illustration of images.