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Conserving a threatened North American walnut: a chromosome-scale reference genome for butternut (Juglans cinerea).
Guzman-Torres, Cristopher R; Trybulec, Emily; LeVasseur, Hannah; Akella, Harshita; Amee, Maurice; Strickland, Emily; Pauloski, Nicole; Williams, Martin; Romero-Severson, Jeanne; Hoban, Sean; Woeste, Keith; Pike, Carolyn C; Fetter, Karl C; Webster, Cynthia N; Neitzey, Michelle L; O'Neill, Rachel J; Wegrzyn, Jill L.
Afiliación
  • Guzman-Torres CR; Department of Ecology and Evolutionary Biology, University of Connecticut, Storrs, CT 06269, USA.
  • Trybulec E; Institute for Systems Genomics, University of Connecticut, Storrs, CT 06269, USA.
  • LeVasseur H; Institute for Systems Genomics, University of Connecticut, Storrs, CT 06269, USA.
  • Akella H; Department of Molecular and Cell Biology, University of Connecticut, Storrs, CT 06269, USA.
  • Amee M; Department of Ecology and Evolutionary Biology, University of Connecticut, Storrs, CT 06269, USA.
  • Strickland E; Institute for Systems Genomics, University of Connecticut, Storrs, CT 06269, USA.
  • Pauloski N; Department of Ecology and Evolutionary Biology, University of Connecticut, Storrs, CT 06269, USA.
  • Williams M; Institute for Systems Genomics, University of Connecticut, Storrs, CT 06269, USA.
  • Romero-Severson J; Department of Ecology and Evolutionary Biology, University of Connecticut, Storrs, CT 06269, USA.
  • Hoban S; Institute for Systems Genomics, University of Connecticut, Storrs, CT 06269, USA.
  • Woeste K; Department of Ecology and Evolutionary Biology, University of Connecticut, Storrs, CT 06269, USA.
  • Pike CC; Institute for Systems Genomics, University of Connecticut, Storrs, CT 06269, USA.
  • Fetter KC; Department of Molecular and Cell Biology, University of Connecticut, Storrs, CT 06269, USA.
  • Webster CN; Atlantic Forestry Center, Canadian Forest Service, Natural Resources Canada, Fredericton, NB E3B 5P7, Canada.
  • Neitzey ML; Department of Biological Sciences, University of Notre Dame, Notre Dame, IN 46556, USA.
  • O'Neill RJ; The Center for Tree Science, The Morton Arboretum, Lisle, IL 60532, USA.
  • Wegrzyn JL; USDA Forest Service, Northern Research Station, West Lafayette, IN 47906, USA.
G3 (Bethesda) ; 14(2)2024 Feb 07.
Article en En | MEDLINE | ID: mdl-37703053
With the advent of affordable and more accurate third-generation sequencing technologies, and the associated bioinformatic tools, it is now possible to sequence, assemble, and annotate more species of conservation concern than ever before. Juglans cinerea, commonly known as butternut or white walnut, is a member of the walnut family, native to the Eastern United States and Southeastern Canada. The species is currently listed as Endangered on the IUCN Red List due to decline from an invasive fungus known as Ophiognomonia clavigignenti-juglandacearum (Oc-j) that causes butternut canker. Oc-j creates visible sores on the trunks of the tree which essentially starves and slowly kills the tree. Natural resistance to this pathogen is rare. Conserving butternut is of utmost priority due to its critical ecosystem role and cultural significance. As part of an integrated undergraduate and graduate student training program in biodiversity and conservation genomics, the first reference genome for Juglans cinerea is described here. This chromosome-scale 539 Mb assembly was generated from over 100 × coverage of Oxford Nanopore long reads and scaffolded with the Juglans mandshurica genome. Scaffolding with a closely related species oriented and ordered the sequences in a manner more representative of the structure of the genome without altering the sequence. Comparisons with sequenced Juglandaceae revealed high levels of synteny and further supported J. cinerea's recent phylogenetic placement. Comparative assessment of gene family evolution revealed a significant number of contracting families, including several associated with biotic stress response.
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Texto completo: 1 Colección: 01-internacional Base de datos: MEDLINE Asunto principal: Juglans Límite: Humans País/Región como asunto: America do norte Idioma: En Revista: G3 (Bethesda) Año: 2024 Tipo del documento: Article País de afiliación: Estados Unidos Pais de publicación: Reino Unido
Texto completo
Añadir a Mi BVS
Imprimir
XML
PubMed Links
Buscar en Google

Texto completo: 1 Colección: 01-internacional Base de datos: MEDLINE Asunto principal: Juglans Límite: Humans País/Región como asunto: America do norte Idioma: En Revista: G3 (Bethesda) Año: 2024 Tipo del documento: Article País de afiliación: Estados Unidos Pais de publicación: Reino Unido