Identification and expression profiling of MicroRNAs in the brain, liver and gonads of marine medaka (Oryzias melastigma) and in response to hypoxia

Research output: Journal Publications and Reviews (RGC: 21, 22, 62)21_Publication in refereed journalNot applicablepeer-review

40 Scopus Citations
View graph of relations

Author(s)

  • Karen Lau
  • Jessie Yun Juan Bao
  • Na Zhang
  • Anna Tse
  • Amy Tong
  • Jing Woei Li
  • Si Lok
  • Wing Yee Lui
  • Alice Wong
  • Rudolf Shiu Sun Wu

Detail(s)

Original languageEnglish
Article numbere110698
Journal / PublicationPLoS ONE
Volume9
Issue number10
Publication statusPublished - 28 Oct 2014

Abstract

The marine medaka (Oryzias melastigma) has been increasingly used as a fish model for detecting environmental stresses and chemical contaminants in the marine environment. Recent mammalian studies have shown that environmental stresses can alter the expression profiles of microRNAs (miRNAs), leading to transgenerational effects. Here, we use high-throughput Illumina RNA sequencing (RNA-Seq) for miRNA transcriptome analysis of brain, liver, and gonads from sexually mature male and female marine medaka. A total of 128,883,806 filtered sequence reads were generated from six small RNA libraries, identifying a total of 2,125,663 non-redundant sequences. These sequences were aligned and annotated to known animal miRNAs (miRBase) using the BLAST method. A total of 223 distinct miRNA types were identified, with the greatest number expressed in brain tissue. Our data suggested that 55 miRNA types from 34 families are common to all tested tissues, while some of the miRNAs are tissue-enriched or sex-enriched. Quantitative real-time PCR analysis further demonstrated that let-7a, miR-122, and miR-9-3p were downregulated in hypoxic female medaka, while miR-2184 was specifically upregulated in the testis of hypoxic male fish. This is the first study to identify miRNAs in O. melastigma using small RNA deep sequencing technology. Because miRNA expression is highly conserved between marine medaka and other vertebrates, marine medaka may serve as a good model for studies on the functional roles of miRNAs in hypoxia stress response and signaling in marine fish. Copyright:

Citation Format(s)

Identification and expression profiling of MicroRNAs in the brain, liver and gonads of marine medaka (Oryzias melastigma) and in response to hypoxia. / Lau, Karen; Lai, Keng Po; Bao, Jessie Yun Juan; Zhang, Na; Tse, Anna; Tong, Amy; Li, Jing Woei; Lok, Si; Kong, Richard Yuen Chong; Lui, Wing Yee; Wong, Alice; Wu, Rudolf Shiu Sun.

In: PLoS ONE, Vol. 9, No. 10, e110698, 28.10.2014.

Research output: Journal Publications and Reviews (RGC: 21, 22, 62)21_Publication in refereed journalNot applicablepeer-review