DOE Joint Genome Institute
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Scientists at JGI
Nitrogen Uptake Between Fungi and Orchids
Orchids are an example of an experimentally tractable plant that is highly dependent on its relationship with its mycorrhizal fungal partners for nutrient supply. For the first time, researchers identified some genetic determinants potentially involved in nitrogen uptake and transfer in orchid mycorrhizas.
Metagenomics Leads to New CRISPR-Cas Systems
In a study led by longtime DOE JGI collaborator Jill Banfield of UC Berkeley, researchers report discovering for the first time, a CRISPR-Cas9 system in archaea, as well as of simple CRISPR-Cas systems in uncultivable bacteria.
Of Mutualism and Lipid Metabolism in Fungi
To learn more about how bacteria interact with fungi in a symbiotic relationship to support the biochemistries that could contribute to the development of alternate fuel sources, Cornell and DOE JGI researchers used a model bacterial-fungal system to reveal the mechanism for lipid production in oil-producing fungi.
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Yearly Project Plans
Developing an Ice Plant Gene Atlas
The ice plant was the first reported halophytic, facultative crassulacean acid metabolism (CAM) species, meaning that the plant can be induced to switch from C3 photosynthesis to CAM following water-deficit or salinity stress treatment.
Exploring Deep Biosphere Microbial Communities
The data from one of the least understood habitats on Earth will have implications for our understanding of global energy and nutrient cycles, the potential for deep terrestrial disposal of nuclear waste and geo-engineering for CO
storage, while also providing insights about how life could be sustained on other planets.
A Suillus Genus Genome Atlas
As symbiotic ectomycorrhizal fungi (EMF),
spp. play critical roles in the function of forest ecosystems by providing their plant hosts with mineral resources in exchange for photosynthetically fixed carbon.
Data & Tools
DOE JGI Database of DNA viruses and retroviruses debuts on IMG platform
In a series of four articles published in the Database issue of the Nucleic Acids Research journal, DOE JGI researchers report on the latest updates to several publicly accessible databases and computational tools that benefit the global community of microbial researchers.
Benchmark Study for Improving Microbial Community Profiling
Researchers used synthetic and natural microbial lake communities to compare the microbial community profiles generated from high throughput short-read sequencing and high throughput long-read sequencing approaches.
Better Microbial Genome Binning with MetaBAT
An automated tool called MetaBAT that automatically groups large genomic fragments assembled from metagenome sequences to reconstruct single microbial genomes.
Read more about MetaBAT
User Program Info
Community Science Program (CSP)
Other User Programs
Working with JGI
Submit a Proposal
JGI-NERSC Microbiome Data Science Call
The Microbiome Data Science call will enable users to perform state-of-the-art computational genomics and metagenomics research and help them translate sequence information, generated by the DOE JGI or elsewhere, into biological discovery.
Large-scale CSP Call
The CSP Annual Call is focused on large-scale sequence-based genomic science projects that address questions of relevance to DOE missions in sustainable biofuel production, global carbon cycling, and biogeochemistry.
JGI-EMSL Collaborative Science Call
The FICUS call between DOE JGI and Environmental Molecular Science Laboratory (EMSL) represents a unique opportunity for researchers to combine the power of genomics and molecular characterization in one proposed research project.
News & Publications
Revealing Aspergillus Diversity for Industrial Applications
DOE JGI researchers report sequencing the genomes of 10 novel
species, more than doubling the number of
species sequenced to date.
Seeking Structure With Metagenome Sequences
In collaboration with researchers, an University of Washington-led team reports that structural models have been generated for 12 percent of the protein families that had previously had no structural information available.
Tracking Antarctic Adaptations in Diatoms
In Nature, a team led by University of East Anglia scientists conducted a comparative genomic analysis involving three diatoms by tapping expertise from the DOE Joint Genome Institute, who conducted all sequencing and annotation.
December 9, 2013