Detection of 1α,25-dihydroxyvitamin D-regulated miRNAs in zebrafish by whole transcriptome sequencing

Theodore A. Craig, Yuji Zhang, Andrew T. Magis, Cory C. Funk, Nathan D. Price, Stephen C Ekker, Rajiv Kumar

Research output: Contribution to journalArticle

9 Citations (Scopus)

Abstract

The sterol hormone, 1α,25-dihydroxyvitamin D3 (1α,25(OH)2D3), regulates gene expression and messenger RNA (mRNA) concentrations in zebrafish in vivo. Since mRNA concentrations and translation are influenced by micro-RNAs (miRNAs), we examined the influence of 1α,25(OH)2D3 on miRNA expression in zebrafish in vivo with whole transcriptome RNA sequencing, searched for miRNA binding sites in 1α,25(OH)2D 3-sensitive genes, and performed correlation analyses between 1α,25(OH)2D3-sensitive miRNAs and mRNAs. In vehicle-and 1α,25(OH)2D3-treated, 7-day postfertilization larvae, between 282 and 295 known precursor miRNAs were expressed, and in vehicle-and 1α,25(OH)2D3-treated fish, between 83 and 122 novel miRNAs were detected. Following 1α,25(OH)2D3 treatment, 31 precursor miRNAs were differentially expressed (p<0.05). The differentially expressed miRNAs are predicted to potentially alter mRNAs for metabolic enzymes, transcription factors, growth factors, and Jak-STAT signaling. We verified the role of a 1α,25(OH)2D3-sensitive miRNA, miR125b, by demonstrating alterations in the concentrations of the mRNA of a 1α,25(OH)2D3-regulated gene, Cyp24a1, following transfection of renal cells with a miR125b miRNA mimic. Changes in the Cyp24a1 mRNA concentration by the miR125b miRNA mimic were associated with changes in the protein for Cyp24a1. Our data show that 1α,25(OH)2D 3 regulates miRNA in zebrafish larvae in vivo and could thereby influence vitamin D-sensitive mRNA concentrations.

Original languageEnglish (US)
Pages (from-to)207-218
Number of pages12
JournalZebrafish
Volume11
Issue number3
DOIs
StatePublished - Jun 1 2014

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Zebrafish
MicroRNAs
transcriptomics
Danio rerio
microRNA
Transcriptome
messenger RNA
Messenger RNA
Larva
1,25-dihydroxyvitamin D
RNA Sequence Analysis
calcitriol
Calcitriol
larvae
Sterols
transfection
kidney cells
vitamin D
Vitamin D
transcriptome

ASJC Scopus subject areas

  • Animal Science and Zoology
  • Developmental Biology
  • Medicine(all)

Cite this

Detection of 1α,25-dihydroxyvitamin D-regulated miRNAs in zebrafish by whole transcriptome sequencing. / Craig, Theodore A.; Zhang, Yuji; Magis, Andrew T.; Funk, Cory C.; Price, Nathan D.; Ekker, Stephen C; Kumar, Rajiv.

In: Zebrafish, Vol. 11, No. 3, 01.06.2014, p. 207-218.

Research output: Contribution to journalArticle

Craig, Theodore A. ; Zhang, Yuji ; Magis, Andrew T. ; Funk, Cory C. ; Price, Nathan D. ; Ekker, Stephen C ; Kumar, Rajiv. / Detection of 1α,25-dihydroxyvitamin D-regulated miRNAs in zebrafish by whole transcriptome sequencing. In: Zebrafish. 2014 ; Vol. 11, No. 3. pp. 207-218.
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