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Original Research ARTICLE Provisionally accepted The full-text will be published soon. Notify me

Front. Genet. | doi: 10.3389/fgene.2019.00847

Differences in DNA methylation between disease-resistant and disease-susceptible Chinese tongue sole (Cynoglossus semilaevis) families

 Yunji Xiu1, 2, 3,  Changwei Shao1, 2,  Ying Zhu1, 2, Yangzhen Li1, 2, Tian Gan1, 2,  Wenteng Xu1, 2,  Francesc Piferrer4 and  Songlin Chen2, 5*
  • 1Key Laboratory for Sustainable Utilization of Marine Fisheries Resources, Yellow Sea Fisheries Research Institute (CAFS), China
  • 2Laboratory for Marine Fisheries Science and Food Production Processes, Qingdao National Laboratory for Marine Science and Technology, China
  • 3Marine Science and Engineering College, Qingdao Agricultural University, China
  • 4Institute of Marine Sciences, Superior Council of Scientific Investigations, Spain
  • 5Key Lab of Sustainable Development of Marine Fisheries, Ministry of Agriculture, Yellow Sea Fisheries Research Institute (CAFS), China

DNA methylation, the most widely studied and most well-understood epigenetic modification, has been reported to play crucial roles in diverse processes. Although it has been found that DNA methylation can modulate the expression of immune-related genes in teleosts, a systemic analysis of epigenetic regulation on teleost immunity has rarely been performed. In this research, we employed whole-genome bisulfite sequencing (WGBS) to investigate the genome-wide DNA methylation profiles in select disease-resistant Cynoglossus semilaevis (DR-CS, family 14L006) and disease-susceptible C. semilaevis (DS-CS, family 14L104) against Vibrio harveyi infection. The results showed that following selective breeding, DR-CS had higher DNA methylation levels and different DNA methylation patterns, with 3311 differentially methylated regions (DMRs) and 6456 differentially methylated genes (DMGs). Combining these data with the corresponding transcriptome data, we identified several immune-related genes that exhibited differential expression levels that were modulated by DNA methylation. Specifically, DNA methylation of tumor necrosis factor-like (TNF-like) and lipopolysaccharide-binding protein-like (LBP-like) was significantly correlated with their expression and significantly contributed to the disease resistance of the selected C. semilaevis family. In conclusion, we suggest that artificial selection for disease resistance in Chinese tongue sole causes changes in DNA methylation levels in important immune-related genes and that these epigenetic changes are potentially involved in multiple immune responses in Chinese tongue sole.

Keywords: DNA Methylation, whole genome bisulphite sequencing, Cynoglossus semilaevis, Disease-resistant, disease-susceptible

Received: 22 Feb 2019; Accepted: 14 Aug 2019.

Copyright: © 2019 Xiu, Shao, Zhu, Li, Gan, Xu, Piferrer and Chen. This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.

* Correspondence: Dr. Songlin Chen, Yellow Sea Fisheries Research Institute (CAFS), Key Lab of Sustainable Development of Marine Fisheries, Ministry of Agriculture, Qingdao, China, chensl@ysfri.ac.cn