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

{"title":"Skin mucus proteomic provides insights into the alkaline tolerance of grass carp (Ctenopharyngodon idella)","authors":"Chenghao Li ,&nbsp;Guo Hu ,&nbsp;Jing Huang ,&nbsp;Cuiyun Lu ,&nbsp;Kexin Zhang ,&nbsp;Yubang Shen ,&nbsp;Yuting Zou ,&nbsp;Limin Zhang ,&nbsp;Xianhu Zheng ,&nbsp;Yumei Chang","doi":"10.1016/j.cbd.2025.101523","DOIUrl":"10.1016/j.cbd.2025.101523","url":null,"abstract":"<div><div>Fish skin mucus is a dynamic mucosal layer located between the epidermis and the environment, serving as the first line of defense against external environmental stresses. Studying changes in fish skin mucus under high alkaline conditions can help identify potential biomarkers of alkaline tolerance, thereby providing a basis for developing non-invasive detection methods. In this study, grass carp (<em>Ctenopharyngodon idella</em>) were subjected to a 7-day stress test at three different alkalinity levels: low alkalinity (10 mmol/L sodium bicarbonate), medium alkalinity (30 mmol/L sodium bicarbonate), and high alkalinity (50 mmol/L sodium bicarbonate). Fish skin mucus was collected and analyzed using liquid chromatography-tandem mass spectrometry (LC-MS/MS) in data-independent acquisition (DIA) mode. A total of 9656 proteins were identified across 12 samples from four groups. The low and medium alkalinity groups shared more common functional enrichments, while the high alkalinity group showed significant enrichments in pathways related to oxygen binding, the immune system, and myocarditis. More nodes and pairwise interactions were founded in the high alkalinity group. Multiple proteins related to osmoregulation, including Prostaglandin G/H Synthase 1 (PTGS1) and Group XV Phospholipase A2 (PLA2G15), are highly expressed in the high-alkalinity treatment group. These results suggest that high-alkalinity stress-induced changes in the skin mucus of grass carp reflect the continuous activation of osmoregulatory mechanisms, and the high expression of PTGS1 and PLA2G15 in the skin mucus may serve as signatures of the survival status of grass carp in alkaline conditions.</div></div>","PeriodicalId":55235,"journal":{"name":"Comparative Biochemistry and Physiology D-Genomics & Proteomics","volume":"55 ","pages":"Article 101523"},"PeriodicalIF":2.2,"publicationDate":"2025-04-30","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143903956","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":"Compound Chinese herbal medicine improves immune function and alters intestinal microbiome composition of Hoplobatrachus rugulosus","authors":"Xuhong Yang ,&nbsp;Ruijie Guo ,&nbsp;Zhanyang Tang ,&nbsp;Dandan Wang ,&nbsp;Huiting Li ,&nbsp;Jiao Huang ,&nbsp;Lewen Xia ,&nbsp;Xiangdong Lin ,&nbsp;Kai Huang ,&nbsp;Kai Yu","doi":"10.1016/j.cbd.2025.101525","DOIUrl":"10.1016/j.cbd.2025.101525","url":null,"abstract":"<div><h3>Background</h3><div>The tiger frog (<em>Hoplobatrachus rugulosus</em>) is an economically important species extensively farmed in southern China. However, high-density farming is frequently challenged by infectious diseases such as ascites disease, red leg syndrome, and hepatomegaly disease.</div></div><div><h3>Objective</h3><div>This study aims to develop and evaluate a compounded herbal medicine (CHM, composed of <em>Taraxacum mongolicum</em> Hand-Mazz<em>.</em>, <em>Canarium album</em> (Lour.) Raeusch, <em>Thlaspi arvense</em> Linn<em>.</em>, <em>Metaplexis japonica</em> (Thunb.) Makino, and seed of <em>Vitis vinifera</em> L.) for disease prevention in frog aquaculture.</div></div><div><h3>Methods</h3><div>UPLC-MS/MS was performed to identify and analyze the pharmaceutical constituents of the CHM. Frogs were fed with diets containing 0 % (Control) or graded levels of CHM (0.25 %, 0.5 %, 0.75 %, 1 %) under high-density farming conditions for 80 days. Growth performance, physiology, histopathology and immune parameters were assessed. Subsequently, hepatic protein alterations were explored via iTRAQ-based proteomics, and gut microbial composition was evaluated using 16S rDNA sequencing.</div></div><div><h3>Results</h3><div>A total of 64 bioactive compounds were identified in the CHM. Supplementation of CHM significantly improved growth performance and survival rate, and reduced feed conversion rate. CHM enhanced gut amylase and lipase activities, serum SOD and CAT activities, and decrease serum ASL, ALT, T-CHO, TG levels. Additionally, CHM increased serum immune indicators (IgG, IgM, LZM, ACP, and AKP) and levels of pro-inflammatory factors (IL-6, IL-8, and TNF-α). Proteomic analysis revealed 89 differentially abundant proteins between the CHM1 and Control, primarily associated with pathways related to immune system and infectious diseases: bacterial. Although no significant differences were detected in OTU richness and α-diversity among groups, 1 % CHM supplementation markedly altered gut microbial composition, characterized by increased abundances of Firmicutes and <em>Turicibacter</em>, as well as higher <em>Firmicutes/Bacteroidetes</em> ratio. Functional predictions based on KEGG and COG analyses revealed the alterations of amino acid, lipid, and carbohydrate metabolism, particularly in the CHM1 group.</div></div><div><h3>Conclusion</h3><div>Dietary supplementation with 1 % CHM regulates gut microbiota and hepatic protein expression, promoting growth and enhancing immune function in <em>H. rugulosus</em>. These findings suggest that CHM is a promising feed additive and alternative immunopotentiator for sustainable frog aquaculture.</div></div>","PeriodicalId":55235,"journal":{"name":"Comparative Biochemistry and Physiology D-Genomics & Proteomics","volume":"55 ","pages":"Article 101525"},"PeriodicalIF":2.2,"publicationDate":"2025-04-30","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144133999","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":"Analysis of cDNA microarrays revealed the effects of mating on the ovary and hepatopancreas of female swimming crab (Portunus trituberculatus) during the late stage of ovarian development","authors":"Yi Zhang,&nbsp;Yiner Chen,&nbsp;Congcong Hou,&nbsp;Chunlin Wang,&nbsp;Changkao Mu","doi":"10.1016/j.cbd.2025.101520","DOIUrl":"10.1016/j.cbd.2025.101520","url":null,"abstract":"<div><div>To investigate the differences in the ovaries and hepatopancreas of mated and unmated female <em>Portunus trituberculatus</em> during late ovarian development. This study constructed a cDNA library of the <em>P. trituberculatus</em>. The 113,858 sequences were obtained from the cDNA library and the NCBI database, and a total of 109,533 probes were designed for the cDNA microarray. Microarray analysis was performed on ovaries and hepatopancreas of mated and unmated crabs after six months of aquaculture. A total of 2072 differentially expressed genes (DEGs) were identified in the ovaries, and 1897 DEGs were identified in the hepatopancreas. Enrichment analysis revealed two differential pathways in the ovary, including Hippo signaling pathway and endocytosis, and fourteen differential pathways in the hepatopancreas, including insect hormone biosynthesis and glycolysis. The findings suggest that during late ovarian development, the ovaries focus on efficient energy use, with enhanced foreign substance recognition and a decrease in Vitellogenin (Vn) synthesis/absorption. In the hepatopancreas, there is an emphasis on nerve signal conduction, hormonal regulation, and energy metabolism. The immune and antioxidant capacities of both tissues showed fluctuations. In conclusion, the primary purpose of the <em>P. trituberculatus</em> during this stage is not to promote rapid ovarian development but to regulate energy intake, utilization, and maintain overall physiological stability. This study could provide valuable insights for the optimized breeding of female <em>P. trituberculatus</em> during late ovarian development.</div></div>","PeriodicalId":55235,"journal":{"name":"Comparative Biochemistry and Physiology D-Genomics & Proteomics","volume":"55 ","pages":"Article 101520"},"PeriodicalIF":2.2,"publicationDate":"2025-04-28","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143895637","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":"Metagenomic insights into the alterations of gut microbial community in Bufo gargarizans tadpoles following lead exposure","authors":"Yanjiao Song ,&nbsp;Lod Fabuleux Tresor Baniakina ,&nbsp;Ling Jiang ,&nbsp;Lihong Chai","doi":"10.1016/j.cbd.2025.101522","DOIUrl":"10.1016/j.cbd.2025.101522","url":null,"abstract":"<div><div>Lead (Pb), a prevalent heavy metal contaminant in aquatic environments, has complex effects on the gut microbiome function of aquatic animals. In this study, metagenomic analysis of <em>Bufo gargarizans</em> tadpoles was carried out following Pb exposure. Moreover, histological analysis was performed on the intestines. The results showed that Pb exposure induced histological damage to the intestinal epithelium. Significant differences in microbial abundance and function were detected in the 200 μg/L Pb group compared to the control group. Specifically, an increase in <em>Bosea</em> and <em>Klebsiella</em> was noted at 200 μg/L Pb, which potentially could induce inflammation in tadpoles. Notably, the decrease in the abundance of glycoside hydrolases subsequent to exposure to 200 μg/L Pb is likely to attenuate carbohydrate metabolism. Furthermore, increased fluoroquinolone-related antibiotic resistance genes (ARGs), phenolic-related ARGs, and iron uptake systems following 200 μg/L Pb exposure might heighten the disease risk for tadpoles. These discoveries augment our comprehension of the influences of Pb on the intestinal well-being of amphibians and offer valuable insights for further assessment of the ecological risks that Pb poses to amphibians.</div></div>","PeriodicalId":55235,"journal":{"name":"Comparative Biochemistry and Physiology D-Genomics & Proteomics","volume":"55 ","pages":"Article 101522"},"PeriodicalIF":2.2,"publicationDate":"2025-04-24","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143876902","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":"Lipid droplets play versatile roles in ovarian development of the razor clam Sinonovacula constricta: Insights from proteomic and lipidomic analyses","authors":"Xuxu Tian ,&nbsp;Zhaoshou Ran ,&nbsp;Bowen Yan ,&nbsp;Jiaxin Zhu ,&nbsp;Qiang Zhou ,&nbsp;Fei Kong ,&nbsp;Xiaojun Yan ,&nbsp;Jilin Xu","doi":"10.1016/j.cbd.2025.101519","DOIUrl":"10.1016/j.cbd.2025.101519","url":null,"abstract":"<div><div>Lipid droplet (LD) deposition is a common phenomenon during ovarian development across marine mollusks; however, studies on the protein and lipid composition of their ovarian LDs remain limited. Here, we purified LDs from the ovaries of <em>Sinonovacula constricta</em> and isolated proteins and lipids from these purified LDs for proteomic and lipidomic analyses. Our proteomic analysis identified 3243 proteins, with PLIN2 being the most abundant (37.03 ± 13.56 %). We subsequently conducted a functional analysis of the top 500 most abundant LD-associated proteins, categorizing them into 15 groups, including those involved in lipid metabolism, sterol biosynthesis, tricarboxylic acid cycle, carbohydrate metabolism, G protein superfamily, protein chaperones, transport proteins, nucleotide-catabolic process, protein processing and degradation, cytoskeletal proteins, oxidative stress and immunity, and ribosome-associated proteins. In our lipidomic analysis, we identified 1158 molecules across 52 lipid classes, with phosphatidylcholine (PC) exhibiting the greatest diversity at 209 varieties, followed by EtherPC with 177 varieties and triglyceride (TG) with 149 varieties. The fatty acid (FA) analysis of LDs revealed that 16:0 was the most abundant (30.01 ± 0.42 %). Additionally, LDs were found rich in long-chain polyunsaturated FAs (35.63 ± 4.36 %), particularly EPA and DHA. Moreover, we analyzed the FA composition of TGs, PCs, and EtherPCs derived from ovarian LDs. In PCs and TGs, the predominant FAs were 16:0, 16:1, and 18:3, while 16:0, 22:6, and 18:4 constituted the major FA species in EtherPCs. Together, our results suggest that ovarian LDs in <em>S. constricta</em> not only participate in lipid metabolism but also interact with other organelles and metabolic processes, thereby facilitating ovarian development.</div></div>","PeriodicalId":55235,"journal":{"name":"Comparative Biochemistry and Physiology D-Genomics & Proteomics","volume":"55 ","pages":"Article 101519"},"PeriodicalIF":2.2,"publicationDate":"2025-04-24","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143877003","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":"The role of cortisol in the acute immune regulation of channel catfish (Ictalurus punctatus) spleen stimulated by Aeromonas hydrophila","authors":"Yingying Zhang ,&nbsp;Siyuan Zhang ,&nbsp;Liqiang Zhong ,&nbsp;Guoxing Liu ,&nbsp;Yanming Sui ,&nbsp;Minghua Wang ,&nbsp;Hucheng Jiang","doi":"10.1016/j.cbd.2025.101517","DOIUrl":"10.1016/j.cbd.2025.101517","url":null,"abstract":"<div><div>Channel catfish (<em>Ictalurus punctatus</em>), a significant aquaculture species, occupies a prominent position in the aquaculture industry due to its rapid growth, excellent adaptability, and economic value; however, the hemorrhagic disease caused by <em>Aeromonas hydrophila</em> has had a substantial impact on its cultivation. Researches have indicated that cortisol, the main stress hormone, is essential for regulating immune responses. Therefore, in this study, the immune regulatory effects of cortisol on the spleen tissue under <em>Aeromonas hydrophila</em> stimulation were analyzed. Through transcriptomic (RNA-seq) analysis, we identified 167 differentially expressed genes (DEGs) regulated by cortisol. The KEGG enrichment analysis indicated that the DEGs were predominantly associated with various biological pathways, including antigen processing and presentation, bladder cancer, autophagy in animals, lipid metabolism, and atherosclerosis. Protein-protein interaction network analysis further indicated that these DEGs participate in key signaling pathways, including HIF, JAK-STAT, and NF-KB. Our findings demonstrate that cortisol exerts an immunoregulatory effect by modulating these key signaling pathways in the spleen tissue infected with <em>Aeromonas hydrophila</em>, which is of significant importance for understanding the mechanism of cortisol in fish immune responses.</div></div>","PeriodicalId":55235,"journal":{"name":"Comparative Biochemistry and Physiology D-Genomics & Proteomics","volume":"55 ","pages":"Article 101517"},"PeriodicalIF":2.2,"publicationDate":"2025-04-24","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143881842","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":"Transforming growth factor-beta gene family in Labeo rohita: Genome-wide molecular characterization and phylogenetic relationship with other vertebrates","authors":"Saima Naz ,&nbsp;Ahmad Manan Mustafa Chatha","doi":"10.1016/j.cbd.2025.101511","DOIUrl":"10.1016/j.cbd.2025.101511","url":null,"abstract":"<div><div>Recent advancements in animal genetics, biotechnology, and bioinformatics can potentially contribute to the required improvement in fish production and quality. Current study explored for the first-time, various genes from Transforming growth factor-beta (TGF-β) gene family which could play vital role in growth and development of <em>Labeo rohita</em>, an economically important freshwater fish. A number of tools and analysis like characterizing the selected genes, multiple alignment and clade-wise phylogeny, dual Synteny analysis and chromosomal distribution, characterization of proteins, secondary structure and 3D models of proteins, PROSITE scan analysis, and transcription factor binding sites (TFBSs) of selected genes were performed to explore the relationship between selected genes from <em>Labeo rohita</em> and referenced species (<em>Homo sapiens</em>, <em>Danio rerio</em>, <em>Oreochromis niloticus</em>, <em>Chelonia mydas</em>, and <em>Parus major</em>). The study evaluated 27 genes from TGF-β gene family. The results suggested that physicochemical characteristics of studied genes exhibit a basic nature with the few exceptions. Two main clades (BPM like and GDF like) were obtained by the phylogenetic analysis across six vertebrate species. Homogeneity was observed in the gene structure for all selected genes of TGF-β gene superfamily. TGF-β family and TGF-β propeptide family were dominant in domain regions of studied genes. Gene structure comparisons suggested that the TGF-β gene superfamily has arisen by gene duplications events. The study identified five pairs of duplicated gene (segmental duplications) with the Ka/Ks &lt; 1, indicating the negative selection pressure of these genes. The length of selected TFBSs (GATA, HOXD, STAT, HNF-1A, and YY1) ranged from 5 to 9 bp, with the HOXD having maximum bp. This study explored the molecular characterization for TGF-β gene family and related proteins in L. <em>rohita</em> and will potentially serve as basis of development of novel strategies in improvement of fish culture.</div></div>","PeriodicalId":55235,"journal":{"name":"Comparative Biochemistry and Physiology D-Genomics & Proteomics","volume":"55 ","pages":"Article 101511"},"PeriodicalIF":2.2,"publicationDate":"2025-04-21","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143860696","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":"Role of miRNAs in the regulation of the triploid rainbow trout (Oncorhynchus mykiss) liver transcriptome in hypoxic environments","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.2025.101515","DOIUrl":"10.1016/j.cbd.2025.101515","url":null,"abstract":"<div><div>To investigate the effects of hypoxia on the liver of triploid rainbow trout (<em>Oncorhynchus mykiss</em>), we integrated transcriptomic and bioinformatics analyses to decipher the regulatory roles of miRNAs and their target genes under hypoxic conditions. Comparative analyses identified 45 differentially expressed miRNAs (DEmiRNAs) between the hypoxic (group D) and normoxic (group E) groups, as well as 117 hypoxia-associated miRNA-mRNA pairs that exhibited negative regulatory interactions. A systematic miRNA-mRNA interaction network was subsequently constructed to visualise these relationships. Gene Ontology (GO) enrichment analyses showed that target genes of DEmiRNAs were mainly enriched in immune system processes and stimulus-response biological functions. The Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway analysis further showed that vascular endothelial growth factor (VEGF) and ErbB co-activate the downstream MAPK cascade, which plays a crucial role in regulating hepatocyte metabolism, survival, and hypoxia tolerance. The coordinated action of these three pathways together mediates hypoxic stress adaptation in rainbow trout. These findings deepen our understanding of the molecular mechanisms of hypoxic stress in rainbow trout.</div></div>","PeriodicalId":55235,"journal":{"name":"Comparative Biochemistry and Physiology D-Genomics & Proteomics","volume":"55 ","pages":"Article 101515"},"PeriodicalIF":2.2,"publicationDate":"2025-04-18","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143887021","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 TRAF family genes in Urechis unicinctus (Annelida, Echiura) and their responses in resistance to high temperature stress","authors":"Dawei Lin ,&nbsp;Wenwen Jiang ,&nbsp;Yuxin Feng ,&nbsp;Long Zhang ,&nbsp;Wengqing Zhang ,&nbsp;Zhifeng Zhang","doi":"10.1016/j.cbd.2025.101516","DOIUrl":"10.1016/j.cbd.2025.101516","url":null,"abstract":"<div><div>TRAFs (Tumor necrosis factor receptor-associated factors), serving as important signaling mediators, are essential for organismal immunity and biological responses to environmental stress. Temperature is an important environmental factor for the survival of organisms, but so far, the studies on sequence characteristics of the TRAF family genes and their responses to high temperature stress in marine animals are very limited. In this study, we conducted a genome-wide analysis of the TRAF family genes and revealed their characteristics of responding to high temperature stress in <em>Urechis unicinctus</em>, an economic coastal burrowing Echuran worm. Nine TRAF sequences were identified based on <em>U. unicinctus</em> genome database, which belonged to 5 TRAF members by phylogenetic analysis, namely <em>Uu</em>TRAF2, <em>Uu</em>TRAF3a, <em>Uu</em>TRAF3b, <em>Uu</em>TRAF3c, <em>Uu</em>TRAF4a, <em>Uu</em>TRAF4b, <em>Uu</em>TRAF4c, <em>Uu</em>TRAF6 and <em>Uu</em>TRAF7. Especially, the copy number of <em>TRAF3</em> and <em>TRAF4</em> was higher, while the length and number of introns in <em>TRAF2</em> and <em>TRAF3</em> were significantly shorter and fewer in <em>U. unicinctus</em> compared to other invertebrates. Furthermore, the expression of the TRAF family genes showed obvious spatio-temporal specificity in the embryos, larvae, and adult tissues of <em>U. unicinctus</em>, with more TRAF family genes expressed in larvae, body wall, and hind-gut. When <em>U. unicinctus</em> adults were stressed by high temperature (29 °C), all the <em>UuTRAFs</em> were significantly up-regulated, especially <em>UuTRAF2</em> and <em>UuTRAF3a</em>, which were kept at high levels during the experimental phase, indicating their importance in responding to the high temperature stress. Our findings will facilitate a greater comprehension of the sequence characteristics of TRAF family genes in annelids, and provide essential data for future exploring the genetic mechanism and breeding of high temperature tolerance of <em>U. unicinctus</em>.</div></div>","PeriodicalId":55235,"journal":{"name":"Comparative Biochemistry and Physiology D-Genomics & Proteomics","volume":"55 ","pages":"Article 101516"},"PeriodicalIF":2.2,"publicationDate":"2025-04-18","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143860695","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":"Biochemical indices, histological observations and transcriptome sequencing reveal the response mechanism of largemouth bass (Micropterus salmoides) to transport stress","authors":"Xue Jun Duan ,&nbsp;Yi Fan Tao ,&nbsp;Jixiang Hua ,&nbsp;Qing Chun Wang ,&nbsp;Jun Qiang","doi":"10.1016/j.cbd.2025.101514","DOIUrl":"10.1016/j.cbd.2025.101514","url":null,"abstract":"<div><div>In this study, transport conditions were simulated to investigate changes in intestinal tissue structure, oxidative stress, apoptosis and transcriptome levels during transport stress of largemouth bass (<em>Micropterus salmoides</em>). The results showed that the serum cortisol and lactic acid levels in largemouth bass significantly increased with increasing transport time, and the glucose content peaked after 8 h of transport. After 8 h and 12 h, the Reactive oxygen species, superoxide dismutase, malondialdehyde, and lipid peroxide contents in the intestine were significantly higher than those in the control group and the stressed group at 4 h. Additionally, more of the mucous membrane of intestinal tissue was exfoliated, resulting in edema, and the intestinal villi height and density significantly decreased. The differentially expressed genes were further analyzed after 0 h, 8 h, and 12 h of transport stress. There were significant differences in genes associated with the p53 signaling pathway (<em>igfbp1a</em>, <em>ccnb1</em>, <em>cdk1</em>, and <em>igfbp6b</em>) and apoptosis (<em>bcl2l11</em>, <em>parp3</em>, <em>pik3r1</em>, <em>fadd</em>, <em>aifm1</em>, and <em>lmnb1</em>). Combined with the increasing amount of apoptotic cells after stress, these results indicated that transport stress had a substantial effect on intestinal cell apoptosis. The intestinal antioxidant activity and tissue structure of the stressed groups recovered to the pre-stress level after 7 d of recovery from 8 h of transport; however, these parameters did not return to pre-stress levels after 7 d of recovery from 12 h of transport. This finding further demonstrated that long-term transport stress induced apoptosis and tissue damage in the largemouth bass intestine through p53 signaling.</div></div>","PeriodicalId":55235,"journal":{"name":"Comparative Biochemistry and Physiology D-Genomics & Proteomics","volume":"55 ","pages":"Article 101514"},"PeriodicalIF":2.2,"publicationDate":"2025-04-17","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143855768","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}