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Tracing the Evolution of Shiitake Mushrooms
Understanding Lentinula genomes and their evolution could provide strategies for converting plant waste into sugars for biofuel production. Additionally, these fungi play a role in the global carbon cycle.
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Soil Virus Offers Insight into Maintaining Microorganisms
Through a collaborative effort, researchers have identified a protein in soil viruses that may promote soil health.
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Streamlining Regulon Identification in Bacteria
Regulons are a group of genes that can be turned on or off by the same regulatory protein. RIViT-seq technology could speed up associating transcription factors with their target genes.
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Our Projects
Mapping Switchgrass Traits with Common Gardens
The combination of field data and genetic information has allowed researchers to associate climate adaptations with switchgrass biology.
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Expanding Metagenomics to Capture Viral Diversity
Along with highlighting the viruses in a given sample, metagenomics shed light on another key aspect of viruses in the environment — their sheer genetic diversity.
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Polar Phytoplankton Need Zinc to Cope with the Cold
As part of a long-term collaboration with the JGI Algal Program, researchers studying function and activity of phytoplankton genes in polar waters have found that these algae rely on dissolved zinc to photosynthesize.
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Data & Tools
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- MycoCosm
- PhycoCosm
- Phytozome
- GOLD
Silver Age of GOLD Introduces New Features
The Genomes OnLine Database makes curated microbiome metadata that follows community standards freely available and enables large-scale comparative genomics analysis initiatives.
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A Better Way to Find RNA Virus Needles in the Proverbial Database Haystacks
Researchers combed through more than 5,000 data sets of RNA sequences generated from diverse environmental samples around the world, resulting in a five-fold increase of RNA virus diversity.
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JGI Part of Berkeley Lab Team Awarded Best Use of HPC in Life Sciences
The HPCwire Editors Choice Award for Best Use of HPC in Life Sciences went to the Berkeley Lab team comprised of JGI and ExaBiome Project team, supported by the DOE Exascale Computing Project for MetaHipMer, an end-to-end genome assembler that supports “an unprecedented assembly of environmental microbiomes.”
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User Programs
Final Round of 2022 CSP Functional Genomics Awardees
Meet the final six researchers whose proposals were selected for the 2022 Community Science Program Functional Genomics call.
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JGI Announces First Round of 2023 New Investigator Awardees
Twice each year we look for novel research projects aligned with DOE missions and from PIs who have not led any previously-accepted proposals through the CSP New Investigator call.
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Digging into Microbial Ecosystems Deep Underground
JGI users and microbiome researchers at Colorado State University have many questions about the microbial communities deep underground, including the role viral infection may play in other natural ecosystems.
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News & Publications
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Exploring Possibilities: 2022 JGI-UC Merced Interns
The 2022 UC Merced intern cohort share how their summer internship experiences have influenced their careers in science.
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Using Team Science to Build Communities Around Data
As the data portals grow and evolve, the research communities further expand around them. But with two projects, communities are forming to generate high quality genomes to benefit researchers.
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Cow Rumen and the Early Days of Metagenomics
Tracing a cow rumen dataset from the lab to material for a hands-on undergraduate research course at CSU-San Marcos that has since expanded into three other universities.
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February 19, 2014

Eddy Rubin

Eddy Rubin, Joint Genome Institute (JGI) Director – 01/27/2014