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Ring Leaders
September 2012 Print

David Shuh, Senior Scientist, Chemical Sciences Division


09-2012-ring leader shuhFor the past decade, David Shuh has led one of the most in-demand beamlines at the ALS. In addition to his position as a Senior Scientist in Berkeley Lab’s Chemical Sciences Division (CSD), Shuh is Project Leader at ALS Beamline 11.0.2 , the Molecular Environmental Sciences (MES) Beamline, a leading national resource in the field of soft x-ray synchrotron radiation research. Research at the MES Beamline has provided some of the first significant molecular-level understandings of important chemical and physical processes taking place at interfaces under real or more realistic conditions than ever before possible.

Run by the LBNL CSD in partnership with the ALS, Shuh credits the MES Beamline’s popularity and success to multiple factors, a primary one being its initiation with a strong, innovative, and sufficiently developed scientific program proposed by the initial core research team members (Hendrik Bluhm-CSD, Mary K. Gilles-CSD, and Tolek Tyliszczak-ALS). Secondly, the needs of the scientific programs were expertly translated into a revolutionary general-purpose beamline operating from 75 eV to about 2100 eV downstream of an elliptical polarization undulator (EPU) and flagship endstations. The beamline construction team was led by Tony Warwick and they did a fabulous job including the development of a fantastic monochromator.

“The contributions and dedication of the core research team and the scientists at the MES Beamline have been key to the development of scientific programs, endstations, support of general users, and general user scientific programs,” says Shuh.

Shuh also notes that it was the strong and unwavering support of the U. S. Department of Energy (DOE), Office of Science, Basic Energy Sciences, through the Divisions of Materials Science and Chemical Sciences, Geosciences, and Biosciences, that enabled the construction of the MES Beamline.

“The strong operational support provided early on from of the DOE’s Division of Chemical Sciences, Geosciences, and Biosciences served as a solid foundation for all the developments that have followed at the MES Beamline,” says Shuh. “And the partnership and support we’ve received from the ALS has also been key to our success.”

The MES Beamline Scanning Transmission X-Ray Microscope (STXM) endstation is a top worldwide resource for a diverse set of scientific investigations utilizing soft x-ray STXM. The endstation pair – the MES Ambient Pressure X-ray Photoelectron Spectroscopy (APXPS) endstations are leaders in surface studies of interfaces at pressures approaching 10 Torr for a wide range of energy research. Shuh notes that several other synchrotron radiation facilities have built similar beamlines and endstations, adding that “imitation is the highest form of flattery.”

The MES research team’s significant scientific diversity and history has also been a major contributor to the success of the beamline, says Shuh. Physicists Tolek Tyliszczak and Hendrik Bluhm, as well as chemist Mary K. Gilles, were all involved early on in the MES Beamline effort.

“The scientific diversity of the staff, their expertise, dedication, and years of experience are invaluable to the wide range of users at the MES Beamline and in general to the ALS as well,” says Shuh.

The MES Beamline scientists have been recognized over the years for their development of beamline endstation instrumentation. Tolek Tyliszczak has been awarded two ALS Klaus Halbach Awards for Innovative Instrumentation as part of two teams for STXM developments in 2002 and 2010. Similarly, Hendrik Bluhm was part of a team awarded a Halbach Award in 2004 and an R&D 100 Award in 2010 for the development of ambient pressure photoelectron spectroscopy.

Shuh and the MES team have seen many accomplishments over the years at the MES Beamline – he notes that they’ve had a tremendous impact in magnetic dynamics, the development and use of in-situ reaction cells for science in the soft x-ray regime, environmental science, and a significant impact on realistic catalysis and interfacial science across the board.

In addition to his role at the MES Beamline, Shuh is the Director of the Glenn T. Seaborg Center and is a co-lead on the Berkeley Lab Critical Materials Initiative. Shuh, along with Frances Houle (CSD), will work toward reducing current shortages and preventing future shortages through advances in nanoscience, chemistry, materials science, computation and theory, physics, materials genomics, and energy analysis techniques. The project will make use of Department of Energy national user facilities located throughout the country.

August 2012 Print

Mike Martin, Infrared Beamlines Leader and Deputy Group Leader, Scientific Support Group


I have been at the ALS for 15 years now, and continue to enjoy being a part of this dynamic and always interesting facility. My main job continues to be the primary Beamline Scientist for the ALS infrared beamlines (BL 1.4 and BL 5.4). Together with Hans Bechtel, we help a diverse array of scientists perform FTIR spectromicrsocopy on their samples. We continue to push the boundaries of the science that synchrotron infrared beamlines can enable, recently exploring two new directions. Taking spectral imaging into the third dimension, we are developing FTIR spectral microtomography, and on the nano scale, well sub-diffraction limited probing via scattering the light off an AFM tip.

I wear a number of other hats around the ALS and Berkeley Lab. I am proud to be a Deputy Group Leader for the ALS Scientific Support Group (SSG) under Zahid Hussain. The SSG's primary mission is to support the efforts of researchers at the ALS through scientific and technical collaboration and scientific outreach. We run and develop many of the ALS beamlines, organize a variety of seminars, help grow the pool of future synchrotron scientists via the ALS Doctoral and Post-Doctoral Fellowship programs, and pioneer many technical developments. The SSG plays an important role in keeping ALS science ahead of the game and maintaining the ALS as an outstanding national user facility.

I participate actively in several safety efforts for the ALS division and the Lab. I am the current chair of the ALS Staff Safety Committee which helps write safety policies by investigating whenever an incident provides opportunities to learn, and making sure that the division follows through with effective corrective actions. I also co-chair the ALS Beamline Review Committee which ensures beamlines are designed, built, and maintained for safety as well as technical excellence. I am the ALS representative on the LBNL Safety Advisory Committee and am also a member of the LBNL Institutional Biosafety Committee. I have recently been working on a Lab-wide effort to recognize and enhance our safety culture, and if you're a Berkeley Lab staff member you'll soon hear more about how "Safety is Elemental."

For the broader synchrotron community, I will soon be taking over as US Editor for Synchrotron Radiation News starting with Volume 26. SRN provides review articles on specific areas of synchrotron research, project updates of new light sources, meeting reports, and a new product section. I am looking forward to working with many of you in keeping this publication a widely read and useful journal for the synchrotron community! I welcome your suggestions and comments ( This e-mail address is being protected from spambots. You need JavaScript enabled to view it ).

July 2012 Print

Musa Ahmed, Senior Scientist, Chemical Dynamics Beamline


musa ahmedAt more than 17 years old, the Chemical Dynamics Beamline (ALS Beamline 9.0.2) is one of the oldest beamlines at the ALS. Over those years, the scientific thrusts at the beamline have evolved from performing state-of-the-art reaction dynamics studies to probing and understanding the physical and chemical principles that govern complicated phenomena in nature. Strongly coupled with this interest is a realization that research should be guided by the grand scientific challenges of the 21st century. Gaining a molecular level understanding of alternative carbon neutral energy sources and how to mitigate the effects of global climate change are themes that currently drive a number of users and beamline staff.

The beamline has four terminals—two with monochromators—which deliver vacuum ultraviolet light in the range of 7.4-25 eV. A number of endstations, all configured with mass spectrometers, measure and quantify processes which are relevant to a broad range of fields, particularly combustion and aerosol science, electronic structure of radicals, molecules and clusters in the gas phase and analysis of complicated systems, such as bacterial biofilms, atmospheric aerosols, fossil feathers and soil. Four of the endstations dedicated to molecular beams, aerosol studies, low-temperature reaction studies and imaging mass spectrometry are in-house facilities. Two "roll-up" endstations come from the Sandia Livermore combustion research facility where flame chemists and reaction kineticists probe complex molecules in exquisite detail and discover species never seen before using synchrotron radiation (see ALS Science Highlight "Direct Kinetic Measurements of a Criegee Intermediate"-ed.) . The home team, comprising students, post-docs and scientists discover the “glassy” nature of an organic aerosol, decipher the transfer of protons in the absence of hydrogen bonds (see this month's highlight,  "A Surprising Path for Proton Transfer Without Hydrogen Bonds"-ed.) , and use lasers to blow sand and graphite up  to get them into the gas-phase. In collaboration with outside users, the origin of the solar system is elucidated, the effects of cigarette smoke on walls quantified, and the nature of formation of organic molecules in distant Titan explained. Theoretical chemists can be seen working the owl shift, seeking to understand what happens when molecules relevant to biofuel production are heated to 1300 Celsius. Evolutionary biologists, paleontologists, environmental geochemists, and life science type folks have put 47-million-years-old bird feathers, dirt, pieces of wood, grass and leaves, and scum floating on top of a pond into the beautiful imaging mass spectrometer located right by the experimental walkway. Sometimes an old biodiesel running Mercedes can be seen in the parking lot outside, belching its exhaust into the synchrotron for study, and that is what the chemical dynamics beamline is all about. Seventeen years old and marching boldly on.

For more information about Musa and his team, and their research, visit the Beamline 9.0.2 Web site.

June 2012 Print

Carolyn Larabell, Director, National Center for X-ray Tomography


carolyn larabellThe National Center for X-ray Tomography (NCXT) soft x-ray microscope, Beamline 2.1, is now in its third year of operation. This was the world’s first soft x-ray microscope to be designed specifically for biological and biomedical imaging, and as such has set the pace on developing this modality for imaging biological cells. Under DOE-BER and NIH funding, the NCXT has taken a somewhat esoteric synchrotron-based imaging technique and turned it into an increasingly mainstream biological tool [for example, a recent issue of the Journal of Structural Biology was dedicated in entirety to x-ray microscopy of biological materials (Carrascosa, 2012 #3)].  Consequently, this beamline is following a common trajectory in terms of increases in both requests for access to beamtime, and publications. To a great extent this growth in interest from the biological community can be attributed to the uniqueness of the data and information produced by this type of microscopy. No other technique can image an intact, fully hydrated eukaryotic cell with such high fidelity and spatial resolution.


The NCXT is no by means a one-trick pony. In laboratories near Beamline 2.1 staff have been working on further developing "High Numerical Aperture Cryo-Fluorescence Microscopy."* . Again, this breakthrough microscope was the first in the world, and represents an enormous coup for the ALS in terms of a light source impacting cell biology. This new light microscopy has a number of unique features that make it exciting as a stand-alone instrument for determining the location of labeled molecules inside a cell.  However, when it is coupled with soft x-ray tomography – on the same cell – it becomes a veritable powerhouse technique. Soft x-ray tomography produces quantitative, high-resolution, 3D images of the cellular and sub-cellular architecture of fully hydrated, unstained cells, including eukaryotic cells. Currently, this microscope operates with optics that produce images with a spatial resolution of 50 nm, with the prospect of achieving 10nm resolution in the near future with the installation of the latest generation of zone plates developed by the Center for X-Ray Optics. High NA cryogenic fluorescence microscopy generates 3D maps—with isotropic precision—that detail the position of fluorescently labeled molecules inside the cell.  Both of these techniques are closely matched in terms of resolution/precision, and therefore optimally suited to the generation of a correlated view of a cell, and answering questions important in fields as diverse as medicine and biofuel production.

*Larabell, C. A. & Nugent, K. A., "Imaging cellular architecture with X-rays,". Curr Opin Struc Biol 20, 623-631, (2010)

McDermott, G., Le Gros, M. A. & Larabell, C. A.,  "Visualizing cell architecture and molecular location using soft x-ray tomography and correlated cryo-light microscopy," Annual review of physical chemistry 63, 225-239, (2012).

McDermott, G., Le Gros, M. A., Knoechel, C. G., Uchida, M. & Larabell, C. A., "Soft X-ray tomography and cryogenic light microscopy: the cool combination in cellular imaging," Trends Cell Biol 19, 587-595, (2009)

May 2012 Print

Howard Padmore, Division Deputy for Experimental Systems


padmoreAs the ALS Deputy for Experimental Systems, I oversee the Experimental Systems Group (ESG) with the help of the group deputies, Alastair MacDowell and Tony Warwick. The mission of the ESG is to assist researchers working on ESG-supported beamlines, to develop the technical infrastructure needed to carry out this work, and to help develop new applications of synchrotron radiation primarily through the development of new techniques. A particular focus of the group’s work is in x-ray microscopy and in the application of many techniques to the challenges in energy sciences.

In addition to maintaining and improving the performance of our present suite of beamlines, we have active programs that will add new capabilities in the next few years.

  • COSMIC:  This will be an EPU powered soft x-ray beamline, in the soon to be chicaned sector 7, that will support two endstations: one for coherent scattering and one for coherent imaging. The optical design is complete and we are about to start working with the engineering group on realization of this new state-of-the-art system for coherent soft x-ray experiments.
  • Nanosurveyor:  This is a new ptychographic microscope that will be on COSMIC and should give a resolution well beyond that achievable with conventional x-ray microscopy.  In this system, a diffraction pattern is recorded from two overlapping spots on the sample; the overlap provides a robust way to phase the diffraction pattern and recover a real-space image. A prototype of the microscope is now undergoing testing on BL 9.0.1, and using the BL 11 and STXMs, testing of this modality is underway using present microscopes. Initial results indicate that sub-10 nm resolution will be achieved.
  • Optical metrology:  Beamlines depend on good optics, and for this we must qualify and adjust all optics we receive. This is done in our optical metrology lab. A new lab with temperature-controlled and clean conditions is under construction in the USB and should give us a major improvement in capability.
  • Improvement to existing beamlines: We have a medium-term plan to upgrade some of our older beamlines using state of the art optics (LUXOR project). This is a similar program to that successfully carried out on the protein crystallography beamlines a couple of years ago. We are awaiting funding so that a start can be made in this area.
  • Beamline upgrades and moves: We plan to move and upgrade beamline 11.3.1, the Chemical Crystallography Beamline.  This is ALS’s most productive beamline in terms of published output, but it is on a non-optimum source. Moving it to a superbend magnet will mean a factor of 1000 increase in flux density at the sample for small crystals. In collaboration with the Chemical Sciences Division, we  are also examining the opportunities for moving the existing BL 7.0 beamline to sector 9, to replace the coherent optics beamline. This will give new soft x-ray capabilities to the chemical dynamics group.

This is a small glimpse into the work of the Experimental Systems Group. The work of the group is only possible through the hard work and dedication of the group members who play a central role in keeping the ALS at the leading edge of synchrotron science.

April 2012 Print

Zahid Hussain, Division Deputy for Scientific Support


As the ALS Division Deputy for Scientific Support, I oversee the Scientific Support Group (SSG), with the help of deputies Eli Rotenberg and Michael Martin. The SSG's primary mission is to support the efforts of researchers at the ALS through scientific and technical collaboration and scientific outreach. Depending on the needs of ALS users, the degree of collaboration can range from technical assistance with a beamline to full partnership in developing new research programs and experiment endstations. The SSG also strives to expand ALS scientific programs and broaden its user base through presentations, demonstration experiments, and publications.

The group organizes a variety of seminars, including a weekly ALS Center for X-Ray Optics (CXRO) x-ray science and technology seminar series: a targeted weekly lecture series with talks given by leading researchers on various topics.

The ALS Doctoral Fellowship in Residence program, established in 2001, enables students to acquire hands-on scientific training and develop professional maturity for independent research. In 2007, we initiated an ALS Postdoctoral Fellowship Program that identifies outstanding individuals in new and emerging scientific fields and provides them with advanced training. Both programs lead the way in establishing a pipeline of future beamline scientists to U.S. Department of Energy Basic Energy Sciences user facilities. 

The SSG played a very active role in creating the "Advanced Light Source Strategic Plan: 2009–2016, Addressing the Scientific Grand Challenges and Our Energy Future" and the "Photon Science for Renewable Energy" brochure, which is currently being updated.

The SSG has pioneered unique techniques that enable novel science, particularly using soft x rays. Some of these are listed below:

  • Development of ambient-pressure x-ray photoemission spectroscopy (APXPS) that enables XPS experiments at pressures of up to 10 torr, bridging a gap between ultrahigh vacuum and real-world industrial manufacturing conditions. This instrument received a 2010 R&D 100 Award.
  • Development of time-of-flight (TOF)–based electron-energy analyzers that provide unique advantages over dispersive analyzers. Recently, spin-resolved TOF achieved a world-record energy resolution of better than 20 meV and an overall figure of merit that is 1000 times better than state-of-the-art commercial systems.
  • Development of a scattering chamber that has been used both at the ALS for static measurements and at the LCLS for dynamic studies of charge ordering.
  • Development of a new generation of both high-resolution and high-throughput spectrographs for photon-in/photon-out spectroscopy. Both of these perform at orders of magnitude higher than previous generations. The high-resolution RIXS spectrograph has the world’s best resolving resolution of 10 meV.
  • Achieved a spatial resolution of better than 10 nm from a scanning transmission x-ray microscope.

The SSG has recently developed a new, higher-flux infrared beamline (Beamline 5.4), the meV-resolution beamline (MERLIN), and has begun construction of the MAESTRO beamline that will allow for nano-ARPES studies. Progress has also been made in the development of a coherent scattering chamber for the COSMIC beamline. We plan to submit a proposal for the construction of the Advanced Materials Beamline for Energy Research (AMBER), which will study energy related problems under in-situ and operando conditions.

I am very proud of the work done by the members of the SSG. They play a pivotal role in keeping ALS science at the forefront of its fields and making the ALS an outstanding user facility.

March 2012 Print

Jim Floyd, Environment, Health and Safety


The Advanced Light Source’s Environmental Health and Safety program is responsible for both staff and user safety. As always, there are many different issues and opportunities to work on. Following are some of the current highlights:

We have instituted a more efficient beamline review process for smaller projects. Called Abbreviated Beamline Reviews, these have fewer steps and reviews than previous procedures, though they cover the same design and readiness review steps. This was finalized in ALS Procedure BL 08-16, which can be found at, and we have successfully used this new process in six reviews.

We are also in the process of combining the annual beamline inspections with the annual permanent end-station inspections. By combining these inspections, our goal is to provide clearer guidance for beamline staff, more consistency, better follow-up on open items, and fewer overall inspections. We expect to start trial runs of these in the next month.

Lastly, we are preparing for upcoming lab-wide efforts to replace the Job Hazards Analysis (JHA) with a new work planning and control system. Our focus is on work planning at the beamlines, and, in particular, how we train and qualify new staff to work on them. We’re starting with a few individual beamlines to learn about issues that might be specific to the ALS. Eventually, we will develop ALS-wide models that can be incorporated into the lab-wide system. If you’d like more information on this, please This e-mail address is being protected from spambots. You need JavaScript enabled to view it .

There are two main user safety initiatives. We’re working with User Services on the design of a new User Portal and have already done extensive analysis of, and comparison with, other DOE light source user safety systems. Generally, we want to model our system after the one used at Argonne’s Advanced Photon Source, and are in the process of identifying current software that might accomplish this. We hope that this might be done in conjunction with the Berkeley Lab work planning and control efforts.

Shraddha Ravani is continuing her efforts to help us provide better biosafety support to our users. Most users can now take advantage of a division-wide Bio Use Notification (BUN) without having to create their own. Its scope is steadily expanding and we are now working to get a USDA soil permit. This should allow us to accept an even broader range of samples. Use of the User Support Building’s biology labs continues to expand. If you have an interest in the capabilities of these labs, please This e-mail address is being protected from spambots. You need JavaScript enabled to view it .

Overall, we continue to push pro-active efforts to identify vulnerabilities and address them before they become incidents. An update on some of the items raised by staff:

  • After one year of experience using the new User Machine Shop system, users now take a brief annual refresher to keep everyone aware of the system.
  • We have a more standard and thorough orientation package for new affiliates.
  • The ALS1001 training is now linked to the card-key access system.
  • The control room staff now have emergency guides to assist them in the event of an emergency.
  • An online Lockout/Tagout (LOTO) awareness course that will be more tailored to the needs of our staff is in the works.

We are always looking for ways to improve.  Please let us know if you have any questions or ideas.


Jim Floyd

February 2012 Print

Sue Bailey, User Services Group Leader


As head of User Services I am responsible for the User Office, the Communications Group, and experiment safety coordination at the ALS. I am available to users to discuss any aspect of your interactions with the ALS: from obtaining access to the facility, to conducting your experiment safely, to ensuring you get proper recognition for your research results and publications. So please, drop by my office (6-2212D), give me a call (x7727), or send an email ( This e-mail address is being protected from spambots. You need JavaScript enabled to view it ) if you have questions.

The ALS User Office has been reviewing and updating many of its procedures following a detailed analysis of our software and database. Most of the changes are intended to make life easier for ALS users or to improve efficiency. One change that you will see at the start of the next General User proposal cycle is the shift in submission deadlines from July and January to the first Wednesdays in September and March, thus shortening the lead time between proposal and beam time cycle to 4 months. We recently simplified the Score Adjustment Mechanism for active proposals with the aim of reducing user workload while still retaining fairness in the system. We are always happy to receive feedback about our processes, either by direct contact or in the User Satisfaction Survey, which all ALS users are invited to complete after their beam time.

We are also working on developing a modern Web portal for users that will include new user registration, safety systems, and centralized scheduling. Experiment safety coordination is critical to the mission of the ALS: "Support users in doing outstanding science in a safe environment.” We use the LBNL Integrated Safety Management (ISM) system, which follows these 5 core steps: define the scope of work, analyze the hazards, develop and implement controls, perform work within the controls, and provide feedback and improve. We particularly ask users to help with steps 1 and 4. We need your support for a detailed description of the scope of work, which you submit to us online, either when you complete your proposal or when you complete or update your Experiment Safety Documentation. We also need your commitment to performing your experiments within the controls developed for your safety. If you need additional support, do not hesitate to This e-mail address is being protected from spambots. You need JavaScript enabled to view it .

The ALS Communications Group constantly finds creative new ideas to advertize the exciting science that results from experiments done at the ALS. See our selection of articles and PowerPoint slides focusing on recent Science Highlights, submit a Science Brief to tell us about your work, or attend the next lunchtime Science Café to hear the latest from selected users and staff. If you are a social media fan, be sure to “like” us on Facebook and to view our short ALS videos on You Tube.

The ALS User Executive Committee (UEC), with the support of the User Office and communications staff, are already planning the next annual User Meeting (8-10 Oct, 2012-save the date!). If you have good ideas for speakers or want to contact the UEC about any aspect of your experience at the ALS, please email the UEC.

Contact: Sue Bailey, 510-486-7727, This e-mail address is being protected from spambots. You need JavaScript enabled to view it

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