Nikos Kyrpides, head of the Prokaryote Super Program at the Department of Energy Joint Genome Institute (DOE JGI) and a senior scientist in the Biosciences Environmental Genomics and Systems Biology (EGSB) division, was selected as the 2018 USFCC/J. Roger Porter Award recipient by the American Society for Microbiology (ASM). He will be honored at the 2018 ASM Microbe Meeting in Atlanta, Ga. The award recognizes outstanding effort by a scientist in demonstrating the importance of microbial biodiversity through sustained curation or stewardship of a major resource used by the scientific community. For more than a decade, Kyrpides and his colleagues have been working toward the goal of developing a comprehensive catalog of reference genomes for every bacterial and archaeal species. Read more from JGI.
X-ray Footprinting Reveals Secrets of ‘Metal-Breathing’ Bacterium
A team of Berkeley Lab researchers conducted X-ray footprinting mass spectrometry (XFMS) experiments at the Lab’s Advanced Light Source (ALS) to pinpoint how a protein of the bacterium Shewanella oneidensis transfers electrons to a metal oxide substrate. The research was led by Caroline Ajo-Franklin, whose lab is part of the Molecular Foundry and who holds a secondary appointment in the Molecular Biophysics and Integrated Bioimaging (MBIB) division, in collaboration with Corie Ralston, also of MBIB. Tatsuya Fukushima, a former postdoc in Ajo-Franklin’s lab, and Sayan Gupta, a member of Ralston’s lab, were co-first authors on the paper published in the Journal of the American Chemical Society. The study, which identified an unexpectedly small and weak binding site, also benefitted from expertise and tools contributed by Joint BioEnergy Institute (JBEI) and Biological Systems and Engineering (BSE) researchers Christopher Petzold and Leanne Jade Chan. Read more at the Berkeley Lab News Center.
Bay Area Biopharma Company Uses ALS to Tackle Sickle Cell Disease
The protein crystallography capabilities at the Advanced Light Source’s (ALS’s) Beamline 8.3.1 have been critical to Global Blood Therapeutics’ (GBT’s) ongoing effort to formulate a better treatment for sickle cell disease (SCD).
Congressman Randy Hultgren Visits Biosciences Area
U.S. Congressman Randy Hultgren (R-IL-14) visited the Biosciences Area’s Emery Station Operations Center on September 1st. Congressman Hultgren met with Mary Maxon, Biosciences Associate Lab Director, and Jay Keasling, JBEI’s Chief Executive Officer, and also toured JBEI’s laboratories.
Hultgren is co-founder and leading member of the Science and National Labs Caucus and a proponent of science’s role in unlocking the potential for economic growth and job creation. He recently spoke at a Council on Competitiveness-sponsored event in Washington D.C. during which the Council released its latest report “Leverage: Advancing U.S. Bioscience”. The report focused on leveraging U.S. potential in the growing sector of bioscience and biomanufacturing.
Modular Ensembles of Enhancers Regulate Ihh, Developmental Gene Expression in Mice
Biosciences researchers Axel Visel (JGI/EGSB) and Marco Osterwalder (EGSB) contributed to a study, led by researchers at the Max Planck Institute for Molecular Genetics, in which targeted genome editing and a transgenic reporter assay were used to characterize elements regulating Ihh (encoding Indian hedgehog) in mice. Indian hedgehog is a mammalian signaling protein involved with the development and proliferation of cells in cartilage. In humans, copy number variants (CNVs) upstream of Ihh cause localized phenotypes including premature fusion of the sutures of the skull and malformation of the phalanges. The study, published in Nature Genetics, showed that in mice Ihh is regulated by modular ensembles of enhancers (with individual tissue specificities) that appear to act in an additive manner. Despite apparent redundancy and overlapping function of enhancers, these ensembles—in which the correct number of each enhancer is present—are necessary for precise spatiotemporal control of developmental gene expression.
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