1
|
Sun J, Wang H, Zhan Y, Zhao T, Li C, Cheng C, Wang Z, Zou A, Chang Y. Identification of Key Genes Correlated with Economic Trait Superiorities and Their SNP Screening Through Transcriptome Comparisons, WGCNA and Pearson Correlation Coefficient in the Sea Cucumber Apostichopus Japonicus. MARINE BIOTECHNOLOGY (NEW YORK, N.Y.) 2024; 27:12. [PMID: 39601948 DOI: 10.1007/s10126-024-10384-y] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/05/2024] [Accepted: 10/16/2024] [Indexed: 11/29/2024]
Abstract
Variation in morphology-driven economic traits is a common issue hindering the development of the sea cucumber aquaculture industry. In this study, transcriptome comparisons, weighted gene correlation network analysis (WGCNA) and Pearson correlation coefficient (PCC) were first employed to identify key genes correlated with morphological variation in the sea cucumber Apostichopus japonicus, after which the relationship between identified key genes (relative expression and genotype) and economic trait phenotypes was investigated to screen potential biomarker targets for molecular-assisted breeding. The results showed that three genes (putative ficolin-2, fibrinogen c domain-containing protein 1, and angiopoietin-4) were closely associated with economic trait superiorities. Two single nucleotide polymorphisms (SNPs) were identified in the putative ficolin-2 gene as having a strong correlation with body weight and papilla number. The findings from this study will enrich breeding biomarker resources and benefit the development of molecular-assisted breeding techniques in sea cucumber aquaculture.
Collapse
Affiliation(s)
- Jingxian Sun
- Key Laboratory of Mariculture & Stock Enhancement in North China's Sea, Ministry of Agriculture and Rural Affairs, Dalian Ocean University, Dalian, 116023, Liaoning, P. R. China
- College of Life Science, Liaoning Normal University, Dalian, 116029, Liaoning, P. R. China
| | - Haolin Wang
- Key Laboratory of Mariculture & Stock Enhancement in North China's Sea, Ministry of Agriculture and Rural Affairs, Dalian Ocean University, Dalian, 116023, Liaoning, P. R. China
| | - Yaoyao Zhan
- Key Laboratory of Mariculture & Stock Enhancement in North China's Sea, Ministry of Agriculture and Rural Affairs, Dalian Ocean University, Dalian, 116023, Liaoning, P. R. China.
- Key Laboratory of Mariculture & Stock Enhancement in North China's Sea, Ministry of Agriculture, Dalian Ocean University, Dalian, 116023, Liaoning, P. R. China.
| | - Tanjun Zhao
- Key Laboratory of Mariculture & Stock Enhancement in North China's Sea, Ministry of Agriculture and Rural Affairs, Dalian Ocean University, Dalian, 116023, Liaoning, P. R. China
- College of Life Science, Liaoning Normal University, Dalian, 116029, Liaoning, P. R. China
| | - Chengda Li
- Key Laboratory of Mariculture & Stock Enhancement in North China's Sea, Ministry of Agriculture and Rural Affairs, Dalian Ocean University, Dalian, 116023, Liaoning, P. R. China
| | - Cao Cheng
- Shandong Anyuan Seed Industry Technology Co., Ltd, Yantai, 265617, Shandong, P. R. China
| | - Zengdong Wang
- Shandong Anyuan Seed Industry Technology Co., Ltd, Yantai, 265617, Shandong, P. R. China
| | - Ange Zou
- Shandong Anyuan Seed Industry Technology Co., Ltd, Yantai, 265617, Shandong, P. R. China
| | - Yaqing Chang
- Key Laboratory of Mariculture & Stock Enhancement in North China's Sea, Ministry of Agriculture and Rural Affairs, Dalian Ocean University, Dalian, 116023, Liaoning, P. R. China.
- College of Life Science, Liaoning Normal University, Dalian, 116029, Liaoning, P. R. China.
| |
Collapse
|
2
|
Ren Y, Xu Y, Wang Z, Wang Y, Zhang J, Li Z, Chen Y, Go W, Javed MT, Li Q. Molecular cloning, biological description, and functional analysis of Ajfos transcription factor in pathogen-induced Apostichopus japonicus. Comp Biochem Physiol C Toxicol Pharmacol 2024; 276:109814. [PMID: 38065305 DOI: 10.1016/j.cbpc.2023.109814] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 10/10/2023] [Revised: 11/27/2023] [Accepted: 12/04/2023] [Indexed: 01/03/2024]
Abstract
Activator protein-1 subfamily member c-Fos wields significant influence over cellular activities, such as regulation of cell growth and division, cell death, and immune responses under various extracellular situations. In this study, the full-length c-Fos of sea cucumber, Apostichopus japonicus (Ajfos) was successfully cloned and analyzed. The anticipated 306 amino acid sequences of Ajfos displayed a basic-leucine zipper (bZIP) domain, similar to invertebrate counterparts. In addition, the qPCR results suggested Ajfos expressed in all tissues, with the highest level in coelomocytes from polian vesicle (vesicle lumen cells), followed by coelomocytes from coelom (coelomocytes). Moreover, the expression levels of Ajfos in the coelomocytes and vesicle lumen cells of sea cucumber showed significant changes after the Vibrio splendidus challenge, especially reaching a peak at 6 h. Compared with the silencing negative control RNA interference (siNC) group, silencing Ajfos (siAjfos) in vivo decreased the downstream proliferation-related gene expression of vesicle lumen cells after infection with V. splendidus while no significant influence was observed on coelomocytes. Furthermore, the proliferation proportion of vesicle lumen cells in the siAjfos group was significantly reduced under pathogen stimulation conditions. Finally, based on the fluctuation trend of total coelomocyte density (TCD) from coelom and polian vesicle previously discovered, it is evident that Ajfos played a critical role in facilitating the swift proliferation of vesicle lumen cells in response to V. splendidus stimulation. Altogether, this research provided an initial reference of the function of Ajfos in echinoderms, unveiling its participation in host coelomocyte proliferation of sea cucumbers during bacterial challenges.
Collapse
Affiliation(s)
- Yuan Ren
- School of Bioengineering, Dalian University of Technology, Dalian 116024, PR China
| | - Yongping Xu
- School of Bioengineering, Dalian University of Technology, Dalian 116024, PR China
| | - Zhenhui Wang
- College of Marine and Biology Engineering, Yancheng Institute of Technology, Yancheng 224051, PR China
| | - Yinan Wang
- College of Fisheries, Tianjin Agricultural University, Tianjin 300392, PR China; College of Marine and Biology Engineering, Yancheng Institute of Technology, Yancheng 224051, PR China
| | - Jialin Zhang
- College of Marine and Biology Engineering, Yancheng Institute of Technology, Yancheng 224051, PR China
| | - Zhen Li
- College of Marine and Biology Engineering, Yancheng Institute of Technology, Yancheng 224051, PR China
| | - Yupeng Chen
- College of Marine and Biology Engineering, Yancheng Institute of Technology, Yancheng 224051, PR China
| | - Wei Go
- College of Marine and Biology Engineering, Yancheng Institute of Technology, Yancheng 224051, PR China
| | - Muhammad Tariq Javed
- Faculty of Veterinary Science, University of Agriculture, Faisalabad 38040, Pakistan
| | - Qiang Li
- College of Fisheries, Tianjin Agricultural University, Tianjin 300392, PR China; College of Marine and Biology Engineering, Yancheng Institute of Technology, Yancheng 224051, PR China.
| |
Collapse
|
3
|
Wang Z, Fan X, Li Z, Guo L, Ren Y, Li Q. Comparative analysis for immune response of coelomic fluid from coelom and polian vesicle in Apostichopus japonicus to Vibrio splendidus infection. FISH AND SHELLFISH IMMUNOLOGY REPORTS 2022; 4:100074. [PMID: 36618076 PMCID: PMC9811217 DOI: 10.1016/j.fsirep.2022.100074] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/17/2022] [Revised: 11/30/2022] [Accepted: 12/08/2022] [Indexed: 12/29/2022] Open
Abstract
The polian vesicle and coelom of sea cucumber Apostichopus japonicus were full of coelomic fluid in which many types of coelomocytes with different functions were suspended. Our previous work has indicated the differences of coelomocytes between two sites mainly in subtype proportion, non-specific immune enzymes activities and several immune-related genes expression levels in healthy A. japonicus. However, the functional similarities and differences of coelomic fluid in two sites including the coelom and polian vesicle after pathogenic infection still remain unclear. Here, we investigated the changes of the total coelomocyte density (TCD) and differential coelomocyte density (DCD) after pathogen infection by Vibrio splendidus in coelom and polian vesicle. After infected by V. splendidus, the TCD in the coelom and polian vesicle rapidly declined at 12 h, and then the TCD in the coelom showed a stably ascending trend, while the TCD in the polian vesicle reached a peak at 24 h post infection (hpi), and then showed a continuously decline trend from 24 hpi to 72 hpi followed by a slow elevation until recovering the normal level from 72 hpi to 96 hpi. Then the activities of acidic phosphatase (ACP), alkaline phosphatase (AKP), catalase (CAT) and superoxide dismutase (SOD) were determined to evaluate the response of cell-free coelomic fluid to V. splendidus infection. The activities of ACP, AKP and CAT showed similar trends in the coelom and polian vesicle. The SOD activity significantly increased in the polian vesicle, whereas it exhibited a decreasing trend in the coelom. Finally, the expression profiles of nine immune-related genes including Aj-MyD88, Aj-IRAK4, Aj-i-Lys, Aj-Rel, Aj-p50, Aj-DMBT1, Aj-CDC, Aj-Rrp15 and Aj-Fibrinogen C were detected after V. splendidus challenge. The results suggested all the detected genes were significantly up-regulated both in the coelom and polian vesicle, and the expression levels of these genes in two sites shared similar trends except Aj-MyD88 and Aj-DMBT1. This research provides a new insight into the differentially immune roles of coelomic fluid and coelomocytes in polian vesicle and coelom response to bacterial infections and supplements comprehensive resources for better understanding the innate immune response of A. japonicus.
Collapse
Affiliation(s)
- Zhenhui Wang
- College of Marine and Bioengineering, Yancheng Institute of Technology, Yancheng 224051, China
| | - Xuyuan Fan
- College of Marine and Bioengineering, Yancheng Institute of Technology, Yancheng 224051, China,College of Fisheries and Life Science, Dalian Ocean University, Dalian 116023, China
| | - Zhen Li
- College of Marine and Bioengineering, Yancheng Institute of Technology, Yancheng 224051, China
| | - Liyuan Guo
- College of Marine and Bioengineering, Yancheng Institute of Technology, Yancheng 224051, China,College of Fisheries and Life Science, Dalian Ocean University, Dalian 116023, China
| | - Yuan Ren
- College of Marine and Bioengineering, Yancheng Institute of Technology, Yancheng 224051, China,School of Bioengineering, Dalian University of Technology, Dalian 116024, China
| | - Qiang Li
- College of Marine and Bioengineering, Yancheng Institute of Technology, Yancheng 224051, China,Corresponding author.
| |
Collapse
|
4
|
Li C, Xing X, Qi H, Liu Y, Jian F, Wang J. The arachidonic acid and its metabolism pathway play important roles for Apostichopus japonicus infected by Vibrio splendens. FISH & SHELLFISH IMMUNOLOGY 2022; 125:152-160. [PMID: 35561951 DOI: 10.1016/j.fsi.2022.05.012] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/01/2022] [Revised: 04/22/2022] [Accepted: 05/08/2022] [Indexed: 06/15/2023]
Abstract
Improving the immune ability and guiding healthy culture for sea cucumber by purposefully screening the significant differential metabolites when Apostichopus japonicus (A. japonicus) is infected by pathogens is important. In this study, 35 types of significant differential metabolites appeared when A. japonicus were infected by Vibrio splendens (VSI group) compared with the control A. japonicus group (CK group) by using liquid chromatography-mass spectrometry (LC-MS/MS)-based untargeted metabolomics. Based on that finding, the 10 types of key metabolic pathways were analyzed by MetPA. The "arachidonic acid (ARA) metabolism" pathway, which was screened by three elevated biomarkers: ARA, prostaglandin F2α and 2-arachidonoyl glycerol, had an important impact on immune stress in A. japonicus. Due to the similar changes in several metabolites in its metabolic pathway, the ARA metabolic pathway was selected for further study. The activities of ACP, AKP and lysozyme, which are important innate immune-related enzymes, the survival rates of A. japonicus infected with V. splendidus and the relative content of ARA in the body wall detected by GC-MS were all upregulated significantly by exogenous daily 0.60% and 1.09% ARA consumption over a short period of approximately 7 days. These results demonstrated that ARA and its metabolic pathway indeed played important roles in the immunity of A. japonicus infected by the pathogen. The findings also provide novel insights for the effects of metabolites in A. japonicum healthy culture.
Collapse
Affiliation(s)
- Cheng Li
- Department of Biotechnology, School of Biological Engineering, Dalian Polytechnic University, Dalian, 116034, Liaoning Province, PR China.
| | - Xuan Xing
- Department of Biotechnology, School of Biological Engineering, Dalian Polytechnic University, Dalian, 116034, Liaoning Province, PR China
| | - Hongqing Qi
- Department of Biotechnology, School of Biological Engineering, Dalian Polytechnic University, Dalian, 116034, Liaoning Province, PR China
| | - Ying Liu
- Department of Biotechnology, School of Biological Engineering, Dalian Polytechnic University, Dalian, 116034, Liaoning Province, PR China
| | - Fanjie Jian
- Department of Biotechnology, School of Biological Engineering, Dalian Polytechnic University, Dalian, 116034, Liaoning Province, PR China
| | - Jihui Wang
- Department of Biotechnology, School of Biological Engineering, Dalian Polytechnic University, Dalian, 116034, Liaoning Province, PR China
| |
Collapse
|