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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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    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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    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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    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: bioenergy

Content Tagged "bioenergy"

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August 10, 2009

Sequencing a winemaker’s nemesis

Wineries have tried a number of different chemical mixtures to ward off infection, but none have proven fully effective. Phister believes the genome will provide answers on how brettanomyces survives the initial battle with saccharomyces, how it spreads so fast and, ultimately, on how to stop it. To decode the brettanomyces genome, Phister will work… [Read More]

August 6, 2009

Berkeley Lab’s Additional $40.3M ARRA Funding benefits DOE JGI

The U.S. Department of Energy (DOE) has announced that the Lawrence Berkeley National Laboratory (Berkeley Lab) will receive $40.3 million in funding from the American Recovery and Reinvestment Act to support research in biofuels, fusion energy and the nation’s power grid and to ensure scientists have state-of-the-art equipment for their investigations…. Specifically, the $40.3 million… [Read More]

July 14, 2009

JGI/AgResearch collaboration on TVNZ

New Zealand scientists trying to find a cost-effective way of reducing livestock emissions of major greenhouse gases, nitrous oxide and methane, are to be given a helping hand by American researchers. The US Department of Energy’s joint genome institute (JGI) is helping researchers have the DNA of microbes in the forestomach (rumen) of livestock animals… [Read More]

July 14, 2009

Texan termite hindgut project part of JGI’s CSP 2010

Dr. Jorge Rodrigues, a University of Texas at Arlington microbiologist, has been selected for a highly competitive genome sequencing project by the U.S. Department of Energy Joint Genome Institute. Rodrigues will sequence the genome of a microorganism isolated from a termite’s hindgut as part of an effort to identify solutions to climate change. The Joint… [Read More]

July 14, 2009

Nikos Kyrpides on microbial genomics

Microbes contribute to manifold human endeavors ranging from bioenergy to agriculture to medicine. Moreover, they make the Earth’s biogeochemical cycles go round, a prerequisite for all life on the planet. Exceedingly numerous, they are also extremely diverse, encompassing most of Earth’s total biodiversity. So it should come as no surprise to find that two-thirds of… [Read More]

July 7, 2009

Community genome project on MSNBC

The genomes of 17 different ants, fungi and bacteria that eat through hundreds of pounds of leaf matter a year could ultimately lead to new techniques for making biofuels. Scientists from the University of Wisconsin, the Joint Genome Institute and Emory University are sequencing the first-ever community genome, searching for clues to how what’s essentially… [Read More]

July 6, 2009

JGI on Forbes.com

Unraveling Genes Walnut Creek, Calif. Another Silicon Valley scientific attraction has little to do with the innards of computers, and everything to do with the building blocks of humans. At laboratories like the Joint Genome Institute, the human genome was deciphered. The techniques used for the Human Genome Project are now applied to fish, animals,… [Read More]

July 1, 2009

GenomeWeb’s InSequence looks at CSP 2010 projects

Both 454’s and Illumina’s sequencing technologies will play important roles in 71 new genomic sequencing projects that the Department of Energy’s Joint Genome Institute announced yesterday for its 2010 Community Sequencing Program. According to a statement from the Walnut Creek, Calif.-based institute, JGI’s “recent transition to new sequencing technologies” has almost quintupled the amount of… [Read More]

July 1, 2009

AgResearch release on CSP 2010 as reported by Scoop

Biofuel production from agricultural wastes and more food from ruminant animals with lower environmental impacts are more likely now AgResearch has successfully applied to a prestigious US institution to have the DNA of microbes within the forestomach (rumen) of these animals sequenced. AgResearch scientists Christina Moon, Graeme Attwood and their team applied to the US… [Read More]

July 1, 2009

CSP 2010 release on Bionity.com

The U.S. Department of Energy (DOE) Joint Genome Institute (JGI) has selected 71 new genomic sequencing projects for its 2010 Community Sequencing Program (CSP) — a targeted sampling of the planet’s biodiversity — to be characterized for bioenergy, climate, and environmental applications. JGI’s Community Sequencing Program is the largest genomic sequencing effort in the world… [Read More]
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