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Ring Leaders
August 2013 Print

Sue Bailey, User Services Group Leader

baileyAs head of ALS User Services for the past six years, my goal has been to make the ALS user experience as smooth and efficient  as possible. I am constantly looking for ways to improve the processes for users to apply for beam time, register, complete their training, and coordinate experiments. I am a primary liaison with the ALS Users’ Executive Committee (UEC) and we work together to ensure the success of the annual ALS User Meeting , which attracts more than 400 participants each year.

ALS User Services is currently transitioning from a dated software and database system to a new user portal, which will provide a much more interactive environment. The transition will be evolutionary, so users will notice many small changes over the next two years.  We have already implemented some components, including the RAPIDD Proposals system, which complements the existing General User Proposal process. RAPIDD is a flexible system that allows users to obtain relatively short beam time allowances to perform single experiments. It provides rapid access to structural biology, small molecule crystallography, SAXS/WAXS, and tomography facilities. It is also the formal mechanism for applying for Director’s discretionary beamtime and for submitting industry proposals. We will soon be rolling out an online user interface that will provide more intuitive ALS access. We are also working on software for an experiment tracking system, which will replace the current Experiment Safety Sheet.

Explaining and promoting science to the wider community is an essential role for all of us who work in science and at user facilities. This year I was fortunate to be elected to the National User Facility Organization (NUFO) steering committee and to help run a science exhibition to educate our elected representatives on the wide range of science and innovation happening at the ALS. I organized this year’s NUFO meeting, which was held at LBNL, and it provided an excellent opportunity for ALS staff to contribute to discussions of new outreach ideas and best practices across national facilities.

The ALS values user input and ideas and there are both formal and informal ways for users to make their voices heard. The UEC is a very important link between ALS management and users; I encourage users interested in learning more about and helping to determine how the ALS operates  to talk to current UEC members and consider running for election. The UEC will be looking for new members within the next few months. ALS also solicits input from users on our user satisfaction form—we like to hear what went well and where there is room for improvement. My door is always open and I encourage users to talk to me or other ALS staff so that we can help support their science.

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

July 2013 Print

Interim EHS Program Management

Since 2006, Jim Floyd has served as the Environment/Health/Safety (EHS) program manager for the ALS. July 8 he assumed a new position as director of the Lab's EHS Division. While the ALS is recruiting for a permanent replacement, two EHS Division staff will provide interim support.






In the area of accelerator and radiation safety, Jeff Bramble will be here approximately 50% to coordinate this important function. Jeff is an experienced health physicist (HP) with a very broad background, providing backup radiological control technician support here at the ALS and HP support at the 88” cyclotron. Among his duties will be assistance on:

  • Procedures
  • Interlock design, installation and documentation
  • Floor operator support
  • Shielding and ALARA studies
  • Incident corrective actions
  • Rad material RWA for users
  • Accelerator Safety Order implementation tasks
  • Work permits and shut-down work planning

Interim Division Safety Coordinator support will be provided, also at approximately 50% effort, by Andrew Peterson. Currently the assurance manager at EHS as well as the division liaison for ALS. Andrew served as the safety coordinator for the Life Sciences Division and is very familiar with our on-going staff safety functions. He’ll be providing assistance on:

  • JHA
  • Activity hazard documents (AHD) and other task-based authorizations
  • Self assessment
  • First-aid/Injury investigations
  • ALS representation to LBNL and DOE


User Safety will continue to receive strong support from Doug Taube, David Malone (pictured at left) and the rest of the team. You can find a list of safety contacts on our Safety Organization and Contact Information page.

June 2013 Print

Alastair MacDowell, Beamline Scientist, Experimental Systems Group


Alastair MacDowellBeamline scientist Alastair MacDowell has pioneered several hard x-ray science programs in his 17 years at the ALS. MacDowell began his career here with a directive to prove the viability of providing hard x-ray capabilities. Early in his tenure he did just that, working to establish the micro-XAS program at Beamline 10.3.2 and the x-ray microdiffraction program that ended up at Beamline 12.3.2, both of which are still in operation today.

MacDowell went on to develop many other ALS hard x-ray programs. He also proved that protein crystallography was tenable on bend-magnet beamlines, which lent vital support to the ALS superbend project and the five protein crystallography beamlines subsequently established at the ALS. MacDowell conducted the initial tomographic experiments on Beamline 7.3.3, establishing a program that moved to Beamline 8.3.2, and high-pressure x-ray diffraction experiments that led to an endstation at Beamline 12.2.2. He also implemented small-angle x-ray scattering (SAXS) at the ALS, which has remained at Beamline 7.3.3. Being involved in so many programs has its pros and cons, says MacDowell.

“If you build the equipment, then bring people in to use it, they come to you when something is broken,” he says.

MacDowell cites the “village” that makes up the ALS as key to establishing all of these programs. “They all require multiple people, from the techs to assemble, engineers to design, the ALS management and support to provide the environment, and the local scientists to provide the scientific motivation,” he says.

These days, MacDowell is in charge of the ALS tomography program at Beamline 8.3.2 and the high-pressure x-ray diffraction station at Beamline 12.2.2. At Beamline 8.3.2 MacDowell and ALS Postdoctoral Fellow Abdel Haboub are currently working on a Laboratory Directed Research and Development (LDRD) program on coded-aperture detectors and an x-ray microtomographic hot cell that allows users to research the failure of materials at very high temperatures. MacDowell and his team built the instrumentation for the hot-cell technique, which is already enabling exciting research. Notably, Berkeley Lab senior materials scientist Rob Ritchie and his team have made headlines with the research they’ve conducted at Beamline 8.3.2 using the hot-cell facility to study the heat-resistant properties of advanced ceramic composites, which show promise as next-generation jet engine materials (see a video about their research).

The hot cell, which MacDowell calls “totally novel,” is currently not available at any other synchrotron facility. Researchers are using it for a variety of research topics, including

  • Gaining a better understanding of volcanoes by monitoring the cracking of magma,
  • Studying how concrete behaves at high temperatures in order to monitor the stability of burning buildings, and
  • NASA research on heat shields for space reentry vehicles.
May 2013 Print

Hoi-Ying Holman, Director of the Berkeley Synchrotron Infrared Structural Biology Program


Hoi-Ying Holman, head of the Chemical Ecology Group in Berkeley Lab’s Earth Sciences Division (ESD), is the director of the Berkeley Synchrotron Infrared Structural Biology (BSISB) Program (website) at ALS Beamlines 1.4 and 5.4. The ALS and ESD built the BSISB together with funding from the Department of Energy's Office of Biological and Environmental Research. ALS Infrared Group Leader Mike Martin and Beamline Scientist Hans Bechtel are part of the BSISB, which focuses on developing new technologies that draw from multiple scientific areas to address challenges in environmental sustainability, renewable energy and biomedicine.

One of the great advantages of synchrotron infrared spectromicroscopy is that it doesn’t (necessarily) kill its living subjects, as Holman explains. "In 1997 I was looking for a way to study the chemistry of microbes on rock surfaces noninvasively and in real time. On my first visit to the ALS I ran into Wayne McKinney, who told me the good news and the bad news: There was an infrared beamline, but the equipment was still in the boxes. So I became the first user of Beamline 1.4 by helping to unpack the boxes."

Holman published her first paper on real-time synchrotron IR spectromicroscopy in 1999 (PDF). By the mid 2000s, she found that in order for synchrotron IR to become a truly non-invasive molecular technique for studying the real-time biological processes in living cells, she needed to expand the current supporting capabilities to include a microfluidic platform.

Aqueous environments hinder SR-FTIR’s sensitivity to biological activity. She applied for DOE funding to develop an infrared-compatible microfluidic system, which was at that time the bottleneck of the synchrotron IR technology (see Real-Time Chemical Imaging of Bacterial Biofilm Development). This progress towards establishing IR spectromicroscopy eventually led to the BSISB ribbon cutting in 2010.

Holman earned the 2010 David A. Shirley Award for Outstanding Scientific Achievement at the ALS “for her pioneering study of living cells and their response to environmental stimuli using synchrotron-based FTIR spectromicroscopy.”

Recent research from the BSISB includes Molecular Measurements of the Deep-Sea Oil Plume in the Gulf of Mexico following the Deepwater Horizon blowout in the Gulf of Mexico. They have also monitored protein phosphorylation inside single living cells, following live chemical changes without bias and without harming the cells (Tracking Living Cells as They Differentiate in Real Time). Most recently, they helped a team of Germany scientists examine the function of a mysterious microbial community in a cold sulfur spring (Synchrotron Infrared Unveils a Mysterious Microbial Community).

Complementary imaging technologies at the BSISB include a hyper-spectral imager that allows researchers to study specimens using IR as well as visible light on the same sample. In July, the BSISB expects to install a full-field IR system that will allow researchers to do 2D spectral imaging and 3D spectral tomography.

They are also developing an instrument that will combine the microfluidic IR spectromicroscopy platform (see highlight link) with Raman microscopy and mass-spectrometry imaging. A new near-field imaging capability called nanoscopy is also in development by Bechtel and Martin, and is expected to overcome the current diffraction limit by combining atomic force microscopy with broadband IR spectroscopy.



April 2013 Print

Simon Morton, Instrumentation Manager for the Berkeley Center for Structural Biology


Simon Morton, Instrumentation Manager for the Berkeley Center for Structural Biology (BCSB) and member of the Experimental Systems Group (ESG), is responsible for developing new hardware and systems to improve ALS beamlines. “We have a very aggressive program of continuous upgrades so that we’re always on the cutting edge,” says Morton. “One of the first jobs I had in coming to BCSB was evaluating the performance of the Sector 5 beamlines and developing new optics upgrades for them, which increased the flux about 30 times from 2004-2007.”

Morton has been a member of the Physical Biosciences Division, but he is now transitioning to work 60% time for the ALS, developing beamline upgrades as part of ESG. An example of one such project is the planned relocation of the ALS Small Molecule Beamline 11.3.1. One of the most productive beamlines at the ALS, “this very simple beamline design was put together very economically, but it no longer yields optimal performance using its current bend magnet source,” says Morton, so he hopes to move it to a stretch of the ring with a superbend magnet.

He is looking at lessons learned from previous upgrades to ALS protein crystallography beamlines, applying them to other existing beamlines to cost-effectively upgrade the optics, improve performance, and make use of already-developed, proven designs. “Because of the aggressive upgrades we’ve been doing to our beamlines, the performance is as good as it can be. Smaller protein crystals require a smaller and more intense x-ray beam, but we are already capturing all the x-rays and focusing them down to the smallest spot we can. So to get to the next level we need a new source of x-rays, which would be an undulator,” Morton says.

Last year Morton and Jeff Dickert (at left in photo above) developed the Compact Variable Collimator (CVC), winning them the Halbach Award for Innovative Instrumentation at the last ALS User Meeting, as well as an R&D 100 award. Morton explains his invention “To get the best data quality, it’s very important that the size of the x-ray beam is matched exactly to the size of the crystal, or even to a particular portion of the crystal that you are studying. The CVC allows users to type the size of the beam they want and have it matched instantly. They can do it remotely, there’s no realignment required, which is really the unique feature here.” Now, all BCSB beamlines have a CVC. Morton is working with other synchrotrons to install the technology and is also seeking a commercial partner.

Until recently, Morton has focused his instrumentation talents on the BCSB, which is always looking to increase the performance of its beamlines by upgrading optics, increasing capacity and throughput, and improving automation to stay competitive in the protein crystallography market. “We’re all in competition with each other, but the ALS beamlines do very well,” Morton says. He and his colleagues do a lot of outreach because users apply to multiple synchrotrons. Hosting a booth at conferences—like the upcoming American Crystallographic Association’s Annual Meeting (to be held June 20-24 in Honolulu, Hawaii)—allows them to actively promote ALS capabilities and beamlines amongst tough competition.

That’s because most BCSB users don’t come to the beamlines to do their research, but instead rely on highly automated, robust tools to get measurements at the synchrotron of their choice. “A lot of our users are proprietary users paying for beam time. We’re providing a commercial service, so things just have to work. We have to have automation, reliability, and support,” Morton says. “Our users are biologists, not synchrotron scientists. We run in full remote control, so we have a lot of integrated robotics, software, and hardware.”

During the most recent ALS shutdown, a number of upgrades were done to the optics, robotics, and sample-positioning systems to improve the capacity and performance of BCSB beamlines. Most significantly, the cooling system and the focus adjustment system were improved on the Sector 5 mirrors, which should tighten their focus. The capacity of the 5.0.2 robot was doubled as well, eliminating the need for staff to reload the machine on the weekends when beamlines are running fully remote users.

In addition to 35% academic and general users, about 65% of users on Sector 5 come from industry, primarily pharmaceutical companies doing drug development research through a participating research team. In Sector 8, 70% are from the Howard Hughes Medical Institute (HHMI), which funds the beamlines. “HHMI users tend to work on a small number of extremely challenging, multi-year projects. I don’t always keep track of the research projects,” Morton jokes. “I’m more into the hardware, myself.”

March 2013 Print

Eli Rotenberg, Staff Scientist


After 20 years of photoemission research at Beamline 7, ALS Senior Scientist Eli Rotenberg has taken on a new role in overseeing a complete rebuild of the beamline and its endstations. The project will expand Beamline 7’s footprint to include three endstations, three preparation chambers, and space to expand. The new setup will offer 1000-times better spatial resolution and at least 10-times better energy resolution.

“Beamline 7 wasn’t initially built for very high energy resolution,” says Rotenberg. “When it was built it was very good in other regards – high brightness and small spot size – but after 20 years the beamline and endstations were a bit mismatched.”

The endstations at Beamline 7 had evolved over the years to be pretty state-of-the-art; users come from around the world to do electronic structure research here. Rotenberg has always seen the potential for improving the 50-micron beamline resolution. About 10 years ago, he began building support for a proposal to get the resolution to less than a micron and bring the energy resolution up to current standards at the same time.

“We’re always trying to keep up with the state-of-the-art,” says Rotenberg. “At the time our proposal was submitted, it was revolutionary.”

Users have come to rely on Beamline 7 as a top-of-the-line facility for growing their own crystals and measuring them in place, a capability that Rotenberg says has been perfected in large part because of close collaboration with users. The rebuild will expand these capabilities with advanced spatial resolution, which will benefit users and Rotenberg’s own graphene research.

“There won’t be anything in the world this comprehensive,” says Rotenberg. “We’ll be able to grow anything and look at non-homogeneous samples in amazing detail.”

Rotenberg also sees the renovated Beamline 7 (modeled at right) fitting in really well with the Lab’s new mesoscale science initiative because it will offer the spatial resolution necessary to study emerging phenomenon.

“We know a lot about what electrons and materials do at the atomic scale and large scale,” says Rotenberg. “This would be the first time that we’d be able to look at complex materials at the medium scale and understand what’s happening.”

If everything falls into place as planned, Rotenberg says the ALS should see the first light down the new Beamline 7 this summer, and light to the endstations in the fall. See some photos of Sector 7 upgrade on the Shutdown 2013 Update page.

February 2013 Print

Steve Kevan, ALS Deputy Division Director for Science


kevan ring leaderALS Deputy Division Director of Science Steve Kevan has a long and collaborative history with the ALS – he’s been involved with the facility since its planning stages, is a veteran user, a longtime member of the ALS Scientific Advisory Council, and was the first chair of the Users' Executive Committee.

It’s fitting then that Kevan joined the ALS in July shortly before our historically significant 20th anniversary. He brings insights drawn from his many years working with the ALS, his experience as a professor of physics at University of Oregon since 1986, and his own research, which is focused on undulator radiation. Kevan worked on the team that built the first beamline at the ALS and led the construction of Beamline 12.0.2 in 2001, which was a first step toward a dedicated and flexible coherent soft x-ray scattering and imaging beamline and has led to the construction of the COSMIC beamline.

In his new role at the ALS, one of Kevan’s primary directives has been to explore career development opportunities for beamline scientists and graduate students. Kevan says he started looking into professional development for scientists even before he joined the ALS – he describes it as an area that’s difficult to define at a facility devoted to serving users.

“As the ALS approaches middle age, many of our beamline scientists are approaching middle age as well,” says Kevan. “We need to make sure we are fostering an entrepreneurial, collaborative approach that serves them well.”

Kevan sees the ALS scientists as an integral part of the user experience. “We offer tools, but our beamline scientists are the experts in using those tools,” he says. “People need help using our tools and analyzing data, and our people are the keys to providing that service.”

Kevan is also focusing his initial efforts on building collaboration and community among scientific staff. At the urging of senior scientist Elke Arenholz, Kevan has created collaborative groups of beamline scientists organized by interest areas rather than management structure. Many of the scientists in these groups came together recently for a brainstorming workshop to discuss how the ALS might contribute to the DOE’s recent mesoscale research initiative.

“I’ve already seen beamline scientists discovering through these groups that some of their colleagues were doing things that they didn’t know about but found interesting,” Kevan says.

This collaborative approach focused on research areas will guide some of Kevan’s other big-picture projects this year as well. Most immediately, he’s working on the ALS strategic plan, which he’s organizing by scientific subject areas that will align with internal “cross-cut” reviews, which are focused on subject areas rather than beamlines. Kevan hopes to have cross-cut reviews for each subject area every three years.

“Our goal is to be a ‘collaboratory,’ not just a user facility,” says Kevan. “We want to help people solve problems, use our facility better, make progress, and collaborate with them.”

January 2013 Print

Doug Taube, ALS Chemical Safety Specialist


As a chemical safety specialist, Doug Taube oversees chemical safety and experiment review for both ALS scientists and users. A natural result of his job description is his broad knowledge of all the techniques and experiments taking place around the experiment floor. Because of this and his affable and enthusiastic demeanor, Taube has become a go-to ALS tour guide. It’s a role he enjoys and views as an opportunity to enlighten others about the amazing and important scientific research underway here.

Taube, who holds a PhD in chemistry and worked as a catalyst chemist for ten years, joined the ranks of the ALS two and a half years ago. He estimates he’s given more than 150 tours since then, with groups ranging from distinguished guests from the Office of the UC President to fifth graders. He enjoys them all, but says that the best tours are really those with people who engage with him. “Regardless of their knowledge, it’s more interesting when there’s some give and take,” says Taube.

When he’s not entertaining tour groups with ALS history quizzes and accelerator science trivia, Taube is busy ensuring experiment safety at the ALS. The signs posted around the facility that inform users wondering about experimental procedure: “Better Call Doug!” pretty much say it all. Before users can access the ALS User Chemistry Labs or proceed with experiments on the beamline floor, they need Doug’s approval.

“I get the rare treat of visiting with just about every user who comes through the ALS. I make sure they’re doing their experiment safely then I get to ask them the big-picture questions about why they are doing their work” says Taube.

Taube earned his PhD in inorganic chemistry at UC Santa Barbara and then spent three and a half years at UC San Diego doing post-doc work before moving into industry. He worked as a catalyst chemist for ten years and another ten years in safety at Catalytica in Mountain View before coming to the ALS. Taube also taught freshman chemistry at Cal State Hayward for several years. His broad background has given him the ability to appreciate the many types of scientific research at the ALS, and to explain and elaborate upon it for his tour groups.

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