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    New Research Finds Flagella in the Terrestrial Roots of Marine Bacteria
    Scientists have discovered flagella in an unexpected place: hot spring-dwelling bacteria. Research shows that flagella were lost in other forms of Chloroflexota that adapted to marine environments hundreds of millions of years ago

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    Sphagnum fallax (Image courtesy of Jonathan Shaw, Duke University)
    Sequencing Sphagnum Leads to Discovery of Sex Chromosomes
    Boggy peatlands are primarily made up of sphagnum mosses. New research illuminates the significant role sex plays in how the moss grows, stores carbon and responds to stress.

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    A vertical tree stump outdoors with about a dozen shiitake mushrooms sprouting from its surface.
    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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    Genome Insider: Methane Makers in Yosemite’s Lakes
    Meet researchers who sampled the microbial communities living in the mountaintop lakes of the Sierra Nevada mountains to see how climate change affects freshwater ecosystems, and how those ecosystems work.

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    Genome Insider: A Shrubbier Version of Rubber
    Hear from the consortium working on understanding the guayule plant's genome, which could lead to an improved natural rubber plant.

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    An underwater photo with a blue backdrop and a mineral formation erupting black, mineral-rich fluid.
    Shedding Light on Diversity in the Deep Sea
    Hydrothermal vents are too deep in the sea to get any sunlight, and yet they still support a unique array of microorganisms adapted to living in extreme conditions.Researchers studied microbial communities at these vents across five oceanic regions.

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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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    Illustration of a magnifying glass identifying viruses and plasmids.
    geNomad: Rapidly identifying mobile genetic elements
    geNomad builds on two standard techniques for identifying viruses and plasmids. It can identify millions of new viruses and plasmids quickly, even in massive datasets.

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    LISTEN: Natural Prodcast on the SMC
    Check out the JGI Secondary Metabolism Collaboratory (SMC), a new data portal for natural product biosynthetic gene clusters and meet Prodcast cohost Jackie Winter.

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    A series of headshots: From left to right: [above] Olivia Ahern, Adriana Corales, Hugh Cross, Megan DeMarche, Joanne Emerson, Matthew Hudson, Megan Keller and Julia Kelliher; [below] Vassili Kouvelis, Seppe Kuehn, Tesfaye Mengiste, Egbert Schwartz, Hannah Schulman, Bram Stone and Jana Voriskova
    2024 awardees for JGI Community Science Program annual call
    Learn about the 15 projects selected through the JGI's FY2024 Community Science Program Annual Call - and the investigators behind them.

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    Collage capturing a diverse set of bacteria and functions that can be better understood using DAP-seq. (Eduardo de Ugarte/Berkeley Lab)
    Enlarging Windows into Understanding Gene Functions
    Two approaches build up DAP-seq, which allows researchers to identify all the sites where transcription factors bind quickly and efficiently in the genome by adding tagged transcription factors to a genomic DNA library.

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    Green plant matter grows from the top, with the area just beneath the surface also visible as soil, root systems and a fuzzy white substance surrounding them.
    Supercharging SIP in the Fungal Hyphosphere
    Applying high-throughput stable isotope probing to the study of a particular fungi, researchers identified novel interactions between bacteria and the fungi.

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    A Decade On: The JGI-UC Merced Genomics Internship Program
    What started with 2 interns in the summer of 2014 has grown to 75 student alumni. Mentors, students and others gathered to reflect on the benefits of this partnership.

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    A tiled collage of square photos of different plants - soybeans, and sorghum, for example.
    A Collaboration to Improve Plant Genome Annotations Across Species
    The JGI Plant Gene Atlas is an updateable transcriptome resource spanning diverse plant species. The project spans 15 years and involves more than 17 research groups.

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    Pictured is a micrograph of Neocallimastix californiae.
    Busting the Unbreakable Lignin
    Turns out anaerobic fungi are actually capable of naturally modifying lignin. A study with the first real irrefutable proof that lignin can be deconstructed without oxygen.

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https://jgi.doe.gov/about-us/progress-report/2023-progress-report/
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REGISTER: Attend our April MGM Workshop!
https://jgi.doe.gov/genome-insider-s4-episode-6-many-many-mers/
LISTEN: The Megadata of Lake Mendota
https://jgi.doe.gov/scihi-eelgrass-proves-to-be-much-younger-that-we-thought/
HIGHLIGHT: Eelgrass proves to be much younger than we thought
https://jgi.doe.gov/release-nmpfcatalog/
NEWS: Doubling Down on Known Protein Families
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https://jgi.doe.gov/category/podcasts/
LISTEN to our Genome Insider and Natural Prodcast podcasts!

Latest News

April 8, 2024

An Inside Look at How Plants and Mycorrhizal Fungi Cooperate

March 26, 2024

Supercomputing, MetaHipMer and the Mega Dataset of Lake Mendota

March 21, 2024

Finding the Fermenters

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Science Highlights

March 21, 2024

Finding the Fermenters

Figure shows the sources harnessed to assemble a dataset to assemble fermentative prokaryotes.

Harnessing BER-funded data resources, researchers built an interactive and comprehensive database of fermentative prokaryotes. The Science Most organisms use oxygen to convert food into energy. However, in environments with little or no oxygen, life had found other ways to produce energy, … [Read More]

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