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Luo Q, Zhou X, Lv X, Zheng W, Geng S, Xu T, Sun Y. Identification and functional regulation of three alternative splicing isoforms of the fthl27 gene in miiuy croaker, Miichthys miiuy. Fish Shellfish Immunol 2023; 142:109147. [PMID: 37805112 DOI: 10.1016/j.fsi.2023.109147] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/22/2023] [Revised: 10/04/2023] [Accepted: 10/04/2023] [Indexed: 10/09/2023]
Abstract
Alternative splicing is an important basic mechanism for eukaryotes to control gene expression. Different forms of alternative splicing may lead to the production of protein subtypes with different functions, leading to the expansion of protein diversity in organisms, affecting cell production and metabolism, and is even related to the occurrence of many diseases. Many studies have shown that ferritin is usually associated with inflammation, vascular proliferation, and tumors, which is the focus of immunological research. It not only plays a role in iron metabolism and storage in the body, but also plays an important regulatory role in pathways related to immune and inflammatory regulation. However, there are few studies on alternative splicing events of the ferritin gene nowadays. Therefore, this study identified three different splicing isoforms in its ferritin gene fthl27 of Miichthys miiuy through Sanger sequencing, qRT-PCR, and other experimental techniques, and we found that three different splicing isoforms of the ferritin gene fthl27 in M. Miiuy cells showed an upregulation trend after being stimulated by Lipopolysaccharide (LPS) and poly (I: C). The experiment also found that the three isoforms may have different regulatory effects on the expression of inflammatory factors and antiviral immune factors, playing an important role in the innate immune response of fish.
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Affiliation(s)
- Qiang Luo
- Laboratory of Fish Molecular Immunology, College of Fisheries and Life Science, Shanghai Ocean University, Shanghai, China
| | - Xuefeng Zhou
- Laboratory of Fish Molecular Immunology, College of Fisheries and Life Science, Shanghai Ocean University, Shanghai, China
| | - Xing Lv
- Laboratory of Fish Molecular Immunology, College of Fisheries and Life Science, Shanghai Ocean University, Shanghai, China
| | - Weiwei Zheng
- Laboratory of Fish Molecular Immunology, College of Fisheries and Life Science, Shanghai Ocean University, Shanghai, China
| | - Shang Geng
- Laboratory of Fish Molecular Immunology, College of Fisheries and Life Science, Shanghai Ocean University, Shanghai, China
| | - Tianjun Xu
- Laboratory of Fish Molecular Immunology, College of Fisheries and Life Science, Shanghai Ocean University, Shanghai, China; Laboratory of Marine Biology and Biotechnology, Qingdao National Laboratory for Marine Science and Technology, Qingdao, China.
| | - Yuena Sun
- Laboratory of Fish Molecular Immunology, College of Fisheries and Life Science, Shanghai Ocean University, Shanghai, China; National Pathogen Collection Center for Aquatic Animals, Shanghai Ocean University, China; Key Laboratory of Freshwater Aquatic Genetic Resources, Ministry of Agriculture and Rural Affairs, Shanghai Ocean University, China.
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Gwak WS, Roy A. Genetic Diversity and Population Structure of Brown Croaker ( Miichthys miiuy) in Korea and China Inferred from mtDNA Control Region. Genes (Basel) 2023; 14:1692. [PMID: 37761832 PMCID: PMC10530706 DOI: 10.3390/genes14091692] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/10/2023] [Revised: 08/10/2023] [Accepted: 08/24/2023] [Indexed: 09/29/2023] Open
Abstract
Brown croaker (Miichthys miiuy), a species of fish with significant commercial value, is found in the coastal seas of Korea, China, and Japan. The genetic diversity and population structure of a representative sample of brown croaker specimens were assessed based on the control region of their mitochondrial DNA (mtDNA). Samples from a total of 115 individuals were collected from three separate locations, one in China (Lianyungang) and two in Korea (Mokpo and Gyeongnyeolbiyeoldo Island). Analysis of the 436-base-pair mtDNA control region revealed that the haplotype diversity ranged from 0.973 ± 0.025 to 0.988 ± 0.008, while the nucleotide diversity ranged from 0.012 ± 0.006 to 0.017 ± 0.009. The level of genetic diversity, star-shaped haplotype network, significant Fu's Fs test, and analysis of the mismatch distribution all suggested that this species has experienced population expansion. Fixation index analysis indicated that the population collected at the site in China differed significantly from the two populations obtained in Korea. The findings of this study extend the general understanding of the population structure of M. miiuy and can be used to develop strategies for effective resource management.
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Affiliation(s)
- Woo-Seok Gwak
- Department of Marine Biology and Aquaculture, The Institute of Marine Industry, Gyeongsang National University, Tongyeong 650-160, Republic of Korea;
| | - Animesh Roy
- Department of Marine Biology and Aquaculture, The Institute of Marine Industry, Gyeongsang National University, Tongyeong 650-160, Republic of Korea;
- Department of Fisheries Biology and Aquatic Environment, Bangabandhu Sheikh Mujibur Rahman Agricultural University, Gazipur 1706, Bangladesh
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Hong Y, Kim JJ, Yu YC, Kim HS, Moon G, Park EM. Ultra-fast PCR method for the distinguishing between Miichthys miiuy and Sciaenops ocellatus. Food Sci Biotechnol 2021; 30:1225-1231. [PMID: 34603821 DOI: 10.1007/s10068-021-00954-4] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/12/2020] [Revised: 07/19/2021] [Accepted: 07/22/2021] [Indexed: 11/25/2022] Open
Abstract
The mi-iuy croaker Miichthys miiuy has immense commercial value in the Republic of Korea. The red drum Sciaenops ocellatus is widely produced by aquaculture, although its price is approximately 25% that of M. miiuy. S. ocellatus has black spots on its tail, enabling it to be distinguished from M. miiuy based on appearance. However, identifying S. ocellatus after simple processing steps, such as skin removal and dicing, is difficult. Certain traders misrepresent and sell S. ocellatus as M. miiuy or cultured M. miiuy for illegal economical gain. Therefore, an accurate and rapid identification method is required to distinguish between M. miiuy and S. ocellatus in the field. Here, a method for rapid field identification was developed based on species-specific primers using a portable ultra-fast PCR instrument. The ultra-fast real-time PCR method can complete the entire analytical procedure, including DNA isolation, amplification, and detection, within 30 min, thus maintaining the accuracy of identifying M. miiuy and S. ocellatus products on site. Forty-nine commercial products were tested, and all samples were successfully identified. Thus, the developed method is rapid, efficient tool for ensuring consumer protection. Supplementary Information The online version contains supplementary material available at 10.1007/s10068-021-00954-4.
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Affiliation(s)
- Yewon Hong
- New Hazardous Substance Division, National Institute of Food and Drug Safety Evaluation, Ministry of Food and Drug Safety, Osong, 28159 Chungcheongbuk-do Korea
| | - Jung Ju Kim
- New Hazardous Substance Division, National Institute of Food and Drug Safety Evaluation, Ministry of Food and Drug Safety, Osong, 28159 Chungcheongbuk-do Korea
| | - Yeon-Cheol Yu
- New Hazardous Substance Division, National Institute of Food and Drug Safety Evaluation, Ministry of Food and Drug Safety, Osong, 28159 Chungcheongbuk-do Korea
| | - Hyung Soo Kim
- New Hazardous Substance Division, National Institute of Food and Drug Safety Evaluation, Ministry of Food and Drug Safety, Osong, 28159 Chungcheongbuk-do Korea
| | - Guiim Moon
- New Hazardous Substance Division, National Institute of Food and Drug Safety Evaluation, Ministry of Food and Drug Safety, Osong, 28159 Chungcheongbuk-do Korea
| | - Eun Mi Park
- New Hazardous Substance Division, National Institute of Food and Drug Safety Evaluation, Ministry of Food and Drug Safety, Osong, 28159 Chungcheongbuk-do Korea
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Chu Q, Bi D, Zheng W, Xu T. MicroRNA negatively regulates NF-κB-mediated immune responses by targeting NOD1 in the teleost fish Miichthys miiuy. Sci China Life Sci 2021; 64:803-15. [PMID: 32815068 DOI: 10.1007/s11427-020-1777-y] [Citation(s) in RCA: 30] [Impact Index Per Article: 7.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/14/2020] [Accepted: 07/20/2020] [Indexed: 12/11/2022]
Abstract
Inflammation is a self-protection mechanism that can be triggered when innate immune cells detect infection. Eradication of pathogen infection requires appropriate immune and inflammatory responses, but excessive inflammatory responses can cause uncontrolled inflammation, autoimmune diseases, or pathogen dissemination. Mounting evidence has shown that microRNAs (miRNAs) in mammals act as important and versatile regulators of innate immunity and inflammation. However, miRNA-mediated regulation networks are largely unknown in inflammatory responses in lower vertebrates. Here miR-144 and miR-217 are identified as negative regulators in teleost inflammatory responses. We find that Vibrio harveyi and lipopolysaccharide (LPS) treatment significantly upregulate the expression of fish miR-144 and miR-217. Upregulated miR-144 and miR-217 suppress LPS-induced inflammatory cytokine expression by targeting nucleotide-binding oligomerization domain-containing protein 1 (NOD1), thereby avoiding excessive inflammatory responses. In addition, miR-144 and miR-217 regulate inflammatory responses through NOD1-induced nuclear factor kappa (NF-kB) signaling pathways. These findings demonstrate that miR-144 and miR-217 play regulatory roles in inflammatory responses by modulating the NOD1-induced NF-κB signaling pathway.
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Huo R, Zhao X, Han J, Xu T. Genomic organization, evolution and functional characterization of soluble toll-like receptor 5 (TLR5S) in miiuy croaker ( Miichthys miiuy). Fish Shellfish Immunol 2018; 80:109-114. [PMID: 29857132 DOI: 10.1016/j.fsi.2018.05.048] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/01/2018] [Revised: 05/22/2018] [Accepted: 05/29/2018] [Indexed: 06/08/2023]
Abstract
Toll-like receptors (TLRs) play the key role in host defense of invasion of pathogens, not only in the innate immunity, but also in adaptive immunity. There are significant varieties and distinct features in fish TLRs, the TLR5 subfamily have two members (TLR5M and TLR5S). However, the exact role of TLR5 was lack of research in fish. In this study, a soluble form of TLR5 (TLR5S) was identified in miiuy croaker. The bioinformatics analysis showed that miiuy croaker TLR5S lacked the transmembrane domain and TIR domain. In other words, mmiTLR5S only has leucine-rich repeats (LRRs) domain, it is one of differences between TLR5M and TLR5S. Comparative genomic analysis showed that TLR5S might have happened an evolution between species. Expression analysis showed that mmiTLR5S was expressed in all tested miiuy croaker tissues and the mmiTLR5S expressions were significantly upregulated at 12 h in liver and kidney after Vibrio harveyi infection. Further functional experiments showed that NF-кB can be actived by mmiTLR5S, TLR5S might be an indispensable role in organism immune response. In short, the study of mmiTLR5S enriches the information of TLR5S and lays the foundation for future research on teleost TLRs system.
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Affiliation(s)
- Ruixuan Huo
- Laboratory of Fish Biogenetics & Immune Evolution, College of Marine Science, Zhejiang Ocean University, Zhoushan, 316022, China
| | - Xueyan Zhao
- Laboratory of Fish Biogenetics & Immune Evolution, College of Marine Science, Zhejiang Ocean University, Zhoushan, 316022, China
| | - Jingjing Han
- Laboratory of Fish Biogenetics & Immune Evolution, College of Marine Science, Zhejiang Ocean University, Zhoushan, 316022, China
| | - Tianjun Xu
- Laboratory of Fish Biogenetics & Immune Evolution, College of Marine Science, Zhejiang Ocean University, Zhoushan, 316022, China; Key Laboratory of Exploration and Utilization of Aquatic Genetic Resources (Shanghai Ocean University), Ministry of Education, 201306, China; International Research Center for Marine Biosciences at Shanghai Ocean University, Ministry of Science and Technology, 201306, China; National Pathogen Collection Center for Aquatic Animals, Shanghai Ocean University, 201306, China.
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Liu F, Lou B, Chen RY, Xu QX, Ma T, Zhan W, Wang LG, Mao GM, Xu DD. [Relationship between morphological traits and body mass of Miichthys miiuy]. Ying Yong Sheng Tai Xue Bao 2016; 27:4059-4066. [PMID: 29704368 DOI: 10.13287/j.1001-9332.201612.002] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Subscribe] [Scholar Register] [Indexed: 11/04/2022]
Abstract
Miichthys miiuy Basilewsky is a commercially important marine fish in China. To understand the relationship between body mass and morphometric traits of M. miiuy, body mass (Y, g) and other eight morphometric traits (cm), e.g., total length (X1), body length (X2), head length (X3), trunk length (X4), tail length (X5), tail handle length (X6), tail handle height (X7), and body height (X8) of 524 individuals of about 12-month-old M. miiuy were measured in this study. The methods of correlation analysis, multiple regression analysis, and path ana-lysis were used to analyze the data. Also, the best model reflecting the relationship between morphometric traits and body mass were obtained through model fitting screening. The results showed that the correlation coefficients between every two traits ranged from 0.834 to 0.941, and all reached significance level (P<0.01). And body length was ruled out from the multiple regression analysis by the method of multicollinearity diagnosis. We established a regression equation using the rest morphologi-cal traits as variables and body mass as dependent variable, in which direct and indirect path coefficients and determinant coefficients were calculated. Four morphometric traits achieved highly significant levels (P<0.01), and they were the main decisive morphometric traits linked to body mass. The multiple linear regression model equation was established as Y=-444.188 +7.943X1+12.861X4 +38.254X7 + 42.722X8. Among them, the trait with the strongest direct effect on body mass was the body height (0.351), then the total length (0.335). In addition, the best model fitted for the individuals was y=0.013 x2.891 for total length, y=2.028 x2.751 for body height. The method of model fit test showed the accuracy of total length estimated body mass was higher than that of body height. This research may provide an important reference for the effective use of morphological traits for breeding of M. miiuy.
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Affiliation(s)
- Feng Liu
- Marine Fisheries Research Institute of Zhejiang, Zhoushan 316021, Zhejiang, China.,Marine and Fishery Research Institute, Zhejiang Ocean University, Zhoushan 316022, Zhejiang, China
| | - Bao Lou
- Marine Fisheries Research Institute of Zhejiang, Zhoushan 316021, Zhejiang, China.,Zhejiang Province Key Laboratory of Mariculture and Enhancement, Zhoushan 316021, Zhejiang, China
| | - Rui Yi Chen
- Marine Fisheries Research Institute of Zhejiang, Zhoushan 316021, Zhejiang, China.,Zhejiang Province Key Laboratory of Mariculture and Enhancement, Zhoushan 316021, Zhejiang, China
| | - Qi Xiang Xu
- Marine Fisheries Research Institute of Zhejiang, Zhoushan 316021, Zhejiang, China.,Zhejiang Province Key Laboratory of Mariculture and Enhancement, Zhoushan 316021, Zhejiang, China
| | - Tao Ma
- Marine Fisheries Research Institute of Zhejiang, Zhoushan 316021, Zhejiang, China.,Zhejiang Province Key Laboratory of Mariculture and Enhancement, Zhoushan 316021, Zhejiang, China
| | - Wei Zhan
- Marine Fisheries Research Institute of Zhejiang, Zhoushan 316021, Zhejiang, China.,Zhejiang Province Key Laboratory of Mariculture and Enhancement, Zhoushan 316021, Zhejiang, China
| | - Li Gai Wang
- Marine Fisheries Research Institute of Zhejiang, Zhoushan 316021, Zhejiang, China.,Marine and Fishery Research Institute, Zhejiang Ocean University, Zhoushan 316022, Zhejiang, China
| | - Guo-Min Mao
- Marine Fisheries Research Institute of Zhejiang, Zhoushan 316021, Zhejiang, China.,Zhejiang Province Key Laboratory of Mariculture and Enhancement, Zhoushan 316021, Zhejiang, China
| | - Dong Dong Xu
- Marine Fisheries Research Institute of Zhejiang, Zhoushan 316021, Zhejiang, China.,Zhejiang Province Key Laboratory of Mariculture and Enhancement, Zhoushan 316021, Zhejiang, China
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Ren L, Wang R, Xu T. Three representative subtypes of caspase in miiuy croaker: genomic organization, evolution and immune responses to bacterial challenge. Fish Shellfish Immunol 2014; 40:61-68. [PMID: 24973513 DOI: 10.1016/j.fsi.2014.06.022] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/18/2014] [Revised: 06/16/2014] [Accepted: 06/18/2014] [Indexed: 06/03/2023]
Abstract
Caspase proteins are intracellular proteases which function as initiators and effectors of apoptosis. According their difference of functions, the caspases can be divided into apoptosis related caspases and inflammatory mediator, and the former included apoptosis activator and apoptosis executioner. In this study, three different subtype caspases (caspase1, caspase3 and caspase9) from Miichthys miiuy miiuy croaker were analyzed. The caspase1 belongs to the inflammatory mediator, caspase3 belongs to apoptosis executioner, and caspase9 belongs to apoptosis activator. Miichthys miiuy caspase1 (Mmcaspase1) and Mmcaspase9 exhibited three conserved domains including a CARD, a large subunit p20 and a small subunit p10. The Mmcaspase3 encoded two conserved domains including a large subunit p20 and a small subunit p10. Mmcaspase3 and Mmcaspase9 contained a histidine active sequence and a cysteine active sequence. However, Mmcaspase1 only contained the cysteine active sequence. The real-time PCR (RT-PCR) analysis showed these three caspases were expressed constitutively in all examined tissues in miiuy croaker, although the expression levels varied from tissue to tissue. Expression analysis showed that Mmcaspase1 was up-regulated obviously in liver, spleen and kidney, and indicated its positive role in response to Vibrio anguillarum infection, but Mmcaspase3 and Mmcaspase9 showed different expression pattern in liver, spleen and kidney, its showed that different subtypes of caspase having different immune response mechanisms. These results revealed that the organs adjusted the expressions of these three genes with the infected of pathogens, suggesting the immunoprotection of these genes.
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Affiliation(s)
- Liping Ren
- Laboratory of Fish Biogenetics & Immune Evolution, College of Marine Science, Zhejiang Ocean University, Zhoushan 316022, China
| | - Rixin Wang
- Laboratory of Fish Biogenetics & Immune Evolution, College of Marine Science, Zhejiang Ocean University, Zhoushan 316022, China
| | - Tianjun Xu
- Laboratory of Fish Biogenetics & Immune Evolution, College of Marine Science, Zhejiang Ocean University, Zhoushan 316022, China.
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Xu T, Sun D, Sun Y, Wang R. Development of 30 novel polymorphic Expressed Sequence Tags (EST)-derived microsatellite markers for the Miiuy Croaker, Miichthys miiuy. Int J Mol Sci 2011; 12:4021-6. [PMID: 21747722 PMCID: PMC3131606 DOI: 10.3390/ijms12064021] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/17/2011] [Revised: 05/06/2011] [Accepted: 05/20/2011] [Indexed: 12/02/2022] Open
Abstract
Expressed sequence tags (ESTs) can be used to identify microsatellite markers. We developed 30 polymorphic microsatellite markers from 5053 ESTs of the Miichthys miiuy. Out of 123 EST derived microsatellites for which PCR primers were designed, 30 loci were polymorphic in 30 individuals from a single natural population with 2–13 alleles per locus. The observed and expected heterozygosities were from 0.1024 to 0.7917 and from 0.2732 to 0.8845, respectively. Nine loci deviated from the Hardy-Weinberg equilibrium, and linkage disequilibrium was significant between 22 pairs of loci. These polymorphic microsatellite loci will be useful for genetic diversity analysis and molecule-assisted breeding for M. miiuy.
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Affiliation(s)
- Tianjun Xu
- Key Laboratory for Marine Living Resources and Molecular Engineering, College of Marine Science, Zhejiang Ocean University, Zhoushan 316000, China; E-Mails: (T.X.); (D.S.); (Y.S.)
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