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A highly contiguous genome assembly for the Yellow Warbler (Setophaga petechia).
Tsai, Whitney L E; Escalona, Merly; Garrett, Kimball L; Terrill, Ryan S; Sahasrabudhe, Ruta; Nguyen, Oanh; Beraut, Eric; Seligmann, William; Fairbairn, Colin W; Harrigan, Ryan J; McCormack, John E; Alfaro, Michael E; Smith, Thomas B; Bay, Rachael A.
Affiliation
  • Tsai WLE; Department of Ecology and Evolutionary Biology, University of California, Los Angeles, CA 90095, United States.
  • Escalona M; Moore Laboratory of Zoology, Biology Department, Occidental College, Los Angeles, CA 90041, United States.
  • Garrett KL; Department of Biomolecular Engineering, University of California, Santa Cruz, CA 95064, United States.
  • Terrill RS; Ornithology Department, Natural History Museum of Los Angeles County, Los Angeles, CA 90007, United States.
  • Sahasrabudhe R; Moore Laboratory of Zoology, Biology Department, Occidental College, Los Angeles, CA 90041, United States.
  • Nguyen O; DNA Technologies and Expression Analysis Core Laboratory, Genome Center, University of California, Davis, CA 95616, United States.
  • Beraut E; DNA Technologies and Expression Analysis Core Laboratory, Genome Center, University of California, Davis, CA 95616, United States.
  • Seligmann W; Department of Ecology and Evolutionary Biology, University of California, Santa Cruz, CA 95064, United States.
  • Fairbairn CW; Department of Ecology and Evolutionary Biology, University of California, Santa Cruz, CA 95064, United States.
  • Harrigan RJ; Department of Ecology and Evolutionary Biology, University of California, Santa Cruz, CA 95064, United States.
  • McCormack JE; Department of Ecology and Evolutionary Biology, University of California, Los Angeles, CA 90095, United States.
  • Alfaro ME; Moore Laboratory of Zoology, Biology Department, Occidental College, Los Angeles, CA 90041, United States.
  • Smith TB; Department of Ecology and Evolutionary Biology, University of California, Los Angeles, CA 90095, United States.
  • Bay RA; Department of Ecology and Evolutionary Biology, University of California, Los Angeles, CA 90095, United States.
J Hered ; 115(3): 317-325, 2024 May 09.
Article in En | MEDLINE | ID: mdl-38401156
ABSTRACT
The Yellow Warbler (Setophaga petechia) is a small songbird in the wood-warbler family (Parulidae) that exhibits phenotypic and ecological differences across a widespread distribution and is important to California's riparian habitat conservation. Here, we present a high-quality de novo genome assembly of a vouchered female Yellow Warbler from southern California. Using HiFi long-read and Omni-C proximity sequencing technologies, we generated a 1.22 Gb assembly including 687 scaffolds with a contig N50 of 6.80 Mb, scaffold N50 of 21.18 Mb, and a BUSCO completeness score of 96.0%. This highly contiguous genome assembly provides an essential resource for understanding the history of gene flow, divergence, and local adaptation in Yellow Warblers and can inform conservation management of this charismatic bird species.
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Full text: 1 Collection: 01-internacional Database: MEDLINE Main subject: Genome / Songbirds Limits: Animals Country/Region as subject: America do norte Language: En Journal: J Hered Year: 2024 Document type: Article Affiliation country: United States
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Add to My VHL
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Full text: 1 Collection: 01-internacional Database: MEDLINE Main subject: Genome / Songbirds Limits: Animals Country/Region as subject: America do norte Language: En Journal: J Hered Year: 2024 Document type: Article Affiliation country: United States