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

{"title":"Whole-genome resequencing reveals the selection of adaptive evolution during the domestication of pearl oyster Pinctada maxima","authors":"Teng Zhang ,&nbsp;Jiawei Zhang ,&nbsp;Chuangye Yang ,&nbsp;Zhe Zheng ,&nbsp;Yongshan Liao ,&nbsp;Robert Mkuye ,&nbsp;Yongkang Hou ,&nbsp;Minxin Liang ,&nbsp;Shirong Fu ,&nbsp;Ping Wang ,&nbsp;Shijie Zhong ,&nbsp;Qingheng Wang ,&nbsp;Yuewen Deng","doi":"10.1016/j.cbd.2025.101494","DOIUrl":"10.1016/j.cbd.2025.101494","url":null,"abstract":"<div><div>The aquatic environment has a major effect on the domestication of species for aquaculture in nearshore environments. Disruptions in the ion composition of marine ecosystems have a major effect on the growth and development of aquaculture populations. However, research on the adaptation of domesticated bivalves to nearshore environments and the potential underlying regulatory mechanisms is limited. Here, we collected domesticated offspring (F₁ and F₂) and wild individuals (F₀ and P_w) of <em>Pinctada maxima</em> from nearshore areas. We performed a comprehensive genomic data analysis using whole-genome resequencing data. This comprehensive analysis facilitated the identification of signatures of selection on key genes and yielded locus information associated with critical adaptive evolutionary (AE) events during the domestication process. We also evaluated genetic diversity metrics, including observed heterozygosity (<em>H</em>_<em>o</em>), expected heterozygosity (<em>H</em>_<em>e</em>), and the Fixation index (<em>F</em>_<em>is</em>). The findings indicated that domesticated <em>P. maxima</em> may experience balancing selection. In the second-generation domesticated stock, we identified 372 candidate selection regions and 624 genes. Local AE events in the domesticated offspring populations were confirmed via quantitative polymerase chain reaction. We proposed a potential compensatory mechanism in which calcium ions for the main effector genes calmodulin (<em>PmCaM</em>) and catabolite activator protein (<em>PmCAP</em>) are cyclically cached. Our findings enhance our understanding of the mechanisms underlying the regulation of calcium ions, which is essential for the adaptation of species to variation in environmental conditions.</div></div>","PeriodicalId":55235,"journal":{"name":"Comparative Biochemistry and Physiology D-Genomics & Proteomics","volume":"55 ","pages":"Article 101494"},"PeriodicalIF":2.2,"publicationDate":"2025-03-25","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143724234","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":"Transcriptome analysis of eyestalk ganglion provides new insights into the immune response of Eriocheir sinensis","authors":"Xiaoli Zhang,&nbsp;Shucheng Shao,&nbsp;Jiaxin Xu,&nbsp;Yi Zhang,&nbsp;Jinbin Zheng,&nbsp;Zhaoxia Cui","doi":"10.1016/j.cbd.2025.101492","DOIUrl":"10.1016/j.cbd.2025.101492","url":null,"abstract":"<div><div>Generally, eyestalk ganglion is regarded as a basic neuroendocrine tissue in decapods. In the past decades, increasing evidence has implied that the nervous system plays important roles in modulating the immune defense against pathogenic microorganisms. However, the molecular mechanisms of nervous system on the innate immunity of decapods remain largely unclear. In this study, we investigated the transcriptomic responses of eyestalk ganglion in <em>Eriocheir sinensis</em> challenged by <em>Vibrio parahaemolyticus</em>. A total of 77 differentially expressed genes (DEGs) were identified, and these DEGs were predicted to be involved in diverse biological pathways including thyroid hormone signaling pathway, peroxisome proliferator-activated receptor (PPAR) signaling pathway, ferroptosis, endocrine system, and neurotrophin signaling pathway. Furthermore, the results indicated that the eyestalk ganglion of <em>E. sinensis</em> could respond to the infection of <em>V. parahaemolyticus</em> by increasing the expression of antibacterial protein such as gillcin and ribosomal protein L27, meanwhile, weakening the inhibition of NF-κB pathway via down-regulating the expression of the suppressor genes such as sterile alpha and TIR motif-containing protein 1 and nicotinic acetylcholine receptor. These findings suggested that <em>V. parahaemolyticus</em> infection triggers the activation of immune response in eyestalk ganglion of <em>E. sinensis</em>, which throws lights on the crucial roles of eyestalk ganglion in crab antibacterial immunity and provides new clues and theoretical basis for disease prevention and control.</div></div>","PeriodicalId":55235,"journal":{"name":"Comparative Biochemistry and Physiology D-Genomics & Proteomics","volume":"55 ","pages":"Article 101492"},"PeriodicalIF":2.2,"publicationDate":"2025-03-24","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143706413","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":"Comparative genome analysis and global methylation patterns for epigenetic study in the brackish water flea Diaphanosoma celebensis","authors":"Min-Sub Kim ,&nbsp;Jin-Sol Lee ,&nbsp;Zhou Yang ,&nbsp;Atsushi Hagiwara ,&nbsp;Duck-Hyun Kim ,&nbsp;Jae-Seong Lee","doi":"10.1016/j.cbd.2025.101493","DOIUrl":"10.1016/j.cbd.2025.101493","url":null,"abstract":"<div><div>The brackish water flea <em>Diaphanosoma celebensis</em> is a crucial organism in brackish and estuarine ecosystems, acting as a key trophic link between primary producers and higher trophic levels. Its small size, short life cycle, and high reproductive capacity make it an ideal model for studying ecological responses to environmental stressors, especially in polluted environments. This study provides a chromosome-level genome assembly of <em>D. celebensis</em>, consisting of 22 chromosomes with an N50 of 4,113,329 base pairs and 95.1 % completeness, achieved by combining <em>de novo</em> assembly with Hi-C data from <em>D. dubium</em>. Whole-genome bisulfite sequencing (WGBS) revealed distinct DNA methylation patterns, with exons showing higher methylation than introns and intergenic regions. A detailed analysis identified four gene clusters based on methylation levels. Cluster δ (highly methylated), enriched for pathways related to protein processing, ribosomal activity, and ubiquitin-mediated proteolysis, suggests a regulatory mechanism for stress adaptation in <em>D. celebensis</em>. In contrast, cluster α (hypo methylated), associated with transcription regulation and neural functions, highlights genes involved in cellular processes that may respond dynamically to environmental changes. Functional gene comparisons indicated significant differences in pathways related to ion transport and ubiquitination, emphasizing the unique adaptations of <em>D. celebensis</em> to its brackish environment. These findings provide a deeper understanding of the species' genomic and epigenetic regulation, offering valuable insights for future studies on its adaptation to environmental pollutants.</div></div>","PeriodicalId":55235,"journal":{"name":"Comparative Biochemistry and Physiology D-Genomics & Proteomics","volume":"55 ","pages":"Article 101493"},"PeriodicalIF":2.2,"publicationDate":"2025-03-24","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143747678","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 and expression analysis of the Sox gene family in bivalves","authors":"Jiawei Fan ,&nbsp;Jinjing Wang ,&nbsp;Junhao Ning ,&nbsp;Shaoxuan Wu ,&nbsp;Chunde Wang ,&nbsp;Yin-Chu Wang","doi":"10.1016/j.cbd.2025.101489","DOIUrl":"10.1016/j.cbd.2025.101489","url":null,"abstract":"<div><div>Since the discovery of the <em>Sox</em> gene family in 1990, research on its distribution, classification, characterization, and function across various species has been significantly deepened. However, the <em>Sox</em> gene family has not yet been systematically and comprehensively analyzed in bivalves. In this study, 254 <em>Sox</em> genes were identified in 51 bivalves (covering 20 orders and 37 families). The <em>Sox</em> gene numbers ranged from 1 and 10 in most bivalves but no <em>Sox</em> gene was identified in the transcriptomes of <em>Poromya illevis</em> (Poromyoidea), <em>Thracia phaseolina</em> (Thracioidea), <em>Solen vaginoides</em> (Solenoidea), <em>Lamychaena hians</em> (Gastrochaenoidea), and <em>Limopsis</em> sp. and <em>Solemya velesiana</em> (Limopsoidea). The phylogenetic analyses revealed that <em>Sox</em> genes in bivalves are divided into 7 primary groups: <em>SoxB1</em>, <em>SoxB2</em>, <em>SoxC</em>, <em>SoxD</em>, <em>SoxE</em>, <em>SoxF</em>, and <em>SoxH</em>, with different groups exhibiting distinct conserved motif patterns. Notably, <em>SoxA</em> and <em>SoxG</em> found in most vertebrates were not identified in bivalves. Moreover, through spatiotemporal expression profiling in 6 distinct bivalve species, it was determined that the <em>SoxH</em> genes exhibit male-biased expression mainly in non-hermaphroditic bivalves, while <em>SoxB1</em> and <em>SoxC</em> genes demonstrate female-biased expression, and these two <em>Sox</em> genes may serve a pivotal role in embryonic development stage and <em>SoxB2</em>, <em>SoxC</em> and <em>SoxE</em> may play a significant impact in neural development in bivalves. <em>Sox</em> family members also appear to possess disparate functions across different species and tissues. Overall, this study may provide a basis for future investigations into the functions and evolution of <em>Sox</em> genes in bivalves, and offer new perspectives on their roles in development in bivalves.</div></div>","PeriodicalId":55235,"journal":{"name":"Comparative Biochemistry and Physiology D-Genomics & Proteomics","volume":"55 ","pages":"Article 101489"},"PeriodicalIF":2.2,"publicationDate":"2025-03-22","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143696792","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":"Non-targeted metabolomics by 1H nuclear magnetic resonance spectroscopy; an interspecies comparison of milk between dromedary, giraffe and white rhinoceros with observations on blesbok","authors":"G. Osthoff ,&nbsp;L. Schmidt ,&nbsp;A.S.W. Tordiffe ,&nbsp;F. Deacon","doi":"10.1016/j.cbd.2025.101490","DOIUrl":"10.1016/j.cbd.2025.101490","url":null,"abstract":"<div><div>Various researchers have shown that milk metabolomes differ between domestic species regarding metabolite composition as well as metabolic pathways of milk synthesis. We contribute to this knowledge by presenting data of wild mammals. Inter-species differences were noted; 3-fucosyllactose was only detected in the milk of dromedary, and <em>N</em>-phenylacetylglycine and UDP-<em>N</em>-acetylglucosamine only in giraffe. Hippurate and 2-oxaloacetate were absent from milk of dromedary; creatinine and glutamate from giraffe; nicotinamide from white rhinoceros; and dimethylamine, creatine, valine, acetone, fumarate and 2-oxaloacetate from blesbok. With MetaboAnalyst 6.0, 15 statistically important metabolites of dromedary, giraffe and white rhinoceros were identified for KEGG metabolic pathway enrichment. Twelve metabolic pathways were identified as important with a specialization within species. In the giraffe mammary cells, the amino sugar and nucleotide sugar metabolism was observed as active and the alanine, aspartate and glutamate metabolism as inactive. The glycerophospholipid metabolism seemed highly active in the white rhinoceros and the galactose metabolism active in both the dromedary and white rhinoceros. Milk was available from only two blesbok, but data is presented as observation.</div></div>","PeriodicalId":55235,"journal":{"name":"Comparative Biochemistry and Physiology D-Genomics & Proteomics","volume":"55 ","pages":"Article 101490"},"PeriodicalIF":2.2,"publicationDate":"2025-03-20","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143686549","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}

{"title":"The immune response and autophagy of Macrobrachium rosenbergii against Aeromonas veronii infection","authors":"Liying Zhou,&nbsp;Xiaoyu Cai,&nbsp;Qi Dong,&nbsp;Jia Yin,&nbsp;Yan Liu,&nbsp;Xiaojian Gao,&nbsp;Qun Jiang,&nbsp;Yao Zhang,&nbsp;Xiaojun Zhang","doi":"10.1016/j.cbd.2025.101488","DOIUrl":"10.1016/j.cbd.2025.101488","url":null,"abstract":"<div><div><em>Aeromonas</em> is a bacterial pathogen that causes significant economic losses in the <em>Macrobrachium rosenbergii</em> industry. This study evaluated the transcriptome analysis of <em>M. rosenbergii</em> infected with <em>A. veronii</em> and examined the gene expression patterns associated with immunity in the gills, muscles, intestines, and hepatopancreas. Specifically, 47,988 unigenes and 15,604 differentially expressed genes (DEGs) were identified. The immune-related DEGs were primarily enriched in 20 innate immune signaling pathways, including the NOD-like receptor, Toll-like receptor, and RIG-I-like receptor signaling pathways, etc., as determined by KEGG enrichment analysis. Notably, autophagy-related genes <em>ATG5</em>, <em>ATG12</em>, <em>ATG16L1</em>, and <em>ATG8</em> were enriched in the NOD-like receptor signaling pathways. Moreover, <em>ATG12</em>, <em>ATG16L1</em>, and <em>ATG8</em> exhibited significantly up-regulated expression to varying degrees in the hepatopancreas, gills, muscles, and intestines at 12, 24, 36, and 48 h post-infection (hpi). In addition, many autolysosomes were observed in hepatopancreas cells of infected prawns using transmission electron microscopy (TEM). Ultimately, we identified the autophagy-related genes implicated in the immune response of <em>M. rosenbergii</em>, offering a theoretical foundation for elucidating the role of autophagy in the prawn's innate immune mechanisms.</div></div>","PeriodicalId":55235,"journal":{"name":"Comparative Biochemistry and Physiology D-Genomics & Proteomics","volume":"55 ","pages":"Article 101488"},"PeriodicalIF":2.2,"publicationDate":"2025-03-18","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143654707","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":"Metabolic responses to starvation in the soft-shelled turtle (Pelodiscus sinensis) revealed by integrated metabolome and transcriptome analysis","authors":"Xueying Shi ,&nbsp;Qingqing Guo ,&nbsp;Xiangce Li ,&nbsp;Tongqing Li ,&nbsp;Tao Li ,&nbsp;Tianyu Li ,&nbsp;Peiyu Zhang ,&nbsp;Zhi Li ,&nbsp;Haiyan Liu","doi":"10.1016/j.cbd.2025.101486","DOIUrl":"10.1016/j.cbd.2025.101486","url":null,"abstract":"<div><div>Animals frequently suffer from starvation throughout their life cycle; however, the mobilization and utilization of energy sources can differ. To clarify the fundamental mechanisms underlying energy mobilization and metabolic adjustment in response to food deprivation in the soft-shelled turtle (<em>Pelodiscus sinensis</em>), eighty turtles (initial body weight, 51.81 ± 0.29 g) were subjected to starvation periods of 1 d, 4 d, 8 d, 16 d, and 32 d (referred to as S1, S4, S8, S16, and S32). The results showed that the greatest absolute loss in body composition occurred in moisture, followed by protein and lipid, respectively. Hepatic glycogen contents significantly decreased after 4 days of starvation and then remained stable. Notably, plasma glucose, cholesterol, and free fatty acid contents exhibited significant decreases from S8, while plasma triacylglycerol levels dramatically declined from S4. Gluconeogenesis-related genes (<em>pepck, g6pase</em>) were upregulated in the starving turtles to maintain glucose homeostasis. Comparative analyses between S32 and S1 groups identified a total of 6051 differential genes and 150 differential metabolites, highlighting three overlapping metabolic pathways: glycerophospholipid metabolism, alanine, aspartate, and glutamate metabolism, and taurine and hypotaurine metabolism. Integrative analyses further revealed increased levels of specific metabolites, including phosphatidylcholine, phosphatidylethanolamine, glycerophosphocholine, L-2-aminoethyl seryl phosphate, <span>l</span>-serine-phosphatidylethanolamine, adenyiosuccinate, 5-phosphoribosylamine, and taurine. These metabolites are vital for amino acid-driven gluconeogenesis, cell membrane stability, and mitigating cellular damage resulting from food deprivation. In conclusion, glucose homeostasis was maintained by enhancing gluconeogenesis in <em>P. sinensis</em> during extended periods of starvation, and the activation of lipid and amino acid metabolism represents an adaptive metabolic strategy employed by <em>P. sinensis</em> to cope with starvation conditions.</div></div>","PeriodicalId":55235,"journal":{"name":"Comparative Biochemistry and Physiology D-Genomics & Proteomics","volume":"55 ","pages":"Article 101486"},"PeriodicalIF":2.2,"publicationDate":"2025-03-18","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143675097","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":"Heat stress induces pathological and molecular responses in the gills of largemouth bass (Micropterus salmoides) revealed by histology, transcriptomics, and DNA methylomics","authors":"Sicheng Liang ,&nbsp;Genrong Zhang ,&nbsp;Hao Zhu ,&nbsp;Yekai Wei ,&nbsp;Yi Sun ,&nbsp;Zijie Lin ,&nbsp;Qufei Ling","doi":"10.1016/j.cbd.2025.101485","DOIUrl":"10.1016/j.cbd.2025.101485","url":null,"abstract":"<div><div>Largemouth bass (<em>Micropterus salmoides</em>), an important species in both aquatic ecosystems and aquaculture, is increasingly affected by heat extremes. Heat stress poses significant challenges to fish health, particularly affecting key organs like the gills. This study investigated the effects of heat stress (37 °C) on the gills of juvenile largemouth bass, focusing on histopathology and molecular adaptations, including genome-wide gene expression and DNA methylation. After the heat stress experiment, histological analysis of hematoxylin and eosin-stained gill tissues revealed significant alterations, including increased blood cell density, epithelial cell proliferation, and curling of gill lamellae. Ultrastructural analysis via transmission electron microscopy showed irregular cell shapes of the secondary lamellae. TUNEL staining demonstrated a significant increase in apoptotic cells, from 14.53 % in control fish versus 69.58 % in heat-stressed fish, which correlated with upregulation of apoptosis-related genes, such as <em>caspase3</em> and <em>p53</em>. Transcriptomic analysis using RNA sequencing identified 608 differentially expressed genes. KEGG enrichment analysis revealed significant enrichment of the “<em>protein processing in endoplasmic reticulum</em>” pathway. Additionally, whole-genome bisulfite sequencing and methylomic analysis identified 12,505 differentially methylated regions. GO enrichment analysis of genes containing promoter DMRs identified 44 significantly enriched terms, including “<em>metabolic process</em>,” “<em>organic substance metabolic process</em>,” “<em>binding</em>” and “<em>protein interaction</em>.” Notably, genes associated with apoptosis, such as <em>capn3a</em>, <em>dok4</em>, <em>rassf7a</em>, and <em>tusc2a</em>, exhibited significant changes in both gene expression and DNA methylation in their promoters. These findings provide insights into the molecular responses of fish gills to heat stress and mechanisms of resilience in cultured fish species under changing environmental conditions.</div></div>","PeriodicalId":55235,"journal":{"name":"Comparative Biochemistry and Physiology D-Genomics & Proteomics","volume":"55 ","pages":"Article 101485"},"PeriodicalIF":2.2,"publicationDate":"2025-03-17","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143724359","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":"Functional characterization of a novel FpVgR: A special focus on ovarian development in Fenneropenaeus penicillatus","authors":"Yaxin Dong ,&nbsp;Karsoon Tan ,&nbsp;Xueyu Yan ,&nbsp;Boyu Su ,&nbsp;Leong-Seng Lim ,&nbsp;Khor Waiho ,&nbsp;Kit Yue Kwan ,&nbsp;Kianann Tan","doi":"10.1016/j.cbd.2025.101478","DOIUrl":"10.1016/j.cbd.2025.101478","url":null,"abstract":"<div><div>Redtail shrimp <em>Fenneropenaeus penicillatus</em> are commercially important shrimp species. However, the aquaculture of this species is hindered by insufficient seed supply, mainly caused by frequent inadequate gonad development. The vitellogenin receptor (VgR) plays an important role in the gonad development of oviparous animals by facilitating the accumulation of vitellogenin and nutrients in the oocytes. Therefore, in this study, we cloned and functionally characterized a novel <em>VgR</em> from <em>F. penicillatus</em> (<em>FpVgR)</em>. In general, <em>FpVgR</em> has a length of 3795 bp, encoding 1264 amino acid residues and encompassing 28 exons. The calculated molecular weight and theoretical isoelectric point of <em>FpVgR</em> were 139.18 kDa and 4.76, respectively. <em>FpVgR</em> mRNA was highly expressed in the ovary at developmental stages 3 and 4, and localized in the oocyte's plasma membrane. Knocking down <em>FpVgR</em> significantly reduced transcription levels in ovarian tissue, resulting in DNA damage and cell apoptosis within the ovarian tissues. The results of transcriptomic profiling following <em>FpVgR</em> knockdown also revealed that the apoptosis signaling pathway and oxytocin signaling pathway were involved in regulating ovary development and maintaining homeostasis. These findings offer valuable understanding into the mechanisms governing vitellogenesis and the maturation of oocytes, with a specific focus on <em>FpVgR</em>, contributing to future research on vitellogenesis and ovarian development in <em>F. penicillatus.</em></div></div>","PeriodicalId":55235,"journal":{"name":"Comparative Biochemistry and Physiology D-Genomics & Proteomics","volume":"55 ","pages":"Article 101478"},"PeriodicalIF":2.2,"publicationDate":"2025-03-17","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143672018","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":"MicroRNA-mediated regulation in anoxic Lithobates sylvaticus liver","authors":"Yasser Attaie,&nbsp;Kenneth B. Storey","doi":"10.1016/j.cbd.2025.101487","DOIUrl":"10.1016/j.cbd.2025.101487","url":null,"abstract":"<div><div>The wood frog, <em>Lithobates sylvaticus</em> (formerly <em>Rana sylvatica</em>), endures various physiological stressors including freezing, anoxia, dehydration, and hyperglycemia during winter, relying on metabolic stress response to survive. microRNA (miRNA)-mediated gene regulation is a well-documented stress response, however, its role during anoxia in <em>L. sylvaticus</em> liver remains underexplored. This research identifies seven miRNAs with significant differential expression during anoxia. Bioinformatic analyses predicted downregulation of monounsaturated fatty acid biosynthesis and membrane fluidity pathways, alongside upregulation of insulin signalling pathways (PI3K/Akt, mTOR). These results suggest that miRNAs contribute to gene regulation in L. <em>sylvaticus</em> during anoxia.</div></div>","PeriodicalId":55235,"journal":{"name":"Comparative Biochemistry and Physiology D-Genomics & Proteomics","volume":"55 ","pages":"Article 101487"},"PeriodicalIF":2.2,"publicationDate":"2025-03-17","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143654706","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}