Transcriptome changes for Nile tilapia (Oreochromis niloticus) in response to alkalinity stress

Yan Zhao; Chengshuo Zhang; Haotian Zhou; Lingyuan Song; Jun Wang; Jinling Zhao

doi:10.1016/j.cbd.2019.100651

Transcriptome changes for Nile tilapia (Oreochromis niloticus) in response to alkalinity stress

Comp Biochem Physiol Part D Genomics Proteomics. 2020 Mar:33:100651. doi: 10.1016/j.cbd.2019.100651. Epub 2020 Jan 2.

Authors

Yan Zhao¹, Chengshuo Zhang², Haotian Zhou³, Lingyuan Song⁴, Jun Wang⁵, Jinling Zhao⁶

Affiliations

¹ Key Laboratory of Freshwater Aquatic Genetic Resources, Ministry of Agriculture, Shanghai Ocean University, 201306 Shanghai, China; National Demonstration Center for Experimental Fisheries Science Education, Shanghai Ocean University, 201306 Shanghai, China; Shanghai Collaborative Innovation for Aquatic Animal Genetics and Breeding, Shanghai Ocean University, 201306 Shanghai, China. Electronic address: y_zhao@shou.edu.cn.
² Key Laboratory of Freshwater Aquatic Genetic Resources, Ministry of Agriculture, Shanghai Ocean University, 201306 Shanghai, China; National Demonstration Center for Experimental Fisheries Science Education, Shanghai Ocean University, 201306 Shanghai, China; Shanghai Collaborative Innovation for Aquatic Animal Genetics and Breeding, Shanghai Ocean University, 201306 Shanghai, China. Electronic address: 863789907@qq.com.
³ Key Laboratory of Freshwater Aquatic Genetic Resources, Ministry of Agriculture, Shanghai Ocean University, 201306 Shanghai, China; National Demonstration Center for Experimental Fisheries Science Education, Shanghai Ocean University, 201306 Shanghai, China; Shanghai Collaborative Innovation for Aquatic Animal Genetics and Breeding, Shanghai Ocean University, 201306 Shanghai, China. Electronic address: 619044862@qq.com.
⁴ Key Laboratory of Freshwater Aquatic Genetic Resources, Ministry of Agriculture, Shanghai Ocean University, 201306 Shanghai, China; National Demonstration Center for Experimental Fisheries Science Education, Shanghai Ocean University, 201306 Shanghai, China; Shanghai Collaborative Innovation for Aquatic Animal Genetics and Breeding, Shanghai Ocean University, 201306 Shanghai, China. Electronic address: 786785555@qq.com.
⁵ Key Laboratory of Freshwater Aquatic Genetic Resources, Ministry of Agriculture, Shanghai Ocean University, 201306 Shanghai, China; National Demonstration Center for Experimental Fisheries Science Education, Shanghai Ocean University, 201306 Shanghai, China; Shanghai Collaborative Innovation for Aquatic Animal Genetics and Breeding, Shanghai Ocean University, 201306 Shanghai, China. Electronic address: wangjun@shou.edu.cn.
⁶ Key Laboratory of Freshwater Aquatic Genetic Resources, Ministry of Agriculture, Shanghai Ocean University, 201306 Shanghai, China; National Demonstration Center for Experimental Fisheries Science Education, Shanghai Ocean University, 201306 Shanghai, China; Shanghai Collaborative Innovation for Aquatic Animal Genetics and Breeding, Shanghai Ocean University, 201306 Shanghai, China. Electronic address: jlzhao@shou.edu.cn.

PMID: 31923799
DOI: 10.1016/j.cbd.2019.100651

Abstract

Nile tilapia is an important economic fish in the world because of its fast growth, high meat yield and strong adaptability. It is more adaptable to high alkalinity than common freshwater fish and provides valuable material for developing alkaline-tolerant strains and understanding the adaptation mechanism of fish to extreme environmental stress. In this study, we employed high throughput RNA sequencing to reveal the tissues (gill, kidney and liver) transcriptome differences of O. niloticus at different carbonate alkalinities (FW, AW40 and AW60). A total of 1,369,381,790 raw reads were obtained, including 496,441,232 reads in FW group, 437,907,696 reads in AW40 and 435,032,862 reads in AW60. In addition, 484,555,626 reads in gill, 451,618,224 reads in kidney and 433,207,940 reads in liver. A large number of stress-regulated changes were detected comprehensively. We focused on 3 significantly change pathways (steroid biosynthesis, drug metabolism and protein digestion/absorption) and 17 DEGs (HMG-CoA reductase, UDP-glucuronosyltransferase, and carbonic anhydrase etc.) which were shared among compared groups (AW40 vs FW, AW60 vs FW, AW40 vs 60 AW60) in gill, kidney and liver, respectively. These pathways/genes are sensitive to alkalinity stress and crucial to the alkalinity adaptation of tilapia. Overall, we found a large number of candidate genes, which encode important regulators of stress tolerance and ultimately contribute to future alkaline-tolerant fish breeding. Among these genes, lipid metabolism (involving signal transduction), detoxification and immune related genes are more prominent to the response and adaptability of fish to alkalinity stress.

Keywords: Adaptation; Alkalinity stress; Nile tilapia; RNA-Seq.

Publication types

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

MeSH terms

Animals
Cichlids / genetics*
Cichlids / physiology
Female
Hydrogen-Ion Concentration
Lipid Metabolism
Male
Metabolic Networks and Pathways
Stress, Physiological
Transcriptome*