High-quality reference genome and annotation aids understanding of berry development for evergreen blueberry (Vaccinium darrowii).
Journal
Horticulture research
ISSN: 2662-6810
Titre abrégé: Hortic Res
Pays: England
ID NLM: 101655540
Informations de publication
Date de publication:
01 Nov 2021
01 Nov 2021
Historique:
received:
17
04
2021
accepted:
13
07
2021
revised:
22
06
2021
entrez:
1
11
2021
pubmed:
2
11
2021
medline:
2
11
2021
Statut:
epublish
Résumé
Vaccinium darrowii Camp (2n = 2x = 24) is a native North American blueberry species and an important source of traits such as low chill requirement in commercial southern highbush blueberry breeding (Vaccinium corymbosum, 2n = 4x = 48). We present a chromosomal-scale genome of V. darrowii generated by the combination of PacBio sequencing and high throughput chromatin conformation capture (Hi-C) scaffolding technologies, yielding a total length of 1.06 Gigabases (Gb). Over 97.8% of the genome sequences are scaffolded into 24 chromosomes representing the two haplotypes. The primary haplotype assembly of V. darrowii contains 34,809 protein-coding genes. Comparison to a V. corymbosum haplotype assembly reveals high collinearity between the two genomes with small intrachromosomal rearrangements in eight chromosome pairs. With small RNA sequencing, the annotation was further expanded to include more than 200,000 small RNA loci and 638 microRNAs expressed in berry tissues. Transcriptome analysis across fruit development stages indicates that genes involved in photosynthesis are downregulated, while genes involved in flavonoid and anthocyanin biosynthesis are significantly increased at the late stage of berry ripening. A high-quality reference genome and accompanying annotation of V. darrowii is a significant new resource for assessing the evergreen blueberry contribution to the breeding of southern highbush blueberries.
Identifiants
pubmed: 34719668
doi: 10.1038/s41438-021-00641-9
pii: 10.1038/s41438-021-00641-9
pmc: PMC8558335
doi:
Types de publication
Journal Article
Langues
eng
Pagination
228Subventions
Organisme : United States Department of Agriculture | Agricultural Research Service (USDA Agricultural Research Service)
ID : 0500-00093-001-00-D
Informations de copyright
© 2021. The Author(s).
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