DOE Joint Genome Institute
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In Hot Spring Microbial Mat, Viruses Ride “Piggyback”
In The ISME Journal, scientists have used sequencing methods for the first time to comprehensively characterize viral-host interactions.
Effects of Polar Light Cycle on Microbial Food Web
While microbial populations in other Antarctic lakes and the nearby Southern Ocean shift from phototrophs to archaea when sunlight becomes scant, Ace Lake’s bacteria instead go through a boom and bust cycle aligned with light availability.
Gene Expression: From On-Off Switch to Dial
Scientists have developed a more nuanced library approach to tuning gene expression in metabolic pathways, allowing researchers to identify variations of essential genes in metabolic networks that were missed using traditional approaches.
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Approved User Proposals
Gene Atlas of a Nitrogen-Fixing Legume Symbiont
Understanding how bacterial communities produce biofuels or to remediate contaminated environments is limited due to a lack of knowledge of the functional properties of microbes and their genes. A high-throughput approach will help fill-in these gaps in knowledge, laying a solid foundation for researchers hoping to engineer bacteria with improved or novel traits.
Role of Fungal Endosymbionts in Host Reproduction
This project focuses on endosymbionts and fungal reproduction, expanding knowledge on the complexities of microbiome interactions. These fungi are industrially important because they produce valuable lipid products.
Scaling Microbial Traits From Genomes to Watersheds
Using remote sensing, metagenomics and machine learning, researchers are building new ways to predict of how plant and microbial metabolism interact to influence biogeochemistry across watersheds in the headwaters of the Colorado River.
Data & Tools
Computationally Classifying Fungal Lifestyles
Machine learning methods were applied on sequenced fungal genomes, generated in part through the 1000 Fungal Genomes Project, to classify them by lifestyles.
Here, There and Everywhere: Large and Giant Viruses Abound Globally
In Nature, a JGI-led team uncovered a broad diversity of large and giant viruses that belong to the nucleocytoplasmic large DNA viruses (NCLDV) supergroup. The expansion of the diversity for large and giant viruses offered the researchers insights into how they might interact with their hosts.
Expanding Virophage Diversity
Researchers provided a global analysis of the diversity, distribution, and evolution of virophages - and in doing so, increased the number of known high quality virophage genome sequences 10-fold through computational approaches.
Calls for User Proposals
Special Initiatives & Programs
Submit a Proposal
CSP New Investigator Proposal Call
Proposals may be submitted at any time for the CSP New Investigator Call, and will be reviewed every six months.
JGI Engagement: Accessing Functional Genomics Capabilities Webinar
Hear how researchers have availed of JGI resources and capabilities to advance their science through the year-round Community Science Program’s Functional Genomics call for proposals.
How to Target a Microbial Needle within a Community Haystack
Enabled by the JGI’s Emerging Technologies Opportunity Program, researchers have developed, tested and deployed a pipeline to first target cells from communities of uncultivated microbes, and then efficiently retrieve and characterize their genomes.
News & Publications
Logos and Templates
The More the Merrier: Making the Case for Plant Pan-genomes
Crop breeders have harnessed polyploidy to increase fruit and flower size, and confer stress tolerance traits. Using a Brachypodium model system, researchers have sought to learn the origins, evolution and development of plant polyploids. The work recently appeared in Nature Communications.
Picking Up Threads of Cotton Genomics
High quality genomes of the five major cotton lineages have been assembled by a multi-institutional team and are available for comparative analysis on JGI’s plant data portal Phytozome. “The goal has been for all this new cotton work, and even the original cotton project was to try to bring in molecular methods of breeding into cotton,” said JGI Plant Program head Jeremy Schmutz.
Inspiring STEM Careers Through a Hands-on Everglades Microbiome Study
The pilot project between JGI and a Boca Raton Community High School class in Palm Beach County, Florida has led to a data report published in the journal Environmental Microbiome. The class focused on microbial communities in the Arthur R. Marshall Loxahatchee National Wildlife Refuge, a 226-square mile area of the northern Everglades.
All JGI Features
May 5, 2017
Stephen Mondo, DOE JGI analyst
Stephen Mondo, DOE JGI analyst