The reference genome of the Vernal Pool Tadpole Shrimp, Lepidurus packardi.
CCGP
California Conservation Genomics Project
branchiopod
notostraca
triops
Journal
The Journal of heredity
ISSN: 1465-7333
Titre abrégé: J Hered
Pays: United States
ID NLM: 0375373
Informations de publication
Date de publication:
30 11 2022
30 11 2022
Historique:
received:
16
08
2022
accepted:
07
09
2022
pubmed:
10
9
2022
medline:
2
12
2022
entrez:
9
9
2022
Statut:
ppublish
Résumé
In this paper, we report on the scaffold-level assembled genome for the federally endangered, California endemic crustacean Lepidurus packardi (the Vernal Pool Tadpole Shrimp). L. packardi is a key food source for other conserved California species including the California Tiger Salamander Ambystoma californiense. It faces significant habitat loss and fragmentation as vernal pools are threatened by urbanization, agricultural conversion, and climate change. This resource represents the first scaffold-level genome of any Lepidurus species. The assembled genome spans 108.6 Mbps, with 6 chromosome-length scaffolds comprising 71% of total genomic length and 444 total contigs. The BUSCO score for this genome is 97.3%, suggesting a high level of completeness. We produced a predicted gene set for this species trained on the Daphnia magna set of genes and predicted 17,650 genes. These tools can aid researchers in understanding the evolution and adaptive potential of alternative reproductive modes within this species.
Identifiants
pubmed: 36082700
pii: 6694764
doi: 10.1093/jhered/esac051
pmc: PMC9709966
doi:
Types de publication
Journal Article
Research Support, N.I.H., Extramural
Research Support, U.S. Gov't, Non-P.H.S.
Research Support, Non-U.S. Gov't
Langues
eng
Sous-ensembles de citation
IM
Pagination
706-711Subventions
Organisme : NIH HHS
ID : S10 OD010786
Pays : United States
Informations de copyright
© The American Genetic Association. 2022.
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