Expansion of Capsicum annum fruit is linked to dynamic tissue-specific differential expression of miRNA and siRNA profiles

Dénes Taller, Jeannette Bálint, Péter Gyula, Tibor Nagy, E. Barta, Ivett Baksa, G. Szittya, János Taller, Z. Havelda

Research output: Article

Abstract

Small regulatory RNAs, such as microRNAs (miRNAs) and small interfering RNAs (siRNAs) have emerged as important transcriptional and post-transcriptional regulators controlling a wide variety of physiological processes including fruit development. Data are, however, limited for their potential roles in developmental processes determining economically important traits of crops. The current study aimed to discover and characterize differentially expressed miRNAs and siRNAs in sweet pepper (Capsicum annuum) during fruit expansion. High-throughput sequencing was employed to determine the small regulatory RNA expression profiles in various fruit tissues, such as placenta, seed, and flesh at 28 and 40 days after anthesis. Comparative differential expression analyses of conserved, already described and our newly predicted pepper-specific miRNAs revealed that fruit expansion is accompanied by an increasing level of miRNA-mediated regulation of gene expression. Accordingly, ARGONAUTE1 protein, the primary executor of miRNA-mediated regulation, continuously accumulated to an extremely high level in the flesh. We also identified numerous pepper-specific, heterochromatin-associated 24-nt siRNAs (hetsiRNAs) which were extremely abundant in the seeds, as well as 21-nt and 24-nt phased siRNAs (phasiRNAs) that were expressed mainly in the placenta and the seeds. This work provides comprehensive tissue-specific miRNA and siRNA expression landscape for a developing pepper fruit. We identified several novel, abundantly expressing tissue- and pepper-specific small regulatory RNA species. Our data show that fruit expansion is associated with extensive changes in sRNA abundance, raising the possibility that manipulation of sRNA pathways may be employed to improve the quality and quantity of the pepper fruit.

Original languageEnglish
Pages (from-to)e0200207
JournalPLoS One
Volume13
Issue number7
DOIs
Publication statusPublished - jan. 1 2018

Fingerprint

Capsicum
sweet peppers
small interfering RNA
Fruits
MicroRNAs
microRNA
Small Interfering RNA
Fruit
Tissue
fruits
Seed
Seeds
RNA
placenta
Placenta
seeds
Physiological Phenomena
gene expression regulation
heterochromatin
Capsicum annuum

ASJC Scopus subject areas

  • Biochemistry, Genetics and Molecular Biology(all)
  • Agricultural and Biological Sciences(all)

Cite this

Expansion of Capsicum annum fruit is linked to dynamic tissue-specific differential expression of miRNA and siRNA profiles. / Taller, Dénes; Bálint, Jeannette; Gyula, Péter; Nagy, Tibor; Barta, E.; Baksa, Ivett; Szittya, G.; Taller, János; Havelda, Z.

In: PLoS One, Vol. 13, No. 7, 01.01.2018, p. e0200207.

Research output: Article

Taller, Dénes ; Bálint, Jeannette ; Gyula, Péter ; Nagy, Tibor ; Barta, E. ; Baksa, Ivett ; Szittya, G. ; Taller, János ; Havelda, Z. / Expansion of Capsicum annum fruit is linked to dynamic tissue-specific differential expression of miRNA and siRNA profiles. In: PLoS One. 2018 ; Vol. 13, No. 7. pp. e0200207.
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