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  • A Fight for Survival: The First Reference Genome of the Endangered Butternut Tree

    In a recent pre-print, a chromosome-scale reference genome for the endangered butternut (Juglans cinerea), or white walnut, has been described for the first time. The accomplishment brings new hope for conserving this vital species, which is threatened by a lethal fungal disease.

    A Triumph of Technology
    With advancements in third-generation sequencing technologies becoming more affordable and accurate, it's now feasible to sequence and assemble genomes for species of conservation concern. Researchers and students at the University of Connecticut, working with industry and federal agencies, have applied these techniques to decode the genome of the butternut tree.

    The Endangered Butternut
    Commonly known as butternut or white walnut, Juglans cinerea is a member of the walnut family native to the Eastern United States and Southeastern Canada. Currently listed as Endangered on the IUCN Red List, the species has suffered a decline due to an invasive fungus known as Ophiognomonia clavigignenti-juglandacearum (Oc-j) that causes butternut canker. This fungus creates sores on the tree trunks, slowly starving and killing the trees. Natural resistance to this pathogen is rare, making conservation efforts crucial for this species, known for its ecological importance and cultural significance.

    The Fight Against Extinction
    Earth's sixth mass extinction event is already underway, threatening nearly 30% of the species assessed, including about 30% of trees. Butternut's decline is part of this broader crisis, driven by factors like habitat destruction, overexploitation, pollution, and climate change. By the 1990s, the fungus had already killed more than 80% of butternut trees in numerous states, threatening the species with extinction.

    Bridging the Conservation Genetics Gap
    The lack of genomic resources for threatened species has hindered the advancement of tool development and implementation in conservation. The newly described reference genome bridges this "conservation genetics gap," providing valuable insights for restoration plans and assisted breeding.

    A Collaborative Effort
    The chromosome-scale 539 Mb assembly was generated using Oxford Nanopore technology and scaffolded with the Juglans mandshurica genome. The scaffolding process oriented and ordered the sequences in a manner that represents the structure of the genome without altering the sequence. This study was part of an integrated training program involving undergraduate and graduate students in biodiversity and conservation genomics. The intersection of academia, industry (Oxford Nanopore), federal research agencies (USDA Forest Service, Canadian Forest Service), and forest tree conservation (Morton Arboretum) marked this collaborative endeavor.

    Future Prospects
    The construction of Juglans cinerea's first high-quality reference genome sets the stage for further studies and conservation strategies informed by genetics. By understanding the genetic underpinnings of this species, experts hope to uncover new pathways to fight butternut canker and conserve native germplasm.

    The scientific community celebrates this milestone, recognizing the potential of genomics in the battle against extinction. The interdisciplinary collaboration showcases the promising path that lies ahead in the integration of genomic tools for conservation and restoration. The future looks a little brighter for the butternut tree, thanks to the determined efforts of the researchers who have unlocked its genetic secrets.
    ​

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