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

{"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}

{"title":"Transcriptomic analysis reveals the hepatopancreas metabolic mechanisms of mud crab Scylla paramamosain fed diets with terrestrial animal fat sources replacing fish oil","authors":"Jinjin Liu ,&nbsp;Shihui Cui ,&nbsp;Zihao Ye ,&nbsp;Jing Chen ,&nbsp;Mengyao Tang ,&nbsp;Chaojia Chen ,&nbsp;Yifang Xu ,&nbsp;Ziyi Wang ,&nbsp;Wei Yang ,&nbsp;Ziping Zhang ,&nbsp;Xuexi Wang","doi":"10.1016/j.cbd.2025.101435","DOIUrl":"10.1016/j.cbd.2025.101435","url":null,"abstract":"<div><div>The transcriptome analysis following an 8-week feeding trial was employed to investigate the impacts of dietary terrestrial animal fats (TAFs includes lard oil (LO), beef tallow (BT) and poultry oil (PO)) replacing fish oil (FO) on the metabolic mechanism in hepatopancreas of mud crabs (<em>Scylla paramamosain</em>). The fatty acid (FA) transport, biosynthesis and lipid absorption and digestion were reduced through the regulation of PPAR pathway and the mRNA expressions of <em>monoglyceride lipases</em> (<em>mgls</em>), <em>phosphatidate phosphatase-1</em> (<em>pap1</em>), <em>acyl-sn-glycerol-3-phosphate acyltransferase delta</em> (<em>plcd</em>), <em>cAMP-dependent protein kinase catalytic</em> (<em>pkac</em>), <em>FA-binding protein 1</em> (<em>fabp-1</em>), <em>FA transport protein 4</em> (<em>fatp-4</em>), <em>short/branched chain specific acyl-CoA dehydrogenase</em> (<em>acdsb</em>) and <em>enoyl-CoA delta isomerase 2</em> (<em>eci2</em>), etc., after replacing FO with BT or LO. At the same time, dietary BT and LO regulated glycolysis, gluconeogenesis and insulin signals through increasing the genes of <em>pyruvate dehydrogenase E1</em> (<em>pdh</em>), <em>phosphoenolpyruvate carboxykinase</em> (<em>pepck</em>) and <em>phosphatidylinositol 3-kinase</em> (<em>pi3k</em>) and regulated immunity status by down regulating the mRNA expressions of <em>heat shock proteins 27</em> (<em>hsp 27</em>), <em>cytochrome P450</em> (<em>cyp 450</em>), etc. Replacing FO with PO enhanced phospholipid storage, fat deposition, and inhibited glucose transport by up regulating <em>pap1</em>, <em>mgls</em>, <em>lipin 1</em>, <em>lipinβ</em> and down regulating <em>glycosyl transferase</em> (<em>gt</em>) and <em>glucose transporter type 4</em> (<em>glut4</em>) expressions. The present study showed the signaling pathways and genes that were significantly regulated by TAFs replacing dietary FO, and revealed molecular mechanisms of TAFs in <em>S. paramamosain</em>. This would be conducive to the application of TAFs in aquatic feed.</div></div>","PeriodicalId":55235,"journal":{"name":"Comparative Biochemistry and Physiology D-Genomics & Proteomics","volume":"54 ","pages":"Article 101435"},"PeriodicalIF":2.2,"publicationDate":"2025-02-04","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143348485","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":"Integrated Vibrio load variation and transcriptome profiles provide new insights into the defensive response of Cyclina sinensis under Vibrio parahaemolyticus infection","authors":"Fengjuan Jiang ,&nbsp;Jiaxiao Sun ,&nbsp;Kun Liu ,&nbsp;Xin Li ,&nbsp;Yanqing Shao ,&nbsp;Qing Nie ,&nbsp;Dehui Sun ,&nbsp;Xiuke Ouyang ,&nbsp;Weihong Zhao","doi":"10.1016/j.cbd.2025.101434","DOIUrl":"10.1016/j.cbd.2025.101434","url":null,"abstract":"<div><div><em>Vibrio parahaemolyticus</em> is the dominant pathogen in mariculture, leading to the bivalves' mass summer mortality. This study investigated the antibacterial defense mechanism of the <em>Cyclina sinensis against V. parahaemolyticus</em>. The immersion challenge revealed that the daily mortality of <em>C. sinensis</em> increased and then decreased gradually, and the mass mortality occurred about a week after <em>V. parahaemolyticus</em> infection. The <em>Vibrio</em> load in the hepatopancreas of <em>C. sinensis</em> was dramatically increased at 12–24 hpi (hours post-infection) and then declined significantly at 2–7 dpi (days post-infection). RNA-Seq generated 866 differentially expressed genes (DEGs), and KEGG analyses enriched multiple innate immune-related and metabolic-related pathways. The expression levels of nine immune-related and metabolic-related DEGs were significantly changed after <em>Vibrio</em> infection, and their temporal expression patterns were multiple. Our results indicated that the immunity and metabolic responses might be reprogrammed to protect the host against pathogens at the early infection phase. This study would expand our knowledge of the pathogenesis mechanisms of clams infected with <em>Vibrio</em> and provide a theoretical basis for healthy shellfish cultivation.</div></div>","PeriodicalId":55235,"journal":{"name":"Comparative Biochemistry and Physiology D-Genomics & Proteomics","volume":"54 ","pages":"Article 101434"},"PeriodicalIF":2.2,"publicationDate":"2025-02-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143141275","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":"De novo transcriptomic analysis to identify candidate genes potentially related to host recognition during infective stage of Caligus fugu (Crustacea: Copepoda)","authors":"K.M. Shakil Rana ,&nbsp;Takanori Sonoda ,&nbsp;Yoshiki Sato ,&nbsp;Yusuke Kondo ,&nbsp;Susumu Ohtsuka ,&nbsp;Tomonari Kotani ,&nbsp;Daisuke Ueno ,&nbsp;Satoshi Tasumi","doi":"10.1016/j.cbd.2025.101433","DOIUrl":"10.1016/j.cbd.2025.101433","url":null,"abstract":"<div><div>Attachment site recognition for infecting a definite host is crucial for obligate ectoparasites. <em>Caligus fugu</em>, a marine copepod parasite primarily found on pufferfishes, has a unique host-/organ-specificity. The infective stage of the species exclusively infects host fins as the attachment site. However, so far, little is known about the mechanism underlying the specificity of <em>C. fugu</em>. In this study, transcriptomic profiles of the infective first copepodid stage (CI) along with the pre- and a post-infective stage, <em>i.e.</em>, second nauplii (NII) and second copepodids (CII), respectively, were investigated. The <em>de novo</em> assembled transcriptome of <em>C. fugu</em> showed that a high number of transcripts showed high homology to those of relative species, <em>Caligus rogercresseyi</em> (94.7 %) and <em>Lepeophtheirus salmonis</em> (91.0 %), suggesting that only a small portion of species-specific genes contribute to interspecific differences, such as host-seeking. Importantly, no gene was noted from the odorant receptors and gustatory receptors families in <em>C. fugu</em> transcripts, similar to <em>L. salmonis</em> genome. Genes related to chemosensing such as the ionotropic glutamate receptors (iGluR) or ionotropic receptors (IRs), <em>viz.</em>, <em>GRIA2</em>, <em>GRIA3</em>, <em>GRID2</em>, <em>GRIK2</em>, <em>GRIK3</em>, <em>IR21a</em>, <em>IR25a</em>, <em>IR40a</em>, and <em>IR93a</em>, likely involved in host-seeking, were highly expressed during CI among the three stages. In addition, inositol 1,4,5-triphosphate receptor-associated 2, another potential candidate gene involved in host-seeking, was significantly upregulated in CI compared with that in NII and maintained at the same level in CII. Our present transcriptomic data should offer a foundation for further investigations on various biological aspects, such as the host-/organ-specificity of sea lice.</div></div>","PeriodicalId":55235,"journal":{"name":"Comparative Biochemistry and Physiology D-Genomics & Proteomics","volume":"54 ","pages":"Article 101433"},"PeriodicalIF":2.2,"publicationDate":"2025-02-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143141276","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}