A De Novo Chromosome-Level Genome Assembly of the White-Tailed Deer, Odocoileus Virginianus.
Illumina
Omni-C
Pacific Biosciences
annotation
haploid
non-model species
Journal
The Journal of heredity
ISSN: 1465-7333
Titre abrégé: J Hered
Pays: United States
ID NLM: 0375373
Informations de publication
Date de publication:
23 07 2022
23 07 2022
Historique:
received:
13
12
2021
accepted:
05
05
2022
pubmed:
6
5
2022
medline:
27
7
2022
entrez:
5
5
2022
Statut:
ppublish
Résumé
Cervids are distinguished by the shedding and regrowth of antlers. Furthermore, they provide insights into prion and other diseases. Genomic resources can facilitate studies of the genetic underpinnings of deer phenotypes, behavior, and disease resistance. Widely distributed in North America, the white-tailed deer (Odocoileus virginianus) has recreational, commercial, and food source value for many households. We present a genome generated using DNA from a single Illinois white-tailed sequenced on the PacBio Sequel II platform and assembled using Wtdbg2. Omni-C chromatin conformation capture sequencing was used to scaffold the genome contigs. The final assembly was 2.42 Gb, consisting of 508 scaffolds with a contig N50 of 21.7 Mb, a scaffold N50 of 52.4 Mb, and a BUSCO complete score of 93.1%. Thirty-six chromosome pseudomolecules comprised 93% of the entire sequenced genome length. A total of 20 651 predicted genes using the BRAKER pipeline were validated using InterProScan. Chromosome length assembly sequences were aligned to the genomes of related species to reveal corresponding chromosomes.
Identifiants
pubmed: 35511871
pii: 6578684
doi: 10.1093/jhered/esac022
pmc: PMC9308042
doi:
Types de publication
Journal Article
Research Support, Non-U.S. Gov't
Research Support, U.S. Gov't, Non-P.H.S.
Langues
eng
Sous-ensembles de citation
IM
Pagination
479-489Subventions
Organisme : U.S. Fish and Wildlife Service
Organisme : Illinois Natural History Survey
Organisme : Prairie Research Institute
Organisme : University of Illinois at Urbana-Champaign
Informations de copyright
© The American Genetic Association. 2022.
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