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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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    Data yielded from RIViT-seq increased the number of sigma factor-gene pairs confirmed in Streptomyces coelicolor from 209 to 399. Here, grey arrows denote previously known regulation and red arrows are regulation identified by RIViT-seq; orange nodes mark sigma factors while gray nodes mark other genes. (Otani, H., Mouncey, N.J. Nat Commun 13, 3502 (2022). https://doi.org/10.1038/s41467-022-31191-w)
    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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    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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    Artist rendering of genome standards being applied to deciphering the extensive diversity of viruses. (Illustration by Leah Pantea)
    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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    Photograph of a stream of diatoms beneath Arctic sea ice.
    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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    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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    Graphical overview of the RNA Virus MetaTranscriptomes Project. (Courtesy of Simon Roux)
    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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    HPCwire Editor's Choice Award (logo crop) for Best Use of HPC in the Life Sciences
    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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    Digital ID card with six headshots reads: Congratulations to our 2022 Function Genomics recipients!
    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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    CSP New Investigators FY23 R1
    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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    screencap from Amundson and Wilkins subsurface microbiome video
    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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    2022 JGI-UC Merced interns (Thor Swift/Berkeley Lab)
    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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Our Projects
Home › Poplar
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September 14, 2021

Genome Insider S2 Episode 7: THE Bioenergy Tree

Logo of Genome Insider, podcast of the Joint Genome InstituteScientists are uncovering the poplar tree’s genetic secrets, bringing us closer to a sustainable source of bioenergy and materials. [Read More]

August 20, 2019

Fungus Fuels Tree Growth

Poplar cuttings inoculated with M. elongata strain PM193 (far right) grow larger in 30 percent forest soil / 70 percent sand than without PM193 (middle). On the left are controls grown in sterile sand. (Chih-Ming Hsu)A better understanding of how poplar responds to endophyte associations with endophytes enables scientists to fine-tune their engineering efforts. [Read More]

September 15, 2016

The Poplar Genome at 10

Then and now: our poplar tree has grown from less than four feet to more than forty feet in 10 years.The poplar genome paper has been cited some 1,900 times since its 2006 publication in Science, but that’s not the only way to measure its impact. [Read More]

March 24, 2015

Identifying causes of poplar canker

Cankers caused by the fungal tree pathogen M. populorum on poplar stems. (T.H. Filer Jr., USDA, Bugwood.org CC BY-NC-3.0)Researchers compared two fungal tree pathogens to find out how one of them has gained the capability to significantly damage hybrid poplar plantations. [Read More]

August 24, 2014

Signatures of Selection Inscribed on Poplar Genomes

Boardman OR poplar plantationA Nature Genetics study describes a method that could be harnessed for developing more accurate predictive climate change models. [Read More]

November 7, 2013

Why Sequence Poplar Leaf Rust?

The Populus (poplar tree) genome has been publicly released by the JGI, and the genomes of its symbiotic fungal associates Laccaria bicolor and Glomus intraradices are near completion. As part of the development of a broader community-based Populus genomics resource, and as a means of conducting informative comparative genomics among fungi, JGI will be sequencing… [Read More]

March 22, 2013

Large toolset for detecting genetic variation in poplars

Beyond their status as a fast-growing candidate biofuels feedstock. [Read More]

November 2, 2012

The poplar genome’s impact, a decade on

During his keynote speech at the DOE Joint Genome Institute’s Annual Genomics of Energy & Environment Meeting, science writer Carl Zimmer discussed the status of personalized medicine following the completion of the Human Genome Project. In an article published online October 25, 2012 in Tree Physiology, researchers including Oak Ridge National Laboratory’s Jerry Tuskan present a similar… [Read More]

August 17, 2012

Drifting Poplar Populations Inform Breeding Strategies

Since the publication of the genome sequence of the first tree, the black cottonwood or poplar Populustrichocarpain 2006 by the DOE Joint Genome Institute, a growing community of researchers have been engaged in advancing the development of poplar as a candidatefeedstockfornext-generationbiofuelsowing to the tree’s compact genome, rapid growth and life cycle. One area of study… [Read More]

October 28, 2011

Tension wood study helps tailors bioenergy feedstock

Researchers focus on tension wood in linking phenotypic and genotypic data to the lignocellulosic challenges presented in converting poplar biomass to sugars for biofuels production.  [Read More]
Page 1 of 212»

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