Identification and characterization of circRNAs from different body color leopard coral grouper (Plectropomus leopardus)

Ruijuan Hao; Xiaowen Zhu; Xiaowen Zhu; Changxu Tian; Changxu Tian; Changxu Tian; Yang Huang; Yang Huang; Guangli Li; Guangli Li; Guangli Li; Chunhua Zhu; Chunhua Zhu

doi:10.3389/fmars.2023.1201726

Frontiers in Marine Science (May 2023)

Identification and characterization of circRNAs from different body color leopard coral grouper (Plectropomus leopardus)

Ruijuan Hao,
Xiaowen Zhu,
Xiaowen Zhu,
Changxu Tian,
Changxu Tian,
Changxu Tian,
Yang Huang,
Yang Huang,
Guangli Li,
Guangli Li,
Guangli Li,
Chunhua Zhu,
Chunhua Zhu

Affiliations

Ruijuan Hao: Development and Research Center for Biological Marine Resources, Southern Marine Science and Engineering Guangdong Laboratory, Zhanjiang, China
Xiaowen Zhu: Fisheries College, Guangdong Ocean University, Zhanjiang, China
Xiaowen Zhu: Guangdong Provincial Engineering Laboratory for Mariculture Organism Breeding, Guangdong Ocean University, Zhanjiang, China
Changxu Tian: Fisheries College, Guangdong Ocean University, Zhanjiang, China
Changxu Tian: Guangdong Provincial Engineering Laboratory for Mariculture Organism Breeding, Guangdong Ocean University, Zhanjiang, China
Changxu Tian: Guangdong Research Center on Reproductive Control and Breeding Technology of Indigenous Valuable Fish Species, Guangdong Ocean University, Zhanjiang, China
Yang Huang: Development and Research Center for Biological Marine Resources, Southern Marine Science and Engineering Guangdong Laboratory, Zhanjiang, China
Yang Huang: Fisheries College, Guangdong Ocean University, Zhanjiang, China
Guangli Li: Fisheries College, Guangdong Ocean University, Zhanjiang, China
Guangli Li: Guangdong Provincial Engineering Laboratory for Mariculture Organism Breeding, Guangdong Ocean University, Zhanjiang, China
Guangli Li: Guangdong Research Center on Reproductive Control and Breeding Technology of Indigenous Valuable Fish Species, Guangdong Ocean University, Zhanjiang, China
Chunhua Zhu: Development and Research Center for Biological Marine Resources, Southern Marine Science and Engineering Guangdong Laboratory, Zhanjiang, China
Chunhua Zhu: Fisheries College, Guangdong Ocean University, Zhanjiang, China

DOI: https://doi.org/10.3389/fmars.2023.1201726
Journal volume & issue: Vol. 10

Abstract

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Circular RNAs (circRNAs) play key roles in several biological processes in animals and their regulatory mechanism in body color formation or pigmentation in fish remains unclear. Here, circRNAs from black and red individuals of Plectropomus leopardus were identified to clarify the mechanism of circRNAs and the competing endogenous RNA (ceRNA) network (circRNA-microRNA (miRNA)-messenger RNA (mRNA)) in body color formation. We detected a total of 1,424 novel circRNAs. Expression analysis of circRNAs in black vs. red P. leopardus revealed 24 differentially expressed circRNAs (DECs), and 11 and 13 of these DECs were up-regulated and down-regulated in red individuals relative to black individuals, respectively (P<0.05 and |log2 Fold Change (FC)|>1). We identified a total of 19 significant miRNA-circRNA-mRNA ceRNA networks through the analysis of DECs, differentially expressed miRNAs (DEMs) and differentially expressed genes (DEGs). Pathway enrichment analyses of the DEGs involved in the ceRNA network revealed that they were mainly involved in melanin metabolism and immune response. Our findings showed the possibility of the regulatory functions of circRNAs and the corresponding ceRNA network in the body color formation process and will aid the breeding selection process of P. leopardus.

Published in Frontiers in Marine Science

ISSN: 2296-7745 (Online)
Publisher: Frontiers Media S.A.
Country of publisher: Switzerland
LCC subjects: Science: Natural history (General): General. Including nature conservation, geographical distribution
Website: https://www.frontiersin.org/journals/marine-science

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