A chromosome-level reference genome and pangenome for barn swallow population genomics.
Cell Rep
; 42(1): 111992, 2023 01 31.
Article
in En
| MEDLINE
| ID: mdl-36662619
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.
Key words
Full text:
1
Collection:
01-internacional
Database:
MEDLINE
Main subject:
Swallows
Limits:
Animals
Language:
En
Journal:
Cell Rep
Year:
2023
Document type:
Article
Affiliation country:
Cyprus
Publication country:
EEUU
/
ESTADOS UNIDOS
/
ESTADOS UNIDOS DA AMERICA
/
EUA
/
UNITED STATES
/
UNITED STATES OF AMERICA
/
US
/
USA