The floral development of the allotetraploid Coffea arabica L. correlates with a small RNA dynamic reprogramming.
Coffea arabica
floral development
microRNA
phasiRNAs
small RNAs
tRFs
Journal
The Plant journal : for cell and molecular biology
ISSN: 1365-313X
Titre abrégé: Plant J
Pays: England
ID NLM: 9207397
Informations de publication
Date de publication:
15 Mar 2024
15 Mar 2024
Historique:
revised:
05
12
2023
received:
13
09
2023
accepted:
28
02
2024
medline:
15
3
2024
pubmed:
15
3
2024
entrez:
15
3
2024
Statut:
aheadofprint
Résumé
Noncoding and coding RNAs are key regulators of plant growth, development, and stress responses. To investigate the types of transcripts accumulated during the vegetative to reproductive transition and floral development in the Coffea arabica L., we sequenced small RNA libraries from eight developmental stages, up to anthesis. We combined these data with messenger RNA and PARE sequencing of two important development stages that marks the transition of an apparent latent to a rapid growth stage. In addition, we took advantage of multiple in silico tools to characterize genomic loci producing small RNAs such as phasiRNAs, miRNAs, and tRFs. Our differential and co-expression analysis showed that some types of small RNAs such as tRNAs, snoRNAs, snRNAs, and phasiRNAs preferentially accumulate in a stage-specific manner. Members of the miR482/miR2118 superfamily and their 21-nucleotide phasiRNAs originating from resistance genes show a robust co-expression pattern that is maintained across all the evaluated developmental stages. Finally, the majority of miRNAs accumulate in a family stage-specific manner, related to modulated hormonal responses and transcription factor expression.
Types de publication
Journal Article
Langues
eng
Sous-ensembles de citation
IM
Subventions
Organisme : Coordenação de Aperfeiçoamento de Pessoal de Nível Superior (CAPES)
Organisme : Instituto Nacional de Ciência e Tecnologia do Café (INCT-Café)
Organisme : Conselho Nacional de Desenvolvimento Científico e Tecnológico (CNPq)
Organisme : NSF, Directorate for Biological Sciences
ID : 2130883
Organisme : NSF, Directorate for Biological Sciences
ID : 2141970
Informations de copyright
© 2024 Society for Experimental Biology and John Wiley & Sons Ltd.
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