Genome assemblies and comparison of two Neotropical spiral gingers: Costus pulverulentus and C. lasius.
genome resources
herbaceous
monocot
synteny
tropical plant
Journal
The Journal of heredity
ISSN: 1465-7333
Titre abrégé: J Hered
Pays: United States
ID NLM: 0375373
Informations de publication
Date de publication:
25 05 2023
25 05 2023
Historique:
received:
22
02
2023
accepted:
15
03
2023
medline:
29
5
2023
pubmed:
18
3
2023
entrez:
17
3
2023
Statut:
ppublish
Résumé
The spiral gingers (Costus L.) are a pantropical genus of herbaceous perennial monocots; the Neotropical clade of Costus radiated rapidly in the past few million years into over 60 species. The Neotropical spiral gingers have a rich history of evolutionary and ecological research that can motivate and inform modern genetic investigations. Here, we present the first 2 chromosome-level genome assemblies in the genus, for C. pulverulentus and C. lasius, and briefly compare their synteny. We assembled the C. pulverulentus genome from a combination of short-read data, Chicago and Dovetail Hi-C chromatin-proximity sequencing, and alignment with a linkage map. We annotated the genome by mapping a C. pulverulentus transcriptome and querying mapped transcripts against a protein database. We assembled the C. lasius genome with Pacific Biosciences HiFi long reads and alignment to the C. pulverulentus genome. These 2 assemblies are the first published genomes for non-cultivated tropical plants. These genomes solidify the spiral gingers as a model system and will facilitate research on the poorly understood genetic basis of tropical plant diversification.
Identifiants
pubmed: 36928286
pii: 7078863
doi: 10.1093/jhered/esad018
pmc: PMC10212132
doi:
Banques de données
Dryad
['10.5061/dryad.cfxpnvx94']
Types de publication
Journal Article
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
286-293Informations de copyright
© The American Genetic Association. 2023.
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