Genome-wide analysis and identification of Carotenoid Cleavage Oxygenase (CCO) gene family in coffee (coffee arabica) under abiotic stress.
Stress, Physiological
/ genetics
Oxygenases
/ genetics
Coffea
/ genetics
Phylogeny
Multigene Family
Gene Expression Regulation, Plant
Plant Proteins
/ genetics
Dioxygenases
/ genetics
Genome, Plant
/ genetics
Coffee
/ genetics
Promoter Regions, Genetic
/ genetics
Carotenoids
/ metabolism
Genome-Wide Association Study
CCO genes
Coffee arabica
Abiotic stress
Carotenoids
Drought-resistant
Plant hormones
Journal
BMC genomic data
ISSN: 2730-6844
Titre abrégé: BMC Genom Data
Pays: England
ID NLM: 101775394
Informations de publication
Date de publication:
19 Jul 2024
19 Jul 2024
Historique:
received:
07
05
2024
accepted:
20
06
2024
medline:
20
7
2024
pubmed:
20
7
2024
entrez:
19
7
2024
Statut:
epublish
Résumé
The coffee industry holds importance, providing livelihoods for millions of farmers globally and playing a vital role in the economies of coffee-producing countries. Environmental conditions such as drought and temperature fluctuations can adversely affect the quality and yield of coffee crops.Carotenoid cleavage oxygenases (CCO) enzymes are essential for coffee plants as they help break down carotenoids contributing to growth and stress resistance. However, knowledge about the CCO gene family in Coffee arabica was limited. In this study identified 21 CCO genes in Coffee arabica (C. arabica) revealing two subfamilies carotenoid cleavage dioxygenases (CCDs) and 9-cis-epoxy carotenoid dioxygenases (NCED) through phylogenic analysis. These subfamilies exhibited distribution patterns in terms of gene structure, domains, and motifs. The 21 CaCCO genes, comprising 5 NCED and 16 CCD genes were found across chromosomes. Promoter sequencing analysis revealed cis-elements that likely interact with plant stress-responsive, growth-related, and phytohormones, like auxin and abscisic acid. A comprehensive genome-wide comparison, between C. arabica and A. thaliana was conducted to understand the characteristics of CCO genes. RTqPCR data indicated that CaNCED5, CaNCED6, CaNCED12, and CaNCED20 are target genes involved in the growth of drought coffee plants leading to increased crop yield, in a conditions, with limited water availability. This reveals the role of coffee CCOs in responding to abiotic stress and identifies potential genes useful for breeding stress-resistant coffee varieties.
Identifiants
pubmed: 39030545
doi: 10.1186/s12863-024-01248-4
pii: 10.1186/s12863-024-01248-4
doi:
Substances chimiques
Oxygenases
EC 1.13.-
carotenoid oxygenase
EC 1.13.-
Plant Proteins
0
Dioxygenases
EC 1.13.11.-
Coffee
0
Carotenoids
36-88-4
Types de publication
Journal Article
Langues
eng
Sous-ensembles de citation
IM
Pagination
71Subventions
Organisme : Liupanshui Normal University, China
ID : 52020-2020-0906
Informations de copyright
© 2024. The Author(s).
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