Today at Berkeley Lab

Joint JGI-NERSC-KBase Call for Biological Data Science Proposals; Sept. 24 Deadline

The Joint Genome Institute, NERSC, and KBase have issued a joint call for proposals in biological data science as part of the Facilities Integrating Capabilities for User Science (FICUS) initiative. The call aims to help users perform large-scale computational analyses of genomics and related omics data to solve problems relevant to the DOE missions in bioenergy and the environment. Proposals are due Sept. 24. More>

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JGI Helps Expand Knowledge of Terpenes to Aid Biofuel Production

From the distinct smell of eucalyptus to the flavor of wine, terpenes are ubiquitous as well as economically important due to their use in industrial materials and pharmaceuticals. And thanks to a recent study that included the Joint Genome Institute, researchers have gained a better understanding of the terpene synthase gene family and its use as a precursor for biofuel development. More>

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JGI Helps ID Core Microbial Community for Maize Rhizosphere

An international team including Joint Genome Institute (JGI) researchers conducted a large-scale field study that partially replicates earlier trials to identify soil microbes that colonize plants and can be associated with particular traits. The work was conducted as part of JGI’s Rhizosphere Grand Challenge pilot projects. More>

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JGI Assists in Development of Sphagnum Genomic Resources

Sphagnum’s impact on carbon cycling and climate is said to be larger than any other single plant genus. Researchers estimate that Sphagnum holds about 25 percent of the world’s soil carbon. Using the Joint Genome Institute’s Community Science Program, researchers are developing resources to build up Sphagnum as a plant model system focused on carbon cycling studies, rather than for food or fuel applications. More>

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Innovative Technology Improves Our Understanding of Bacterial Cell Signaling

Cyclic di-GMP (guanine monophosphate) is found in nearly all types of bacteria and interacts with cell signaling networks that control many basic cellular functions. To better understand the dynamics of this molecule, researchers have developed the first chemiluminescent biosensors for measuring cyclic di-GMP in bacteria through work enabled by the Community Science Program at the Joint Genome Institute. More>

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Berkeley Lab User Facilities Prominent in SSURF Annual Meeting

Representatives from the Lab’s five national user facilities attended the Society for Science at User Research Facilities (SSURF) Annual Meeting in late June. JGI Director Nigel Mouncey presented, “How Facilities Can Partner With Industry to Strengthen the Scientific Infrastructure.” The Molecular Foundry’s Alison Hatt, who also serves on the SSURF Board of Directors, moderated a session. More>

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JGI, KBase Staff Put a Personal Stamp on the IGB

On June 22, Joint Genome Institute (JGI) Director Nigel Mouncey and Systems Biology Knowledgebase (KBase) CEO/CSO Adam Arkin gathered JGI and KBase staff for a “topping off” ceremony, signing the ultimate beam to be placed on the Integrative Genomics Building (IGB) now under construction at the Lab’s main campus. See video and full story here.

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JGI Tool Helps Reconstruct Genomes from Metagenomes

Through the Joint Genome Institute’s Emerging Technologies Opportunity Program, a team led by the Lab’s Jillian Banfield has developed and improved upon a tool that combines existing DNA sequence binning algorithms, allowing them to reconstruct more near-complete genomes from soil metagenomes, as compared to other methods. More>

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JGI Helps ID Novel Archaeal Lineage; Offers Clues on Evolution of Early Life

Aided by the Joint Genome Institute’s Community Science Program, Montana State University collaborators characterized a candidate phylum-level lineage of aerobic archaea dubbed Marsarchaeota that is found in iron-oxide microbial mats. The discovery provides the team with clues on how early life evolved on Earth as iron is believed to have played a key role in important redox processes. More>

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Register for the JGI’s Next Microbial Genomics & Metagenomics Workshop

Register now for the JGI’s September 17-21 MGM Workshop in Walnut Creek. The hands-on workshop is designed to familiarize users with the Integrated Microbial Genomes & Microbiomes (IMG/M) suite of tools. The agenda also includes brief overviews of sequencing, assembly, metadata curation, annotation, annotation, as well as some presentations from JGI’s portfolio of products beyond sequencing. More>

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