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Content Tagged "Berkeley Lab"

Bioscriber, an online synthetic biology tutorial, debuts

Developed as a means of introducing the concept of DNA synthesis/synthetic biology to the general public and how it is used at the U.S. Department of Energy Joint Genome Institute (DOE JGI) and the Joint BioEnergy Institute (JBEI) for biofuels research, Bioscriber debuted on October 13, 2012 at the Berkeley Lab Open House.  The initial… [Read More]

32 papers in one day – ENCODE project’s first reports

The papers published Wednesday recount more than 1,600 experiments involving more than 180 different cell types, said Richard Myers, president of the nonprofit HudsonAlpha Institute for Biotechnology in Huntsville, Ala.“They have shown how the millions of switches in the human genome determine which proteins in the body are going to be made, how they will work together, and how… [Read More]

Deepwater Horizon oil spill cleanup microbes project in Examiner.com

The first research effort reported in an article published online June 21, 2012, in the ISME Journal involved samples taken immediately after the Deepwater Horizon spill began and during the ensuing clean up efforts.The researchers found that a variety of microbes consumed parts of the oil spill selectively. Each group of microbes specifically targeted one group of… [Read More]

Deepwater Horizon cleanup microbes project in Oil and GasOnline

To learn more about the microbial community’s response to the oil spill, researchers led by Berkeley Lab senior scientist Janet Jansson availed themselves of the expertise and resources at two of the Lab’s national user facilities, the U.S. Department of Energy Joint Genome Institute (DOE JGI) and the Advanced Light Source (ALS). The work done… [Read More]

DOE JGI’s IMG/M data system in Berkeley Lab’s release on the Human Microbiome Project

Berkeley Lab’s role in mapping the human microbiome revolves around big data, both analyzing it and making it available for scientists to use worldwide…. Berkeley Lab scientists developed and maintain a comparative analysis system called the Integrated Microbial Genomes and Metagenomes for the Human Microbiome Project (IMG/M HMP). It allows scientists to study the human microbiome… [Read More]

Kbase and DOE’s Susan Gregurick in GenomeWeb’s BioInform

Kbase is currently in alpha release and is targeted for full production release in early 2013.The community-driven and scalable open-source system is intended to provide a framework for evidence-based functional annotation of genome sequences. It will also enable the creation of metabolic and regulatory models that may be used to generate scientific hypotheses; as well… [Read More]

Dietary impacts on hoatzin crop microbial communities

Many DOE JGI metagenomic projects focus on microbial communities in the guts of the cow, termite and even the desert locust, all known to break down plant biomass for energy. In studying these and other gut microbial communities, researchers hope to identify and isolate genes involved in plant biomass degradation, and apply them to biofuel… [Read More]

A new approach for improve genome assembly

Assembling a genome from fragments of DNA sequence is often compared to assembling a puzzle. One of the problems researchers face with the increasing use of next-generation sequencing technologies is that the pieces of DNA sequence generated by the 454 or Illumina platforms are much smaller and far more numerous than those produced by the… [Read More]

Permafrost metagenome study on VOA Special English report

The researchers say one gram of the soil could contain thousands of different kinds of microbes and billions of cells. They say these organisms had never before been cultured in a laboratory. JANET JANSSON:  “So more than ninety percent of those bacteria and other microorganisms in permafrost, we had no idea what they were.” Read… [Read More]