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

{"title":"Effects of short-term salt exposure on gill damage, serum components and gene expression patterns in juvenile Largemouth bass (Micropterus salmoides)","authors":"Tao Zhu ,&nbsp;Yang Liu ,&nbsp;Jinxing Du ,&nbsp;Caixia Lei ,&nbsp;Chenghui Wang ,&nbsp;Shengjie Li ,&nbsp;Hongmei Song","doi":"10.1016/j.cbd.2024.101365","DOIUrl":"10.1016/j.cbd.2024.101365","url":null,"abstract":"<div><div>The Largemouth bass (<em>Micropterus salmoides</em>; LMB) is a freshwater fish that plays a significant role in aquaculture, and its cultural base is expanding into inland saline water areas. To study the effect of short-term salt exposure on LMB, fish with an average body weight of 11.69 (±1.82) g were cultured for 14 days at three different salt concentrations (0 ‰, 6 ‰, and 12 ‰). After 14 days, the second gill arch was collected for tissue sectioning and transcriptome sequencing, while serum samples were collected to analyze serum components. The results showed that the mortality rate in the 0 ‰ and 6 ‰ groups was 0 %, whereas the mortality rate in the 12 ‰ group was 62 %. In the gill tissue sections, no apparent damage was observed in the 0 ‰ and 6 ‰ groups. However, in the 12 ‰ group, the secondary lamellae became shorter, thicker, and exhibited a disordered arrangement. The serum component test results showed that osmolality and K⁺ significantly increased in the 12 ‰ group, while Na⁺, K⁺, and Cl⁻ concentrations showed slight increases, but the differences were not significant. Comparative transcriptome analysis revealed that, along the salinity gradient, gene expression exhibited five profiles. Genes related to ion transport and immunity were highly expressed in the 6 ‰ and 12 ‰ groups, while genes associated with biosynthesis and ATP production showed decreased expression levels as salinity increased. Notably, seven solute carrier genes, two Na⁺/K⁺-ATPase genes, and two insulin-like growth factor genes were significantly highly expressed in the 12 ‰ salinity group, playing important roles in the transmembrane transport of ions. Based on the results, the LMB can acclimatize to a salt concentration of at least 6 ‰. However, exposure to 12 ‰ salinity can lead to a series of adverse effects, including organ damage, reduced energy metabolism efficiency, and disruption of ion homeostasis.</div></div>","PeriodicalId":55235,"journal":{"name":"Comparative Biochemistry and Physiology D-Genomics & Proteomics","volume":"53 ","pages":"Article 101365"},"PeriodicalIF":2.2,"publicationDate":"2024-11-22","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142723093","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 mitogenomic analyses of the infraclass Pteriomorphia (Mollusca: Bivalvia) provides novel insights into gene rearrangement and phylogeny","authors":"Yu Zhang ,&nbsp;Xin Heng ,&nbsp;Fengping Li ,&nbsp;Chunsheng Liu ,&nbsp;Qi Li ,&nbsp;Aimin Wang ,&nbsp;Yi Yang","doi":"10.1016/j.cbd.2024.101361","DOIUrl":"10.1016/j.cbd.2024.101361","url":null,"abstract":"<div><div>The infraclass Pteriomorphia within the phylum Mollusca, class Bivalvia, encompasses a diverse group of bivalve mollusks characterized by their unique morphological and ecological traits. However, the molecular data of Pteriomorphia remains limited, constraining classification and phylogenetic analysis within the infraclass Pteriomorphia. In this study, we sequenced the mitogenomes of 15 pteriomorphians using high-throughput sequencing technology and conducted comparative genomic analysis with 58 sequences available on GenBank. The newly sequenced mitogenomes all exhibited a circular double-stranded structure, ranging in size from 12,844 to 28,105 bp. Mitogenome features, including nucleotide composition, codon usage, and amino acid content, exhibited significant deviations. The mitochondrial gene orders (MGOs) in pteriomorphians also exhibited significant diversity, with 44 distinct patterns identified (excluding the tRNA gene). The gene rearrangement analysis inferred that the ancestral MGO evolution pathway supported the hypothesis that the common ancestor MGO of Mytilida is the closest to that of the entire infraclass Pteriomorphia. The reconstructed phylogeny also indicated the order Mytilida as the basal group of Pteriomorphia. Furthermore, the analysis revealed that Ostreida and Pectinida were sister taxa, while Ostreoidea and the Pinnoidea were sister taxa within Ostreida. Gene rearrangement analysis further suggested that the MGOs of Arcida and Pectinida likely evolved from the ancestral MGO of Ostreida. Our study provided new insights into the phylogenetic relationships and evolution of gene rearrangements within the subclass Pteriomorphia.</div></div>","PeriodicalId":55235,"journal":{"name":"Comparative Biochemistry and Physiology D-Genomics & Proteomics","volume":"53 ","pages":"Article 101361"},"PeriodicalIF":2.2,"publicationDate":"2024-11-21","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142706264","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":"Effect of food enrichment based on diverse feeding regimes on the immunity of Nibea albiflora by biochemical and RNA-seq analysis of the spleen","authors":"Anle Xu ,&nbsp;Yuting Zheng ,&nbsp;Xiumei Zhang ,&nbsp;Dongdong Xu ,&nbsp;Jiaxing Wang ,&nbsp;Jipeng Sun","doi":"10.1016/j.cbd.2024.101363","DOIUrl":"10.1016/j.cbd.2024.101363","url":null,"abstract":"<div><div><em>Nibea albiflora</em> is an economically valuable aquaculture species but suffers from various diseases caused by bacteria and parasites. It is necessary to investigate some novel methods to improve the immunity. In this study, three feeding regimes (A: commercial diet; B: 90 % commercial diet+10 % ice-fresh <em>Exopalaemon carinicauda</em>); C: 90 % commercial diet+5 % ice-fresh <em>Exopalaemon carinicauda</em> + 5 % live <em>Perinereis nuntia</em>, named Control group, Group 1 and Group 2 with similar nutrient and energy content were designed to construct the food enrichment model to investigate their effects on the immunity of this species. The study was focused on spleen tissue where biochemical and RNA-seq analysis were performed to reach our goals. The results showed that fish fed the enriched food showed higher immunity than the Control group fish. Food enrichment feeding also could enhance fish adaptive capacity which contributes to enhancing immunity. Compared to the Control group, the diet B feeding enhanced the fish immunity and adaptive capacity by up-regulating important genes like <em>BAX</em>, <em>ITPR3</em>, <em>NOS1</em>, <em>NLRP3</em> and down-regulating the gene <em>GOT1</em>. Similarly for the diet C feeding, it improved not only fish immunity but also the neurotransmission activity associated with a good physiological condition by up regulating the genes <em>ADCY5</em>, <em>CACNA1C</em>, <em>SMAD4</em>, <em>NOS1</em> and <em>RXRB</em>. The diet C feeding was the best in improving fish immunity. Above all, our study revealed the positive effects of such a food enrichment model on the fish and provided evidences and data which support the application of the feeding strategies in the healthy culturing of the fish.</div></div>","PeriodicalId":55235,"journal":{"name":"Comparative Biochemistry and Physiology D-Genomics & Proteomics","volume":"53 ","pages":"Article 101363"},"PeriodicalIF":2.2,"publicationDate":"2024-11-20","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142706265","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":"Effects of temperature to the liver transcriptome in the hybrid puffer fish (Takifugu rubripes ♀ × Takifugu obscurus ♂)","authors":"Meiyuan Li ,&nbsp;Chenqi Wang ,&nbsp;Huiting Zhou ,&nbsp;Jinfeng Chen ,&nbsp;Liu Wang ,&nbsp;Yuyu Xiong ,&nbsp;Yushun Tian ,&nbsp;Hongwei Yan ,&nbsp;Xinyan Liang ,&nbsp;Qi Liu ,&nbsp;Xiuli Wang ,&nbsp;Yaohui Wang ,&nbsp;Chuang Fu","doi":"10.1016/j.cbd.2024.101360","DOIUrl":"10.1016/j.cbd.2024.101360","url":null,"abstract":"<div><div>Water temperature exerts a crucial impact on the growth and development of fish. Hybrids may integrate the superior traits of their parents, thereby leading to higher economic benefits. <em>Takifugu rubripes</em> and <em>T. obscurus</em> are two important economic species in Asia. Here, to investigated the effect of temperature on the hybrid puffer larvae (<em>T. rubripes</em> ♀ × <em>T. obscurus</em> ♂), the larvae (0.79 ± 0.02 cm in body length) were treated to three temperatures: 15 °C (T15), 20 °C (T20), and 25 °C (T25) for 45 days. At the end of the study, the body length and weight were measured, the survival rate was calculated, and liver transcriptome analysis was performed on liver tissues. The hybrid puffer larvae in the T25 group showed a significant increase in average body length and body weight compared to the T15 and T20 groups (<em>P</em> &lt; 0.05). 1292, 329, and 1927 differentially expressed genes (DEGs) were identified in T15 vs. T20, T20 vs. T25, and T15 vs. T25 groups, respectively. KEGG enrichment analyses showed that DEGs were primarily involved in the citrate cycle (TCA cycle), PPAR signaling, glycine, serine and threonine metabolism, and protein digestion and absorption pathways. These results indicated that temperature affects metabolism, signal transduction and protein digestion and absorption in hybrid puffer fish. In addition, twelve DEGs were randomly selected for RNA-seq validation, and the transcriptome results were consistent with the qPCR validation results, illustrating the accuracy of transcriptome sequencing. These findings deepen our understanding of the complex molecular mechanism of the response of hybrid puffer fish to temperature changes and contribute to the development of hybrid puffer fish breeding.</div></div>","PeriodicalId":55235,"journal":{"name":"Comparative Biochemistry and Physiology D-Genomics & Proteomics","volume":"53 ","pages":"Article 101360"},"PeriodicalIF":2.2,"publicationDate":"2024-11-19","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142723202","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":"Kidney transcriptome analysis reveals the molecular responses to salinity adaptation in largemouth bass (Micropterus salmoides)","authors":"Yichun Zhang ,&nbsp;Jinxin Zhang ,&nbsp;Yafang Tan ,&nbsp;Xinxin Wang ,&nbsp;Huapeng Chen ,&nbsp;Haoran Yu ,&nbsp;Feiyang Chen ,&nbsp;Xinling Yan ,&nbsp;Junlong Sun ,&nbsp;Jian Luo ,&nbsp;Feibiao Song","doi":"10.1016/j.cbd.2024.101362","DOIUrl":"10.1016/j.cbd.2024.101362","url":null,"abstract":"<div><div>Recently, against the background of increasing land salinization and global warming, many studies have examined the mechanisms of freshwater fish adaptation to elevated salinity. However, the mechanisms underlying salinity tolerance in the kidney of <em>Micropterus salmoides</em>, a popular saline aquaculture species, remain poorly understood. We used RNA-seq to explore the differentially expressed genes (DEGs) in the kidney of <em>M. salmoides</em> at 0 ‰, 5 ‰, and 10 ‰ salinity for 24 d and 48 d. These DEGs mainly affected metabolism-related pathways, such as secondary metabolite biosynthesis, arachidonic acid metabolism, etc., and immunity-related pathways, such as IL-17 signaling and ECM-receptor interaction. Trend analysis on days 24 and 48 showed that, as salinity increased, the up-regulated genes were notably enriched in the cytochrome P450 xenobiotic metabolic pathway, and down-regulated genes substantially linked to cell cycle, phagosome, etc. More importantly, we identified a total of 22 genes enriched in the cytochrome P450 xenobiotic metabolic pathway, including seven UDP-glucuronosyltransferase genes (UGTs) and five glutathione S-transferase genes (GSTs). We speculated that <em>M. salmoides</em> kidneys removed toxic substances produced due to salinity stress and mitigated oxidative damage by up-regulating UGTs and GSTs, hence maintaining normal physiological function. In addition, genes such as Cystatin A1, significantly up-regulated with increasing salinity stress and duration, favoured the recovery of kidney injury. This research delved into the molecular processes involved in the adaptability of <em>M. salmoides</em> to high salinity stress and provided valuable information for the future breeding of salinity-tolerant strains.</div></div>","PeriodicalId":55235,"journal":{"name":"Comparative Biochemistry and Physiology D-Genomics & Proteomics","volume":"53 ","pages":"Article 101362"},"PeriodicalIF":2.2,"publicationDate":"2024-11-16","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142683887","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 hub mRNA, lncRNA and miRNA, and associated ceRNA networks implicated in cobia (Rachycentron canadum) scales under hypoosmotic adaption","authors":"Changgeng Yang ,&nbsp;Jingyi Gao ,&nbsp;Kailin Gong ,&nbsp;Qian Ma ,&nbsp;Gang Chen","doi":"10.1016/j.cbd.2024.101353","DOIUrl":"10.1016/j.cbd.2024.101353","url":null,"abstract":"<div><div>Salinity plays a vital role in fish aquaculture, profoundly influencing the growth and development of fish. Scales, as the protective outer layer of fish, function as a critical defense against external factors. In this study, we employed transcriptome sequencing to analyze the ceRNA expression profiles to reveal the effect of salinity acclimation on transcriptional expression changes in the scales of cobia (<em>Rachycentron canadum</em>). The results revealed that after being exposed to a salinity level of 15 ‰ for just one day (1D), a total of 407 mRNAs/genes were significantly regulated; 66 miRNAs were respectively significantly regulated; and 109 target genes of the differentially expressed miRNAs were significantly regulated; a total of 185 differently expressed lncRNAs and 292 differently expressed target genes (DetGenes) of differently expressed lncRNAs were also identified. After 7 days (7D), a total of 2195 mRNAs/genes were found to be significantly regulated and 82 miRNAs were significantly regulated; among the target genes of the differentially expressed miRNAs, 245 were regulated. Moreover, 438 differently expressed lncRNAs and 681 DetGenes of these lncRNAs were identified. Subsequent analysis through GO, KEGG pathway, in 1D vs. CG (control group), DeGenes, which first respond to changes in salinity, are mainly involved in negative regulation of macrophage differentiation, negative regulation of granulocyte differentiation and negative regulation of phagocytosis, and are mainly related to biological processes related to the immune function of fish. After a 7-day process, DeGenes were enriched in the collagen fibril organization, regulation of nodal signaling pathway and cell recognition biology processes. These biological processes are not only related to the immune function of fish, but more importantly, to the physiological structure of fish. By analyzing the co down-regulated miRNAs of 1D vs. CG, as well as 7D vs. CG, the functions of these miRNAs are mainly related to bone differentiation and development. In addition，ceRNA network uncovered that the effect of salinity is temporal. The first competing lncRNAs mainly regulated genes related to physiological processes and biological development, while target genes related to immunity and body defense were less competitive. On the contrary, after a period of salinity treatment, the types of competing lncRNAs involved changed.</div></div>","PeriodicalId":55235,"journal":{"name":"Comparative Biochemistry and Physiology D-Genomics & Proteomics","volume":"53 ","pages":"Article 101353"},"PeriodicalIF":2.2,"publicationDate":"2024-11-15","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142706267","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":"Combined transcriptome and metabolome analysis reveals the mechanism of high nitrite tolerance in freshwater mussel Anodonta woodiana","authors":"Guochao Duan ,&nbsp;Xiubao Chen ,&nbsp;Yiran Hou ,&nbsp;Tao Jiang ,&nbsp;Hongbo Liu ,&nbsp;Jian Yang","doi":"10.1016/j.cbd.2024.101359","DOIUrl":"10.1016/j.cbd.2024.101359","url":null,"abstract":"<div><div>Nitrite contamination and stress on aquatic organisms are increasingly emphasized in freshwater ecosystems. Freshwater bivalves exhibit high tolerance to nitrite; however, the underlying mechanism is unknown. Accordingly, this study investigated the tolerance mechanism of the globally occurring freshwater bivalve <em>Anodonta woodiana</em>. <em>A. woodiana</em> were exposed to nominal concentrations of 0, 250, 500, 1000, 2000, and 4000 mg/L nitrite for 96 h to calculate the 96-h median lethal concentration (96-h LC₅₀). A combined transcriptome and metabolome analysis of the hemolymph (the most vital component of the bivalve immune system) was performed after exposing <em>A. woodiana</em> to 300 mg/L nitrite (approximately half the 96-h LC₅₀) for 96 h. The 96-h LC₅₀ of nitrite in <em>A. woodiana</em> was 618.7 mg/L. Transcriptome analysis identified 5600 differentially expressed genes (DEGs) primarily related to ribosomes, lysosomes, DNA replication, and nucleotide excision repair. Metabolome analysis identified 216 differentially expressed metabolites (DEMs) primarily involved in biosynthesis of amino acids, 2-oxocarboxylic acid metabolism, protein digestion and absorption, aminoacyl-tRNA biosynthesis, nucleotide metabolism, ABC transporters, and valine, leucine and isoleucine degradation. Combined transcriptome and metabolome analysis revealed that DEGs and DEMs were primarily associated with nucleotide (purine and pyrimidine) and amino acid metabolism (including aminoacyl-tRNA biosynthesis, cysteine and methionine metabolism, arginine and proline metabolism, and valine, leucine and isoleucine degradation) as well as the immune system (necroptosis and glutathione metabolism). This study is the first to describe the high tolerance of <em>A. woodiana</em> to nitrite and elucidate the molecular mechanisms underlying high nitrite tolerance in mussels.</div></div>","PeriodicalId":55235,"journal":{"name":"Comparative Biochemistry and Physiology D-Genomics & Proteomics","volume":"52 ","pages":"Article 101359"},"PeriodicalIF":2.2,"publicationDate":"2024-11-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142640492","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":"Investigation of cold adaptation mechanisms by transcriptome analysis in the liver of yellowtail kingfish (Seriola aureovittata)","authors":"Xinyu Cao ,&nbsp;Xu Yang ,&nbsp;Shuhui Wang ,&nbsp;Minghong Gao ,&nbsp;Ruihu Zhao ,&nbsp;Zhen Yang ,&nbsp;Hongyu Peng ,&nbsp;Zhonglu Cai ,&nbsp;Chen Jiang","doi":"10.1016/j.cbd.2024.101358","DOIUrl":"10.1016/j.cbd.2024.101358","url":null,"abstract":"<div><div>Cold stress is an extreme environmental stressor that constrains the economic development of aquaculture. Yellowtail kingfish (<em>Seriola aureovittata</em>) is a commercially important fish species, but its molecular mechanisms in response to cold stress remain unknown. In this study, we investigated the transcriptional response of yellowtail kingfish liver to cold stress (10 °C) using RNA-sequencing analysis. We obtained 83.21 Gb of clean data from fish in the control group (0 h) and at 6, 12, and 24 h post-stimulation. A total of 2900 differentially expressed genes were identified from the comparison of the bioinformatic data from cold-stressed and control groups. Enrichment analysis suggested that protein processing, energy and lipid metabolism, signal transduction, and stress-induced cell cycle changes were highly involved during cold adaptation. Transport and utilization of fatty acids and cell cycle arrest were enhanced, whereas the rate of glycogen metabolism and protein biosynthesis were inhibited to maintain energy balance and normal fluidity of the cell membrane, thereby enhancing the tolerance of yellowtail kingfish to cold stress. Our study uncovered molecular pathways and key regulatory genes that are crucial for cold adaptation in yellowtail kingfish. These results provide new insights that could inform selective breeding programs aimed at enhancing cold resistance in aquaculture.</div></div>","PeriodicalId":55235,"journal":{"name":"Comparative Biochemistry and Physiology D-Genomics & Proteomics","volume":"52 ","pages":"Article 101358"},"PeriodicalIF":2.2,"publicationDate":"2024-11-10","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142644278","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":"Exosomes serve as a crucial mediator of epithelial–fibroblast communication during hair follicle morphogenesis in cashmere goats","authors":"Erhan Hai ,&nbsp;ChangShou Wang ,&nbsp;Zhihong Wu","doi":"10.1016/j.cbd.2024.101357","DOIUrl":"10.1016/j.cbd.2024.101357","url":null,"abstract":"<div><div>The formation of dermal condensates (DCs) through fibroblasts is a pivotal event in hair follicle morphogenesis in cashmere goats, a process that intricately involves epithelial-fibroblast communication. Exosomes (Exos), as essential mediators of intercellular communication, have garnered increasing attention in recent years, yet their precise role in hair follicle morphogenesis remains largely unknown. In this study, we focused on isolating and identifying epithelial cell-derived exosomes (Epi-Exos) from Inner Mongolian cashmere goats. Our experiments demonstrated that Epi-Exos could efficiently enter fibroblasts within 12 h of co-culture. Both direct co-culture of epithelial cells with fibroblasts and co-culture with Epi-Exos alone revealed that Epi-Exos promoted fibroblast migration while inhibiting their proliferation, changes that mirror the cellular biological characteristics observed during DC formation. Furthermore, recognizing the abundance of miRNAs carried by Exos, we conducted small RNA sequencing (small RNA-seq) on Epi-Exos. This analysis identified a panel of 54 highly expressed miRNAs within the Epi-Exos, 34 of which were also found to be abundant in fetal skin tissues of Inner Mongolian cashmere goats. Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) enrichment analyses indicated that these miRNAs were significantly enriched in cellular processes and signaling pathways related to hair follicle morphogenesis. Notably, our findings offer new perspectives on the role of miRNAs in Epi-Exos regulating DC formation and hair follicle morphogenesis in cashmere goats, with significant implications for understanding hair follicle development mechanisms and potential clinical or production benefits, including improved cashmere quality and yield through targeted exosome-mediated signaling manipulation.</div></div>","PeriodicalId":55235,"journal":{"name":"Comparative Biochemistry and Physiology D-Genomics & Proteomics","volume":"52 ","pages":"Article 101357"},"PeriodicalIF":2.2,"publicationDate":"2024-11-09","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142640493","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":"FHL3 gene regulates bovine skeletal muscle cell growth through the PI3K/Akt/mTOR signaling pathway","authors":"Xiaonan Zhou,&nbsp;Yanling Ding,&nbsp;Chaoyun Yang,&nbsp;Chenglong Li,&nbsp;Zonghua Su,&nbsp;Junjie Xu,&nbsp;Chang Qu,&nbsp;Yuangang Shi,&nbsp;Xiaolong Kang","doi":"10.1016/j.cbd.2024.101356","DOIUrl":"10.1016/j.cbd.2024.101356","url":null,"abstract":"<div><div>Beef quality is a critical factor in evaluating the effectiveness of beef cattle production. Fiber types play key roles in determining muscle growth and meat quality characteristics. <em>FHL3</em> is de novo expressed in skeletal muscle and is responsible for MyHC isoform expression in C2C12 cells. Nevertheless, the precise function of this factor in regulating the proliferation, differentiation, and fiber type of bovine skeletal muscle cells (BSMCs) have yet to be identified. This study aimed to investigate the impact of the <em>FHL3</em> on BSMCs proliferation, differentiation, and muscle fiber types. The results revealed that the <em>FHL3</em> promoted BSMCs proliferation, inhibited differentiation, increased type II muscle fiber expression, and decreased type I muscle fiber expression. Meanwhile, the <em>FHL3</em> promoted the expression and phosphorylation levels of PI3K, Akt, and mTOR in the PI3K/Akt/mTOR signaling pathway, and inhibited the expression and phosphorylation levels of PI3K, Akt, and mTOR after treatment with the pathway inhibitor LY294002, furthermore, it promoted differentiation and inhibited proliferation of BSMCs, while promoting the expression of type II muscle fibers and inhibiting the expression of type I muscle fibers. The results suggest that the <em>FHL3</em> has an effect on promoting the proliferation and inhibiting the differentiation of BSMCs through the PI3K/Akt/mTOR signaling pathway, but the effect of the <em>FHL3</em> on myofiber type conversion is not regulated by this pathway. The objective of this study is to enhance our understanding of the molecular function of <em>FHL3</em> in the development of BSMCs.</div></div>","PeriodicalId":55235,"journal":{"name":"Comparative Biochemistry and Physiology D-Genomics & Proteomics","volume":"52 ","pages":"Article 101356"},"PeriodicalIF":2.2,"publicationDate":"2024-11-07","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142644271","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}