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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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    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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    A panoramic view of a lake reflecting a granite mountain.
    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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    The switchgrass diversity panel growing at the Kellogg Biological Station in Michigan. (David Lowry)
    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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    iPHoP image (Simon Roux)
    iPHoP: A Matchmaker for Phages and their Hosts
    Building on existing virus-host prediction approaches, a new tool combines and evaluates multiple predictions to reliably match viruses with their archaea and bacteria hosts.

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    Abstract image of gold lights and squares against a black backdrop
    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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    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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    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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    croppe image of the JGI helix sculpture
    Tips for a Winning Community Science Program Proposal
    In the Genome Insider podcast, tips to successfully avail of the JGI's proposal calls, many through the Community Science Program.

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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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    image from gif that shows where in the globe JGI fungal collaborators are located.
    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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Home › Items tagged with: 2022-progress-sci-highlight

Content Tagged "2022-progress-sci-highlight"

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November 18, 2021

Marine Microbe Contains Multitudes

Boeuf and colleagues collected samples of SAR324 microbial communities from this research vessel, the Kilo Moana. (School of Ocean And Earth Science And Technology at University of Hawaii at Manoa)A deep dive into microbial genomics reveals one bacterial species is made of four ecologically distinct groups with different lifestyles. [Read More]

October 26, 2021

The Case for Conservation

Female (left) and male (right) Ceratodon purpureus plants. Females typically grow larger than males in several traits, like the length of leaves. Males often turn red when developing antheridiophores, which in mosses are the structures that produce sperm (seen in the bottom right. (Sarah Carey)High-quality reference genome sequences of the male and female fire moss plants are now available, and lessons from their sex chromosomes could help improve crop yields. [Read More]

September 22, 2021

Plotting a Model for Virus-Host Warfare Deep Below Ground

Image of biofilm with both Altiarchaea (blue) and viruses (red). (Victoria Turzynksi and Lea Griesdorn)Researchers describe how viruses repeatedly attempt to infect and destroy their hosts – and how the microbes resist. [Read More]

September 16, 2021

Climate Change Threatens Base of Polar Oceans’ Bountiful Food Webs

Scientists sample a brown mat of aggregated phytoplankton. (Katrin Schmidt)A study suggests climate change is behind a trend that could destabilize the delicate marine food web. [Read More]

August 27, 2021

Boosting Small Molecule Production in Super “Soup”

Yeast strains engineered for the biochemical conversion of glucose to value-added products are limited in chemical output due to growth and viability constraints. Cell extracts provide an alternative format for chemical synthesis in the absence of cell growth by isolating the soluble components of lysed cells. By separating the production of enzymes (during growth) and the biochemical production process (in cell-free reactions), this framework enables biosynthesis of diverse chemical products at volumetric productivities greater than the source strains. (Blake Rasor)Researchers describe a two-pronged approach that starts with engineered yeast cells but then moves out of the cell structure into a cell-free system. [Read More]

August 2, 2021

Designer DNA: JGI Helps Users Blaze New Biosynthetic Pathways

(PXFuel)A special issue of Synthetic Biology celebrates research enabled by the JGI DNA Synthesis Science Program. [Read More]

June 25, 2021

A Natural Mechanism Can Turbocharge Viral Evolution

Virus tail fibers – signified in the cartoon by the blue virus’ downward pointing ‘arms’— don't allow the virus to attach to a purple tinted cell type.A genetic element that enables rapid, targeted mutation is surprisingly widespread and appears to allow viruses to hunt new microbial prey. [Read More]

June 3, 2021

Refining the Process of Identifying Algae Biotechnology Candidates

Algae growing in a bioreactor. (Dennis Schroeder, NREL)A collaborative approach highlights how a screening and characterization pipeline could help accelerate algae biotechnology research efforts. [Read More]

May 20, 2021

Olpidium, The Key to the Origin of Terrestrial Fungi

From Sekimoto et al., 2011: Olpidium bornovanus, a unicellular fungus, is an obligate parasite of plants that reproduces with flagellated, swimming zoospores. A-B. Vegetative unicellular thalli in cucumber root cells. Thalli differentiate into sporangia with zoospores, or into resting spores. C. An empty sporangium, after zoospore release. D. A thick-walled resting spore. E. Zoospores being released from a sporangium, showing the sporangium exit tube (arrowheads). F. A swimming zoospore with a single posterior flagellum. G. An encysted zoospore. Bars: A-E = 10 μm; F,G = 5 μm. (Figures are from Sekimoto et. al., 2011 used under a Creative Commons Attribution 2.0 License.)In this guest blog: a behind-the-paper look at the fungus Olpidium, a link in the evolution and transition of fungi from aquatic to terrestrial habitats. [Read More]

April 30, 2021

Bacteria and Fungi Divvy Up the Work in Forest Floor

The study site in the coniferous forest located in the Bohemian Forest National Park, Czech Republic. (Petr Baldrian)While thousands of species of fungi and bacteria dwell on — and within — the forest floor, who’s recycling the plant biomass? [Read More]
Page 1 of 212»

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