Integrative analysis of transcriptomic profile reveals potential roles of miRNAs in regulating development of <italic style="font-style: italic">Marsupenaeus</italic> <italic style="font-style: italic">japonicas</italic>

Jing WANG; Longjun PU; Xiaojuan ZHANG; Cuicui LIANG; Dandan DONG; Jiantao GUAN; Huarong GUO

doi:10.1007/s00343-023-2403-3

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Integrative analysis of transcriptomic profile reveals potential roles of miRNAs in regulating development of Marsupenaeus japonicas

Biology | Updated：2024-10-15

- Integrative analysis of transcriptomic profile reveals potential roles of miRNAs in regulating development of Marsupenaeus japonicas
- Journal of Oceanology and Limnology Vol. 42, Issue 1, Pages: 201-215(2024)
- Affiliations：
  
  1.Ministry of Education Key Laboratory of Marine Genetics and Breeding, College of Marine Life Sciences, Ocean University of China, Qingdao 266003, China
  2.Institute of Evolution & Marine Biodiversity, Ocean University of China, Qingdao 266003, China
  3.Yellow Sea Fisheries Research Institute, Chinese Academy of Fishery Sciences, Qingdao 266071, China
- Author bio：
  
  huarongguo@ouc.edu.cn
- Funds：
- DOI：10.1007/s00343-023-2403-3
  CLC：
- Received：30 December 2022，
  
  Accepted：13 February 2023，
  
  Online First：07 March 2023，
  
  Published：03 January 2024
- Accepted：
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WANG Jing,PU Longjun,ZHANG Xiaojuan,et al.Research PaperIntegrative analysis of transcriptomic profile reveals potential roles of miRNAs in regulating development of ,Marsupenaeus,japonicas[J].Journal of Oceanology and Limnology,2024,42(01):201-215.
DOI：

WANG Jing,PU Longjun,ZHANG Xiaojuan,et al.Research PaperIntegrative analysis of transcriptomic profile reveals potential roles of miRNAs in regulating development of ,Marsupenaeus,japonicas[J].Journal of Oceanology and Limnology,2024,42(01):201-215. DOI： 10.1007/s00343-023-2403-3.

摘要

Abstract

Regulation of microRNAs (miRNAs) on various biological processes has been a surprising and exciting field. Identification of miRNAs is the first step to comprehensively understand their functions. However

attempts on global identification and functional verification of miRNAs are very limited in penaeid shrimp

Marsupenaeus

japonicus

an economically important aquatic species. By performing an integrated analysis of transcriptomic profile from gastrula embryos of

japonicus

21 conserved miRNAs in

japonicas

(mja-miRNAs)

belonging to 19 miRNA families

were identified and characterized. Of the 21 mja-miRNAs

15 miRNAs were successfully verified to be predominantly expressed in gastrula stage

where they displayed dynamic e

xpression patterns compared with those in naupliuin stage. Based on perfect or near-perfect match to target region

120 target genes were predicted at transcriptome-wide level. Noteworthy

gene ontology (GO) classification and metabolic pathway annotation revealed eight targets that were actively involved in developmental processes. Of the predicted miRNA-mRNA pairs

six targets were then randomly selected and experimentally validated by dual luciferase reporter assay

where three pairs were proved with potential targeting activity. Overall

to search for conserved miRNAs potentially involved in early development of

japonicus

we combined in silico and experimental methods

which can be applied in other organisms as well. Our data implied important roles of miRNAs in the early embryonic development and also suggested the presence of complex miRNA-mRNA functional networks in

japonicus

关键词

Keywords

references

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Xiaosong JIANG

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School of Marine Science and Engineering, Qingdao Agricultural University

State Key Laboratory of Breeding Biotechnology and Sustainable Aquaculture, Institute of Oceanology, Chinese Academy of Sciences

Laboratory for Marine Biology and Biotechnology, Qingdao Marine Science and Technology Center

Marine Sciences Research Institute of Shandong Province, National Oceanographic Center

College of Marine Science, University of Chinese Academy of Sciences

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Integrative analysis of transcriptomic profile reveals potential roles of miRNAs in regulating development of Marsupenaeus japonicas

DOI：10.1007/s00343-023-2403-3

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