Epigenetic mechanisms of lncRNA in response to thermal stress during embryogenesis of allotetraploid Cyprinus carpio

Shuimu Hu; Lin Chen; Yulin Bai; Qian He; Yue Liu; Peng Xu

doi:10.1016/j.ygeno.2023.110698

Epigenetic mechanisms of lncRNA in response to thermal stress during embryogenesis of allotetraploid Cyprinus carpio

Genomics. 2023 Sep;115(5):110698. doi: 10.1016/j.ygeno.2023.110698. Epub 2023 Aug 16.

Authors

Shuimu Hu¹, Lin Chen¹, Yulin Bai¹, Qian He¹, Yue Liu¹, Peng Xu²

Affiliations

¹ State Key Laboratory of Mariculture Breeding, College of Ocean and Earth Sciences, Xiamen University, Xiamen 361102, China.
² State Key Laboratory of Mariculture Breeding, College of Ocean and Earth Sciences, Xiamen University, Xiamen 361102, China; Fujian Key Laboratory of Genetics and Breeding of Marine Organisms, College of Ocean and Earth Sciences, Xiamen University, Xiamen 361102, China. Electronic address: xupeng77@xmu.edu.cn.

PMID: 37595932
DOI: 10.1016/j.ygeno.2023.110698

Abstract

Embryogenesis and epigenetic mechanisms of lncRNA may play an important role in the formation of temperature tolerance in allotetraploid Cyprinus carpio. To investigate the response of lncRNA to thermal stress during embryogenesis of C. carpio, transcriptome sequencing was performed on 81 embryo or larva samples from different early development stages and temperatures. We identified 45,097 lncRNAs and analyzed transcriptome variation during embryogenesis. Stage-specific and temperature-specific DE lncRNAs and DEGs were screened. GO and KEGG analysis identified numerous pathways involved in thermal stress. Temperature-specific regulation of cis-/trans-/antisense lncRNAs was analyzed. Interaction network analysis identified 6 hub lncRNAs and many hub genes, such as cdk1 and hsf1. Decreased expression of many essential genes regulated by lncRNAs may lead to the death of embryos at 33 °C. Our findings provide new insights into the regulation of lncRNA in thermal stress response during embryogenesis and contribute to the understanding of environmental adaptation of allotetraploid species.

Keywords: Cyprinus carpio; Embryogenesis; Long non-coding RNAs (lncRNAs); Thermal stress.

Publication types

Research Support, Non-U.S. Gov't

MeSH terms

Animals
Carps* / genetics
Carps* / metabolism
Embryonic Development / genetics
Epigenesis, Genetic
Gene Expression Profiling
RNA, Long Noncoding* / genetics
RNA, Long Noncoding* / metabolism

Substances

RNA, Long Noncoding