ArticleCell reports2023
A chromosome-level reference genome and pangenome for barn swallow population genomics.
Article in Cell reports, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 18 papers.
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Who cites it
18 citing papers in PubMed.
- A pangenome framework uncovers the role of deletions in repeated evolution of cave-derived traits.Genome research · 2026Article
- Mitogenomes Reveal Novel Phylogeographic Patterns and Temporal Evolutionary History of Barn Swallows and Close Relatives.International journal of molecular sciences · 2026Article
- The Vertebrate Genomes Project Phase I: A global reference genome resource.bioRxiv : the preprint server for biology · 2026Article
- Chromosome-level genome assembly of the sand martin (Riparia riparia).Scientific data · 2026Article
- Recombination Rate and Recurrent Linked Selection Shape Correlated Genomic Landscapes Across a Continuum of Divergence in Swallows.Molecular ecology · 2025Article
- The complete genome of a songbird.bioRxiv : the preprint server for biology · 2025Article
- Overcoming limitations to customize DeepVariant for domesticated animals with TrioTrain.Genome research · 2025Article
- Lake Malawi cichlid pangenome graph reveals extensive structural variation driven by transposable elements.Genome research · 2025Article
- A Hitchhiker's Guide to long-read genomic analysis.Genome research · 2025Review
- Extreme genetic signatures of local adaptation in a notorious rice pest,National science review · 2025Article
- Pangenome graphs and their applications in biodiversity genomics.Nature genetics · 2025Review
- A chromosome-level genome assembly of the Asian house martin implies potential genes associated with the feathered-foot trait.G3 (Bethesda, Md.) · 2024Article
- A genomic basis of vocal rhythm in birds.Nature communications · 2024Article
- Overcoming Limitations to Deep Learning in Domesticated Animals with TrioTrain.bioRxiv : the preprint server for biology · 2024Article
- Chromosome level genome assembly of the Etruscan shrew Suncus etruscus.Scientific data · 2024Article
- Review
- A pangenome graph reference of 30 chicken genomes allows genotyping of large and complex structural variants.BMC biology · 2023Article
- Gene presence/absence variation iniScience · 2023Article
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Authors and funding
39 authors.
Funding
Abstract
Insights into the evolution of non-model organisms are limited by the lack of reference genomes of high accuracy, completeness, and contiguity. Here, we present a chromosome-level, karyotype-validated reference genome and pangenome for the barn swallow (Hirundo rustica). We complement these resources with a reference-free multialignment of the reference genome with other bird genomes and with the most comprehensive catalog of genetic markers for the barn swallow. We identify potentially conserved and accelerated genes using the multialignment and estimate genome-wide linkage disequilibrium using the catalog. We use the pangenome to infer core and accessory genes and to detect variants using it as a reference. Overall, these resources will foster population genomics studies in the barn swallow, enable detection of candidate genes in comparative genomics studies, and help reduce bias toward a single reference genome.
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