Comparative Biochemistry and Physiology D-Genomics & Proteomics最新文献

{"title":"Comparative analysis of spleen structure, biochemical parameters, and transcriptome of adult and juvenile yellowfin tuna (Thunnus albacares) in the South China Sea","authors":"Wanlin Guan ,&nbsp;Xiameng Su ,&nbsp;Xu Ji ,&nbsp;Jigui Yuan ,&nbsp;Qian Li ,&nbsp;Ying Zou ,&nbsp;Zhiyuan Lu ,&nbsp;Juan Xiao ,&nbsp;Mei Wang ,&nbsp;Zhiqiang Guo","doi":"10.1016/j.cbd.2025.101445","DOIUrl":"10.1016/j.cbd.2025.101445","url":null,"abstract":"<div><div>As one of the top predators in the ocean, yellowfin tuna possesses physiological characteristics that are highly adapted to its high-speed swimming habits, such as high cardiac output and efficient oxygen uptake and transportation systems, which enable it to swim rapidly various diverse layers of the water for feeding activities. These physiological characteristics are intricately associated with the efficient hematopoietic function of its spleen, which plays a crucial role in maintaining its long-distance migration and sustained physical activity in particular. However, there are fewer studies on the developmental biology and function of the spleen in this species. In order to investigate the changes in spleen structure and function during the development of yellowfin tuna, this study compared the histological characteristics, biochemical indexes and transcriptome profiles of the spleen in adult and juvenile yellowfin tuna from the South China Sea. Hematoxylin and eosin (H&amp;E), Masson, and reticular fiber staining revealed that the proportion of white pulp and the mean number of blood sinus in the spleen of adult fish were significantly less than those in juvenile fish (<em>p</em> &lt; 0.05), while the relative area of red pulp displayed no significant difference between the two groups. In addition, the contents of granulocyte-macrophage colony-stimulating factor, erythropoietin, thrombopoietin, and stromal cell-derived factor 1 were significantly lower in the spleen of adult fish than in juvenile fish (<em>p</em> &lt; 0.001), while the contents of bone morphogenetic protein 2 and transforming growth factor β1 were significantly increased in juvenile fish spleens (<em>p</em> &lt; 0.001). Comparative transcriptome analysis revealed that there were 1255 differentially expressed genes (DEGs) between adult and juvenile fish, of which 477 were upregulated and 778 were down-regulated. Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway enrichment analyses revealed that these DEGs were mainly related to embryonic hematopoiesis, the development of blood and lymphoid organs, and the HIF-1 signaling pathway. Key DEGs associated with hematopoietic function were further identified, such as <em>pik3r3b</em>, <em>gata1a</em>, <em>klf1</em>, <em>epor</em>, and <em>lmo2</em>. In conclusion, this study offers a comprehensive comparison of spleen histology, cytokine activities related to hematopoiesis and cell development, and transcriptomic differences between adult and juvenile yellowfin tuna. These findings provide valuable insights into the spleen hematopoietic development mechanism of decoding yellowfin tuna and other tuna species.</div></div>","PeriodicalId":55235,"journal":{"name":"Comparative Biochemistry and Physiology D-Genomics & Proteomics","volume":"54 ","pages":"Article 101445"},"PeriodicalIF":2.2,"publicationDate":"2025-02-16","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143436402","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Transcriptomic and metabolomic analyses provide insights into the energy metabolism and signaling regulation of byssus secretion in winged pearl oyster Pteria penguin","authors":"Yi Chen ,&nbsp;Changqing Han ,&nbsp;Huilong Ou ,&nbsp;Hengda Chen ,&nbsp;Yibing Liu ,&nbsp;Xin Zhan","doi":"10.1016/j.cbd.2025.101446","DOIUrl":"10.1016/j.cbd.2025.101446","url":null,"abstract":"<div><div>The winged pearl oyster <em>Pteria penguin</em> has the unique stout byssus in comparison with other pearl oysters. However, the mechanism of the byssus secretion in this species has not been largely investigated. This study applied transcriptomic and metabolomic techniques to elucidate this mechanism. The results showed that 3420 differentially expressed genes (DEGs) were identified which were enriched in glycolysis/gluconeogenesis, pentose phosphate pathway, TCA cycle, fatty acid metabolism, mTOR signaling pathway, FoxO signaling pathway and Notch signaling pathway. The metabolomic analysis revealed that 135 significantly different metabolites (SDMs) were identified with 23 pathways involved, including pentose phosphate pathway, glutathione metabolism and amino acid metabolism. Comprehensive analysis of transcriptome and metabolome indicated that glycogen, fatty acid metabolism and protein conversion could be used interchangeably as energy sources. Moreover, the glutathione metabolism and immune response demonstrated the importance of cellular homeostasis for byssus secretion in the winged pearl oyster. Dynamic expression of 5-hydroxytryptamine, dopamine receptors and adenylate cyclase suggested that the foot may regulate byssus secretion through an aminergic neurofeedback system which could translate information into neurochemical signals. In conclusion, this study provided insights into the energy metabolism and signaling regulation of byssus secretion in winged pearl oyster by the transcriptomic and metabolomic analyses.</div></div>","PeriodicalId":55235,"journal":{"name":"Comparative Biochemistry and Physiology D-Genomics & Proteomics","volume":"54 ","pages":"Article 101446"},"PeriodicalIF":2.2,"publicationDate":"2025-02-13","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143429009","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Pyraclostrobin-induced toxic effects in the gills of common carp (Cyprinus carpio L.): Mechanisms unveiled through biochemical, molecular, and metabolomic analyses","authors":"Haoyang Zhao ,&nbsp;Qingping Ma ,&nbsp;Shuhan Lu ,&nbsp;Shangwu Liu ,&nbsp;Yiyi Feng ,&nbsp;Yang Liu ,&nbsp;Bangjun Zhang","doi":"10.1016/j.cbd.2025.101443","DOIUrl":"10.1016/j.cbd.2025.101443","url":null,"abstract":"<div><div>Pyraclostrobin (PYR) is widely used in agriculture to control fungal infestations. However, the toxic effects of PYR on aquatic organisms remain poorly understood. In this study, common carp were exposed to 0.5, and 5.0 μg/L PYR for 30 days to evaluate the chronic effects on gill health via histopathological, biochemical, molecular, and metabolomic analyses. The findings revealed that exposure to PYR resulted in significant histopathological alterations, suppression of mitochondrial complex III activity, and excessive production of reactive oxygen species (ROS), including O₂^•- and H₂O₂. Additionally, PYR exposure altered the levels of superoxide dismutase (SOD), catalase (CAT), and glutathione (GSH) while increasing the malondialdehyde (MDA) content in the gills of common carp. The protein expression levels of lysozyme (LZM), tumor necrosis factor alpha (TNF-α), interleukin 1 beta (IL-1β), and transforming growth factor beta (TGF-β) were significantly elevated following exposure to PYR, whereas the levels of complement 3 (C3) and immunoglobulin M (IgM) were decreased. Furthermore, the amount of IL-6 decreased on day 15 before increasing on day 30. Further analysis revealed a notable increase in acid phosphatase (ACP) activity and a decrease in alkaline phosphatase (AKP) activity after 30 days of PYR exposure. Moreover, PYR exposure significantly altered the mRNA expression levels of immune-related genes (<em>lzm</em>, <em>c3</em>, and <em>igm</em>) and apoptosis-related genes (<em>p53</em>, <em>bcl-2</em>, <em>bax</em>, <em>caspase-3</em>, and <em>caspase-9</em>). Several inflammatory markers, such as NF-κB p65 protein and the mRNA levels of <em>tlr2</em>, <em>tlr4</em>, <em>myd88</em>, <em>tnf-α</em>, <em>il-1β</em>, <em>il-6</em>, and <em>tgf-β</em>, were also markedly changed. Metabolomic studies demonstrated that PYR influences pathways related to amino acid, nucleotide, arachidonic acid, and linoleic acid metabolism. These results indicate that PYR adversely affects gill health by inducing oxidative stress, disrupting immune and inflammatory responses, affecting apoptosis-related pathways, and altering metabolic homeostasis. This study provides new insights into the toxic mechanisms of PYR and contributes to the assessment of the ecological risks associated with its presence in aquatic ecosystems.</div></div>","PeriodicalId":55235,"journal":{"name":"Comparative Biochemistry and Physiology D-Genomics & Proteomics","volume":"54 ","pages":"Article 101443"},"PeriodicalIF":2.2,"publicationDate":"2025-02-11","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143394758","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Dorsomorphin (DM) inhibits the ovarian development of Portunus trituberculatus by acting on the BMP signaling pathway","authors":"Xiaocong Chen ,&nbsp;Ce Shi ,&nbsp;Yangfang Ye ,&nbsp;Chunlin Wang ,&nbsp;Ronghua Li ,&nbsp;Huan Wang ,&nbsp;Congcong Hou ,&nbsp;Weiwei Song ,&nbsp;Xinghong Xu ,&nbsp;Changkao Mu","doi":"10.1016/j.cbd.2025.101440","DOIUrl":"10.1016/j.cbd.2025.101440","url":null,"abstract":"<div><div>Bone morphogenic proteins (BMPs) regulate animal growth, cell proliferation and differentiation. The BMP signaling pathway plays an important regulatory role during ovarian follicle development in mammals. However, related studies in crustaceans are limited. The focus of this study was the key gene of the BMP signaling pathway, the BMP type I receptor. <em>Portunus trituberculatus</em> was injected with different concentrations of dorsomorphin (DM) and observed for one month to identify the optimal effective concentration for interference with the BMP signaling pathway. Subsequent transcriptomics, proteomics, and metabolomics measurements were performed to identify the effects of BMP signaling on ovarian development in <em>P. trituberculatus</em>. A preliminary mechanism of action of the BMP signaling pathway in the regulation of ovarian development was revealed through combined multiomics analysis and lipid analysis. This study provides a theoretical basis for further exploration of the molecular mechanism regulating gonadal development in crustaceans.</div></div>","PeriodicalId":55235,"journal":{"name":"Comparative Biochemistry and Physiology D-Genomics & Proteomics","volume":"54 ","pages":"Article 101440"},"PeriodicalIF":2.2,"publicationDate":"2025-02-11","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143419809","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Genome-wide analysis reveals the evolutionary history of TAG intracellular lipases and their roles in different molting stages of Decapods","authors":"Yufan Wang ,&nbsp;Maolei Wei ,&nbsp;Saira Naz ,&nbsp;Xirui Zheng ,&nbsp;Xugan Wu","doi":"10.1016/j.cbd.2025.101444","DOIUrl":"10.1016/j.cbd.2025.101444","url":null,"abstract":"<div><div>Intracellular lipases can be broadly divided into two categories: neutral lipases and acid lipases. Adipose triglyceride lipase (ATGL), hormone-sensitive lipase (HSL), and monoacylglycerol lipase (MAGL) are three key neutral lipases responsible for the hydrolysis of triacylglycerol (TAG) in lipid droplets (LDs). Although these three TAG intracellular lipase genes have been identified and characterized in multiple model species, their evolutionary history remains largely unknown. For the TAG intracellular lipase genes in Decapoda, there is also a large knowledge gap. Thus, in this study, we performed a genome-wide identification and investigation of TAG intracellular lipase genes in Decapoda and outgroups, analyzing their phylogenetics, structural features, conserved motifs, and expression patterns. In total, 22 <em>ATGL</em> genes, 23 <em>HSL</em> genes and 21 <em>MAGL</em> genes were identified in 17 selected species. <em>HSL</em> is the oldest and most conserved gene to exist in any species. Furthermore, RNA-seq analysis was conducted on two representative Decapod species, Chinese mitten crab (<em>Eriocheir sinensis</em>) and swimming crab (<em>Portunus trituberculatus</em>), which represent freshwater and marine environments, respectively. The analysis revealed a positive correlation between the expression levels of TAG intracellular lipase genes and the energy demand during different molting stages. Overall, the results of this study provide valuable insights into the evolutionary history of TAG intracellular lipase genes, which could enhance our understanding for the role of these genes during key physiological processes of Decapods.</div></div>","PeriodicalId":55235,"journal":{"name":"Comparative Biochemistry and Physiology D-Genomics & Proteomics","volume":"54 ","pages":"Article 101444"},"PeriodicalIF":2.2,"publicationDate":"2025-02-11","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143453186","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Comprehensive analysis of lncRNA and mRNA expression in triploid rainbow trout (Oncorhynchus mykiss) liver in response to chronic hypoxia","authors":"Jun Sun ,&nbsp;Yan Han ,&nbsp;Jiao Li ,&nbsp;Huizhen Li ,&nbsp;Yuqiong Meng ,&nbsp;Guoliang Sun ,&nbsp;Changzhong Li ,&nbsp;Rui Ma","doi":"10.1016/j.cbd.2025.101442","DOIUrl":"10.1016/j.cbd.2025.101442","url":null,"abstract":"<div><div>Long non-coding RNAs (lncRNAs) play a crucial role in response to environmental stresses (e.g. hypoxia) in triploid rainbow trout. However, the action mechanism of lncRNAs in triploid rainbow trout liver in chronic hypoxia is still not fully understood. Therefore, we investigated the mechanism of lncRNA and its target genes in response to chronic hypoxia in triploid rainbow trout using high-throughput RNA sequencing and bioinformatics analysis in this study. Results showed that 37 differentially expressed lncRNAs (DElncRNAs) and 780 differentially expressed mRNAs (DEmRNAs) were found in hypoxic group compared to normoxic group. Target genes of DElncRNAs were mainly enriched in Ferroptosis, One carbon pool by folate, Gluconeogenesis and Retinol metabolism pathways. GSEA enrichment of DEmRNA showed significant enrichment for retinol metabolism and steroid hormone biosynthesis. There were 9 key proteins in above pathways forming a protein-protein interaction (PPI) network. As a result of co-expression of DElncRNAs with DEmRNAs, 9 key DEmRNAs and 13 DElncRNAs were screened. Based on the Pearson correlation coefficient &gt; 0.99 and the co-expression relationship between DElncRNAs and DEmRNAs, 3 pairs (MSTRG.5664.2-pck1, XR_002475125.2-pck1, and XR_005052355.1-pck1) of key target gene pairs were screened. Finally, qRT-PCR verified the expression of critical genes. These results provide basic data for rainbow trout to cope with chronic hypoxia and technical support for the development of rainbow trout feeds adapted to hypoxic environments.</div></div>","PeriodicalId":55235,"journal":{"name":"Comparative Biochemistry and Physiology D-Genomics & Proteomics","volume":"54 ","pages":"Article 101442"},"PeriodicalIF":2.2,"publicationDate":"2025-02-09","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143453185","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Synergistic integration of transcriptomics and metabolomics analyses provides novel insights into the mechanisms underlying unsynchronized growth of greater amberjack (Seriola dumerili)","authors":"Hongzhao Long ,&nbsp;Yali Tian ,&nbsp;Dongying Zhang ,&nbsp;Liancheng Li ,&nbsp;Ruijuan Hao ,&nbsp;Hang Li ,&nbsp;Chen Wang ,&nbsp;Xiaoying Ru ,&nbsp;Qiuxia Deng ,&nbsp;Yang Huang ,&nbsp;Chunhua Zhu","doi":"10.1016/j.cbd.2025.101441","DOIUrl":"10.1016/j.cbd.2025.101441","url":null,"abstract":"<div><div>Greater amberjack (<em>Seriola dumerili</em>) has a significant value in the global aquaculture industry because of its adaptive traits and rapid growth rate. However, the unsynchronized growth of greater amberjack poses challenges in its cultivation, and the molecular mechanisms underlying it remain unclear. In the current study, greater amberjack individuals showing growth differences were collected and subjected to transcriptomics and metabolomics analyses. Metabolomics analysis revealed 164 and 206 significantly different metabolites (SDMs) in the positive ion mode (POS) and negative ion mode (NEG) of liquid chromatography-tandem mass spectrometry (LC-MS/MS), respectively (VIP &gt; 1 and <em>P</em> &lt; 0.05). Transcriptomics analysis confirmed 534 differentially expressed genes (DEGs), with |log₂FC| &gt; 1 and false discovery rate (FDR) &lt; 0.05. A total of 87 enriched pathways were identified by integrated metabolomics and transcriptomics analyses and exhibited that fast-growing group (FG) hold enhanced digestive and anabolic capacities, superior glycine synthesis capability, strong feeding behavior, and high skeletal biomineralization activity, while the slow-growing group (SG) consumed additional energy to cope with environmental stress, and growth was hindered during the generation of immune responses. These results revealed the underlying molecular mechanisms of unsynchronized growth in <em>S. dumerili</em>, and promoted the selection process for growth traits.</div></div>","PeriodicalId":55235,"journal":{"name":"Comparative Biochemistry and Physiology D-Genomics & Proteomics","volume":"54 ","pages":"Article 101441"},"PeriodicalIF":2.2,"publicationDate":"2025-02-09","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143419810","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Long-term thermal stress reshapes the tolerance of head kidney of Hong Kong catfish (Clarias fuscus) to acute heat shock by regulating energy metabolism and immune response","authors":"Cunyu Duan ,&nbsp;Lei Yang ,&nbsp;Wanying Chen ,&nbsp;Dayan Zhou ,&nbsp;Shouxiong Cao ,&nbsp;Yulei Zhang ,&nbsp;Guangli Li ,&nbsp;Huapu Chen ,&nbsp;Changxu Tian","doi":"10.1016/j.cbd.2025.101437","DOIUrl":"10.1016/j.cbd.2025.101437","url":null,"abstract":"<div><div>Elevated water temperatures caused by climate warming can affect fish survival. However, fish can maintain normal physiological functions through physiological plasticity. When temperature fluctuations exceed their tolerance range, even stress-resistant species like Siluriformes are affected. It is known that fish have adaptive regulation mechanisms to reshape their tolerance to temperature stress, but the ability to respond to acute thermal shock and recover after adaptive remodeling remains unclear. This study investigated the effects of different culture temperatures on the ability of Hong Kong catfish (<em>Clarias fuscus</em>) to respond to acute heat stress and stress recovery. <em>C. fuscus</em> were cultured at normal temperature (NT, 26 °C) or high temperature (HT, 34 °C) for 90 days, and then their head kidney transcriptome was analyzed after acute heat stress (34 °C) and subsequent recovery (26 °C). The results revealed 8165 differentially expressed genes (DEGs) in the NT group and 8537 DEGs in the HT group during the entire temperature treatment process, with each group responding differently to various stages of temperature treatment. Enrichment analysis showed that both NT and HT groups had enriched pathways related to energy metabolism and immune response during acute heat stress. However, acute heat stress disrupted the energy supply and oxidative metabolism in the NT group, while enhancing the HT group's ability to respond to repeated heat stress. This experiment demonstrated that high-temperature culture reshaped the energy metabolism balance in the head kidney tissue, improving anti-stress and stress recovery abilities. These findings lay a foundation for further research on the plasticity of fish in coping with acute temperature changes.</div></div>","PeriodicalId":55235,"journal":{"name":"Comparative Biochemistry and Physiology D-Genomics & Proteomics","volume":"54 ","pages":"Article 101437"},"PeriodicalIF":2.2,"publicationDate":"2025-02-08","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143376993","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Skin transcriptome of lenok trout (Brachymystax lenok) provides new insight on lectin genes and immune response mechanisms to Aeromonas salmonicida infection","authors":"Hui Liu,&nbsp;Maolin Wang,&nbsp;Jiayu Du,&nbsp;Shuai Wang,&nbsp;Zheng Zhang,&nbsp;Tingting He,&nbsp;Yuang Wang,&nbsp;Yan Chen,&nbsp;Wei Wang,&nbsp;Xuejie Li","doi":"10.1016/j.cbd.2025.101439","DOIUrl":"10.1016/j.cbd.2025.101439","url":null,"abstract":"<div><div><em>Brachymystax lenok</em> is an economically valuable cold-water fish species that has shown lower morbidity during pathogen outbreaks compared to other cold-water species. To elucidate the innate immune mechanisms in <em>B. lenok</em> in response to <em>Aeromonas salmonicida</em> infection, the transcriptome sequencing of the skin was performed. A total of 297,142 unigenes were generated, with 64.21 % (190,809) successfully annotated. Differential expression analysis identified 9238 differentially expressed genes (DEGs), with significant enrichment in immune-related pathways, including NOD-like receptor, C-type lectin receptor, and Toll-like receptor signalling pathways. These pathways may play crucial role in pathogen recognition, immune activation, inflammation, and the induction of adaptive immune responses in <em>B. lenok</em>. Further analysis revealed significant upregulation of pro-inflammatory cytokines, complement system components, and antimicrobial peptides such as hepcidin and cathelicidin, highlighting their pivotal roles in <em>B. lenok</em>'s immune defense. Moreover, a notable finding was the dynamic expression of various lectin families, including C-type lectins, plectins, galectin-3, and β-galactoside-binding lectins, which are involved in pathogen recognition, immune modulation, and cell signalling. Lectins may also contribute to resistance mechanisms by affecting bacterial membrane permeability, disrupting vital metabolic processes, and enhancing synergy with antimicrobial peptides. In the pathological experiments, histological examination correlated the upregulation of inflammatory mediators and complement components with tissue damage, immune cell infiltration, and lesion development, further supporting the involvement of these genes in the immune response. These results will enrich the information in understanding the immune response in <em>B. lenok</em>, and provide basic data for the following proteomics and functional assays that can verify the protein-level activity of these immune-related genes and clarify their specific roles in host defense and resistance mechanisms. This comprehensive transcriptome analysis provides insights into the immune response mechanisms of <em>B. lenok</em>, with particular emphasis on the role of lectins in pathogen recognition and resistance. These findings offer a foundation for further research on immune mechanisms in fish and the development of therapeutic strategies to mitigate infections in aquaculture.</div></div>","PeriodicalId":55235,"journal":{"name":"Comparative Biochemistry and Physiology D-Genomics & Proteomics","volume":"54 ","pages":"Article 101439"},"PeriodicalIF":2.2,"publicationDate":"2025-02-07","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143376994","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Genome-wide identification of aquaporin and their potential role in osmotic pressure regulation in Ruditapes philippinarum","authors":"Tao Liu,&nbsp;Hongtao Nie,&nbsp;Zhongming Huo,&nbsp;Xiwu Yan","doi":"10.1016/j.cbd.2025.101436","DOIUrl":"10.1016/j.cbd.2025.101436","url":null,"abstract":"<div><div>Aquaporins (AQPs) are specialized membrane proteins that create selective water channels, facilitating the transport of water across cell membranes and playing a vital role in maintaining water balance and regulating osmotic pressure in aquatic animals. This study identified 9 <em>aquaporin</em> genes from the genome of <em>R. philippinarum</em>, and a comprehensive analysis was conducted on their gene structure, phylogenetic relationships, protein structure, and chromosome localization. RNA-seq data analysis revealed that <em>aquaporin</em> genes were differentially expressed at different developmental stages, in tissue distribution, and in response to salinity stress. In addition, qPCR results revealed that the expression levels of <em>aquaporin</em> genes (<em>AQP1</em>, <em>AQP4d</em>, and <em>AQP3</em>) were significantly elevated in response to both acute low and high salinity stress, suggesting their important role in osmotic pressure regulation in <em>R. philippinarum</em>. This study's results offer an important reference for further investigations into the regulation of osmotic pressure and salinity adaptation of aquaporin in <em>R. philippinarum.</em></div></div>","PeriodicalId":55235,"journal":{"name":"Comparative Biochemistry and Physiology D-Genomics & Proteomics","volume":"54 ","pages":"Article 101436"},"PeriodicalIF":2.2,"publicationDate":"2025-02-04","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143372593","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}