The chromosome-level genome and functional database accelerate research about biosynthesis of secondary metabolites in Rosa roxburghii.
R. Roxburghii
Database
Functional annotation
Genome
Metabolites biosynthesis
Journal
BMC plant biology
ISSN: 1471-2229
Titre abrégé: BMC Plant Biol
Pays: England
ID NLM: 100967807
Informations de publication
Date de publication:
17 May 2024
17 May 2024
Historique:
received:
20
11
2023
accepted:
05
05
2024
medline:
18
5
2024
pubmed:
18
5
2024
entrez:
17
5
2024
Statut:
epublish
Résumé
Rosa roxburghii Tratt, a valuable plant in China with long history, is famous for its fruit. It possesses various secondary metabolites, such as L-ascorbic acid (vitamin C), alkaloids and poly saccharides, which make it a high nutritional and medicinal value. Here we characterized the chromosome-level genome sequence of R. roxburghii, comprising seven pseudo-chromosomes with a total size of 531 Mb and a heterozygosity of 0.25%. We also annotated 45,226 coding gene loci after masking repeat elements. Orthologs for 90.1% of the Complete Single-Copy BUSCOs were found in the R. roxburghii annotation. By aligning with protein sequences from public platform, we annotated 85.89% genes from R. roxburghii. Comparative genomic analysis revealed that R. roxburghii diverged from Rosa chinensis approximately 5.58 to 13.17 million years ago, and no whole-genome duplication event occurred after the divergence from eudicots. To fully utilize this genomic resource, we constructed a genomic database RroFGD with various analysis tools. Otherwise, 69 enzyme genes involved in L-ascorbate biosynthesis were identified and a key enzyme in the biosynthesis of vitamin C, GDH (L-Gal-1-dehydrogenase), is used as an example to introduce the functions of the database. This genome and database will facilitate the future investigations into gene function and molecular breeding in R. roxburghii.
Identifiants
pubmed: 38760710
doi: 10.1186/s12870-024-05109-1
pii: 10.1186/s12870-024-05109-1
doi:
Types de publication
Journal Article
Langues
eng
Sous-ensembles de citation
IM
Pagination
410Subventions
Organisme : National Natural Science Foundation of China
ID : NO.32160139
Organisme : National Natural Science Foundation of China
ID : NO.32260140
Organisme : the University Science and Technology Innovation Team of the Guizhou Provincial Department of Education
ID : [2023]071
Organisme : the University Science and Technology Innovation Team of the Guizhou Provincial Department of Education
ID : [2023]071
Organisme : the Guizhou Provincial Science and Technology Projects
ID : ZK[2022]505
Organisme : the Guizhou Provincial Science and Technology Projects
ID : ZK[2022]505
Organisme : the National and Provincial Scientific and Technological Innovation Talent Team of the Guizhou University of Traditional Chinese Medicine
ID : GZYTDHZ[2022]003
Organisme : the National and Provincial Scientific and Technological Innovation Talent Team of the Guizhou University of Traditional Chinese Medicine
ID : GZYTDHZ[2022]003
Organisme : Guizhou Provincial Basic Research Program (Natural Science) under Grant number Qianke He Foundation
ID : ZK[2022] General 506
Organisme : Guizhou University of Traditional Chinese Medicine Graduate Education Innovation Program
ID : YCXJYS2023033
Informations de copyright
© 2024. The Author(s).
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