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

{"title":"Transcriptome characterization of three main ganglia in Patinopecten yessoensis provides novel insights into a monophyletic origin of the bilaterian central nervous system","authors":"Xianhui Ning ,&nbsp;Xiangchao Zhang ,&nbsp;Xue Li ,&nbsp;Jing Wang ,&nbsp;Lingling Zhang ,&nbsp;Xiaoli Hu ,&nbsp;Zhenmin Bao","doi":"10.1016/j.cbd.2025.101585","DOIUrl":"10.1016/j.cbd.2025.101585","url":null,"abstract":"<div><div>The question of whether the central nervous system (CNS) of bilaterians arose independently or has a monophyletic origin has been hotly debated. Increasing evidence supports the monophyletic origin of CNS across the three major bilaterian groups. However, in Mollusca, the second largest animal phylum, evolutional information of CNS was mainly obtained from cephalopods, of which the ganglionated cephalic neural system is under controversy to be homolog to vertebrate brain. Yesso scallop (<em>Patinopecten yessoensis</em>), a bivalve mollusk stands out with its slow-evolving genome and differential preservation of ganglia fusion trace. Here, we systematically analyzed the transcriptome of three main ganglia in Yesso scallop. We identified a ganglia-related module using gene co-expression network, and discovered the expansion of neurotransmitter receptors and hypothalamic hormone receptors, suggesting a complex CNS in scallops than we thought. Our analysis revealed predominant expression of expanded hypothalamic hormone receptors in ganglia. Furthermore, the repertoire of fundamental markers for vertebrate pituitary development was largely conserved in scallop ganglia, suggesting a shared evolutionary origin of the pituitary. Our investigation of specific ganglia characteristics demonstrated that ganglia fusion promotes both structural and functional complexity. Particularly, gene-set enrichment analysis (GSEA) demonstrated that gene sets of vertebrate pituitary or brain development are enriched by genes expressed in scallop ganglia, indicating the homolog between ganglionated neural system and vertebrate brain, which supporting the monophyletic origin of brain. Our findings provide new evidences to understand the monophyletic origin of the brain and pituitary in bilaterians.</div></div>","PeriodicalId":55235,"journal":{"name":"Comparative Biochemistry and Physiology D-Genomics & Proteomics","volume":"56 ","pages":"Article 101585"},"PeriodicalIF":2.2,"publicationDate":"2025-07-18","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144680008","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":"Genetic diversity and stress resistance evaluation of Chinese mitten crab (Eriocheir sinensis) genetic resources in the Yangtze River estuary","authors":"Chen Zheng ,&nbsp;Cheng-yi Weng ,&nbsp;Zhi-qiang Liu ,&nbsp;Huan Ma ,&nbsp;An-jun Xiang ,&nbsp;Meng-jie Zhao ,&nbsp;Yong-chun Ge ,&nbsp;Yong-xu Cheng ,&nbsp;Chang-bo Wang ,&nbsp;Xiao-zhen Yang","doi":"10.1016/j.cbd.2025.101582","DOIUrl":"10.1016/j.cbd.2025.101582","url":null,"abstract":"<div><div>The Chinese mitten crab (<em>Eriocheir sinensis</em>) is a typical migratory aquatic species. However, due to overfishing, habitat destruction (e.g., dam construction), and unsystematic stocking practices, its wild population is poorly understood, with varying stress resistance capabilities. This study presents a comprehensive evaluation of genetic diversity, population structure, and stress resistance performance (air exposure and <em>Aeromonas hydrophila</em> stress) of wild juvenile crabs from five regions along their migratory paths. Through whole-genome resequencing (WGRS), we identified 11,643,106 high-quality SNPs. Diversity index analyses based on these SNPs revealed high and similar genetic diversity across all populations, with a relatively high level of variation and gene flow. Pairwise <em>F</em>_<em>ST</em> values ranged from 0.064 to 0.077, with an average of 0.069, indicating moderate to low genetic differentiation. Phylogenetic clustering, principal component analysis, and kinship analysis suggest that all individuals may have originated from a single historical population, though potential differentiation remains. Evaluation of stress resistance traits revealed significant regional variation in the crabs' ability to withstand stress. These differences may be related to chromosomal mutation loci. In conclusion, these results provide valuable insights for resource management and conservation efforts and offer important information for the improvement of the genetic resources of Chinese mitten crabs.</div></div>","PeriodicalId":55235,"journal":{"name":"Comparative Biochemistry and Physiology D-Genomics & Proteomics","volume":"56 ","pages":"Article 101582"},"PeriodicalIF":2.2,"publicationDate":"2025-07-17","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144713450","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":"Chromosome-level genome assembly of the marine medaka (Oryzias melastigma) using Hi-C technology: Genomic analysis and profiling of DNA methylation for epigenetic study","authors":"Min-Sub Kim ,&nbsp;Jin-Sol Lee ,&nbsp;Duck-Hyun Kim ,&nbsp;Jordan Jun Chul Park ,&nbsp;Alaa El-Din H. Sayed ,&nbsp;Xiaoshan Zhu ,&nbsp;Youji Wang ,&nbsp;Minghua Wang ,&nbsp;Zhou Yang ,&nbsp;Jae-Seong Lee","doi":"10.1016/j.cbd.2025.101580","DOIUrl":"10.1016/j.cbd.2025.101580","url":null,"abstract":"<div><div>The marine medaka, <em>Oryzias melastigma</em>, has been widely used as a vital model organism for marine ecotoxicology and genetic or epigenetic studies. Here, we present a chromosome-level genome assembly using Hi-C technology, integrated with PacBio long-read and Illumina short-read sequence data from previous studies. The assembled genome has 24 chromosomes and unanchored contigs with a total length of 873 Mb and an N50 of 35.9 Mb. From the genome, 94.2% of sequences were anchored to 24 chromosomes. Comparative genomic analysis with the related species <em>O. latipes</em> demonstrated strong synteny and species-specific gene expansions. Whole-genome bisulfite sequencing was performed to profile DNA methylation, revealing methylation patterns of <em>O. melastigma</em> across tissues. Our high-quality assembly provides a crucial reference for genomic and epigenetic research, enabling investigations into toxicogenomic and epigenetic research for environmental studies and precision genome editing in marine organisms.</div></div>","PeriodicalId":55235,"journal":{"name":"Comparative Biochemistry and Physiology D-Genomics & Proteomics","volume":"56 ","pages":"Article 101580"},"PeriodicalIF":2.2,"publicationDate":"2025-07-16","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144748952","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 of the effect of dietary melatonin on liver immunity in rice field eel (Monopterus albus)","authors":"Weiwei Lv ,&nbsp;Muyan Li ,&nbsp;Chenxi Zhu ,&nbsp;Weiwei huang ,&nbsp;Quan Yuan ,&nbsp;Hang Yang ,&nbsp;Yuning Zhang ,&nbsp;Qichen Jiang ,&nbsp;Wenzong Zhou","doi":"10.1016/j.cbd.2025.101579","DOIUrl":"10.1016/j.cbd.2025.101579","url":null,"abstract":"<div><div>The aim of this study was to investigate the effects of the dietary effects of melatonin, particularly in relation to its ability to regulate the immune system. A total of 360 fish were fed with different concentrations of melatonin (0, 30, 60, 120, and 240 mg/kg) for 70 days. The activities of antioxidant and immune-related enzymes in the liver showed that at a concentration of 120 mg/kg, the activities of superoxide dismutase, catalase, glutathione peroxidase, lysozyme, and alkaline phosphatase were significantly increased, while the content of malondialdehyde and the activities of alanine aminotransferase and aspartate aminotransferase were decreased (<em>p</em> &lt; 0.05). In addition, the expression of <em>HSP-90</em>, <em>ZO-1</em>, <em>IL-10</em>, and <em>TGF-β</em> were increased, and the expression of <em>NF-kB</em>, <em>IL-1β</em>, <em>IL-8</em>, and <em>TNF</em> were decreased. The liver tissues from control group and 120 mg/kg melatonin group were subjected to transcriptome sequencing for further analysis. Transcriptomic analysis identified 1160 DEGs (577 up-regulated genes and 583 down-regulated genes). The most significant KEGG-enriched signaling pathways of these DEGs were motor proteins, ECM-receptor interaction, PPAR signaling pathway, DNA replication, and linoleic acid metabolism. In summary, dietary melatonin improved the growth performance rice field eel, enhanced the antioxidant and immune status of the liver, which can provide a reference for future research on nutritional supplementation and melatonin efficacy of rice field eel.</div></div>","PeriodicalId":55235,"journal":{"name":"Comparative Biochemistry and Physiology D-Genomics & Proteomics","volume":"56 ","pages":"Article 101579"},"PeriodicalIF":2.2,"publicationDate":"2025-07-11","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144748951","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":"Biochemistry and metabolomics revealed the regulation mechanism of osmolality in Sinonovacula constricta under salinity stress","authors":"Sudong Xia ,&nbsp;Jianing Yu ,&nbsp;Yusong Geng ,&nbsp;Huaying Zhang ,&nbsp;Zheying Gao ,&nbsp;Zhihong Liu ,&nbsp;Biao Wu","doi":"10.1016/j.cbd.2025.101578","DOIUrl":"10.1016/j.cbd.2025.101578","url":null,"abstract":"<div><div>Salinity is a critical environmental factor that significantly influences the growth, development, survival, and reproduction of marine organisms. <em>Sinonovacula constricta</em>, an economically important bivalve in tidal flat and pond aquaculture, frequently encounters acute salinity fluctuations due to factors such as river runoff and precipitation. These abrupt changes in salinity can adversely affect its yield. However, the impacts of acute salinity stress on the osmolality and metabolic processes of <em>S. constricta</em> remain poorly understood. Therefore, this study investigates the impacts of acute salinity stress on hemolymph osmotic pressure, serum ion concentrations, and serum metabolites of <em>S. constricta</em> maintained at a salinity of 18 ppt to 22 ppt. Significant alterations in serum osmolality were observed (<em>P</em> &lt; 0.05), closely resembling seawater osmolality. The concentrations of Na⁺, K⁺, and Cl⁻ in serum also exhibited significant changes (<em>P</em> &lt; 0.05), stabilizing after 12 h, which is consistent with the trends in osmotic pressure. Metabolomics analysis identified differential metabolites primarily involved in phospholipid metabolism, carboxylic acid metabolism, and amino acid metabolism, indicating the activation of ion channels and energy metabolism pathways. <em>S. constricta</em> combats osmotic stress via coordinated ion channel regulation, neural-related metabolites，and amino acid catabolism, maintaining energy homeostasis through metabolic reprogramming. Specifically, <em>S. constricta</em> overcomes osmotic stress through ions (Na⁺, K⁺, Cl⁻) and key metabolites (e.g., glycerophosphate, taurine, proline, arachidonic acid), reveals novel signaling metabolites, highlighting the significant role of biomacromolecules and metabolites in assessing the health of bivalves in aquaculture.</div></div>","PeriodicalId":55235,"journal":{"name":"Comparative Biochemistry and Physiology D-Genomics & Proteomics","volume":"56 ","pages":"Article 101578"},"PeriodicalIF":2.2,"publicationDate":"2025-07-10","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144633822","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":"A timecourse analysis of gonadal histology and transcriptome during the sexual development of yellow catfish, Pelteobagrus fulvidraco","authors":"Haijing Xu ,&nbsp;Wenkai Lin ,&nbsp;Xinlan Ma ,&nbsp;Muhammad Jawad ,&nbsp;Mengzhou Wu ,&nbsp;Junqiang Qiu ,&nbsp;Mingyou Li","doi":"10.1016/j.cbd.2025.101576","DOIUrl":"10.1016/j.cbd.2025.101576","url":null,"abstract":"<div><div>Yellow catfish (<em>Pelteobagrus fulvidraco</em>), as an important aquatic species, exhibiting pronounced sexually dimorphic growth patterns. However, the molecular mechanism underlying sexual differentiation in yellow catfish remains a mystery. In this study, we performed histological analysis to identify the critical period of gonadal sex differentiation in <em>P. fulvidraco</em>, Our results showed that the differentiation of male and female gonads did not occur synchronously. The ovarian cavities formation in female occurred at 7 days post-hatching (DPH), followed by the emergence of primordial glandular cells at 25 DPH, whereas male gonadal differentiation initiated later, at 35 DPH. Pseudotemporal analysis was used to infer the developmental trajectories of male and female yellow catfish, highlighting rapid differentiation of individual traits from 7 DPH to 30 DPH. Additionally, timecourse comparative transcriptomic analysis identified several female biased genes, including <em>Foxl2a</em>, <em>Foxl2b</em>, <em>Cyp19a1</em>, <em>zar1l</em>, <em>Rbpms2</em>, as well as chromosomal-structure related genes such as <em>Banf2</em>, <em>npm</em>, <em>Top1b</em>, and <em>H2AA</em>, suggesting a female specific differentiation pattern and ovarian development bias following maturation. In contrast, male-biased genes such as <em>dmrt1</em> show similar expression patterns in both sexes during the early stage of differentiation, but become male-specific in mature gonads, indicating a regulatory shift from post-transcriptional to expression regulation during sex differentiation. <em>In situ</em> hybridization analysis further confirms the localization of <em>Foxl2a</em> and <em>Foxl2b</em> in early-stage oocytes, and <em>Top1b</em> in early germ cells of mature gonads. This study systematically investigated the early gonadal differentiation process and provided fundamental data for future research on sex determination regulation mechanism in yellow catfish. These findings also offer valuable insight for industrial applications, including single-sex breeding and regulation of ovarian development in <em>Pelteobagrus fulvidraco</em>.</div></div>","PeriodicalId":55235,"journal":{"name":"Comparative Biochemistry and Physiology D-Genomics & Proteomics","volume":"56 ","pages":"Article 101576"},"PeriodicalIF":2.2,"publicationDate":"2025-07-09","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144614707","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":"Microgeographic variation in gene expression plasticity under osmotic stress in wild eastern oyster juveniles (Crassostrea virginica)","authors":"Avi Simon ,&nbsp;Harmony Borchardt-Wier ,&nbsp;Emily Manuel ,&nbsp;Daphne Munroe ,&nbsp;Matthew P. Hare","doi":"10.1016/j.cbd.2025.101577","DOIUrl":"10.1016/j.cbd.2025.101577","url":null,"abstract":"<div><div>Gene expression plasticity is an essential mechanism of physiological acclimation. In adult eastern oysters, <em>Crassostrea virginica</em> (Gmelin, 1791), transcriptomic responses to experimental osmotic stress differ between oyster bed sources within the estuarine salinity gradient. Here RNA-seq was used to characterize spatial variation in gene expression plasticity in wild oyster spat (juveniles), collected from upper and lower Delaware Bay oyster beds, and reciprocally exposed to moderate and low salinity experimental treatments. Low salinity conditions contribute significantly to mortality in the species and stressful upper bay episodes of extended hypo-salinity are expected to increase in frequency under future climate conditions. The spat collected at moderate salinity (lower bay) sites show more than twice as many differentially expressed transcripts between treatments, relative to their upper bay counterparts – a pattern of spatial variation in gene expression plasticity consistent with previous findings in adults. However, an alternate measure of gene expression plasticity, the log-fold degree of expression difference between treatments, was greater in oysters collected at low salinity (upper bay). Observed spatial differences in gene expression plasticity indicate that early pre- or post-settlement environmental conditions likely generated distinct transcriptome-wide osmotic stress responses between upper and lower bay populations of a single estuary.</div></div>","PeriodicalId":55235,"journal":{"name":"Comparative Biochemistry and Physiology D-Genomics & Proteomics","volume":"56 ","pages":"Article 101577"},"PeriodicalIF":2.2,"publicationDate":"2025-07-09","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144631705","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 characterization of IGF/IGFR/IGFBP gene families in spotted sea bass and their expression profiles in response to environmental stress","authors":"Chong Zhang ,&nbsp;Xinlin Yang ,&nbsp;Yonghang Zhang ,&nbsp;Shaosen Yang ,&nbsp;Cong Liu ,&nbsp;Pengyu Li ,&nbsp;Lingyu Wang ,&nbsp;Xin Qi ,&nbsp;Kaiqiang Zhang ,&nbsp;Haishen Wen ,&nbsp;Yun Li","doi":"10.1016/j.cbd.2025.101575","DOIUrl":"10.1016/j.cbd.2025.101575","url":null,"abstract":"<div><div>Insulin-like growth factor (IGF) signaling pathway constitutes an ancient regulatory network essential for neuroendocrine functions, significantly influencing developmental processes, reproductive activities, and adaptation to environmental challenges. In this study, we detected 3 <em>IGF</em> genes, 3 <em>IGFR</em> genes and 11 <em>IGFBP</em> genes in spotted sea bass genome. The annotation accuracy and evolutionary conservation of identified genes were confirmed through phylogenetic, syntenic and copy number analyses. Molecular basis of gene functions, and protein interaction relationships were investigated by gene structure and protein-protein interaction (PPI) network analyses. Moreover, selective pressure analysis revealed that most genes primarily underwent purifying selection during evolution. Furthermore, RNA-Seq datasets were utilized to analyze tissue expression profiling for <em>IGF</em>/<em>IGFR</em>/<em>IGFBP</em> genes, along with documentation of their environmental stress-responsive transcriptional dynamics in targeted tissues. Our results demonstrated that <em>IGF</em>/<em>IGFR</em>/<em>IGFBP</em> genes were widely expressed in different tissues, with several genes exhibiting high expression levels in specific tissues. Additionally, the stress response mechanisms of IGF signaling system mainly involve IGFs functions regulated by IGFBPs and IGF-independent functions of IGFBPs. Notably, <em>igf1</em>, <em>igf2</em>, <em>igfbp1a</em>, <em>igfbp3b</em> and <em>igfbp4</em> were pinpointed as key functional genes of environmental challenge adaptation in this species. This investigation provides foundational insights into the <em>IGF</em>/<em>IGFR</em>/<em>IGFBP</em> gene families in spotted sea bass, delivering the first comprehensive genomic resource for these gene families while clarifying their functional contributions to environmental stress adaptation.</div></div>","PeriodicalId":55235,"journal":{"name":"Comparative Biochemistry and Physiology D-Genomics & Proteomics","volume":"56 ","pages":"Article 101575"},"PeriodicalIF":2.2,"publicationDate":"2025-07-06","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144580916","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":"Pituitary transcriptome analysis of spotted scat (Scatophagus argus) with ovaries before and after yolk formation","authors":"Zhilong Liu ,&nbsp;Peng Liu ,&nbsp;Yesheng Wan ,&nbsp;Tuo Wang ,&nbsp;Dongneng Jiang ,&nbsp;Changxu Tian ,&nbsp;Huapu Chen ,&nbsp;Mouyan Jiang ,&nbsp;Siping Deng ,&nbsp;Tianli Wu ,&nbsp;Chun hua Zhu ,&nbsp;Yucong Hong ,&nbsp;Guangli Li","doi":"10.1016/j.cbd.2025.101573","DOIUrl":"10.1016/j.cbd.2025.101573","url":null,"abstract":"<div><div>Fish eggs are of pivotal significance in the domain of fish reproduction, and the degree of their development exerts a profound effect on reproductive capacity. Spotted scat (<em>Scatophagus argus</em>) is an important economic mariculture fish in East and Southeast Asia. Previous research has focused on how pituitary hormones are expressed and released during ovarian development. However, few studies have examined how the pituitary gland controls the expression of hormone genes during the development of the ovaries. In this study, the focus was on the analysis of the transcriptome profiles of pituitary glands in spotted scat. The analysis was conducted on female specimens with ovaries in two distinct states: before yolk formation (BYF) and after yolk formation (AYF). The results reveal that 149 differentially expressed genes (DEGs) were identified between BYF and AYF. Compared to the BYF stage, 85 genes were found to be up-regulated, while 64 genes were down-regulated in the AYF. Notably, some genes' expression level has alteration. Such as hormone receptors (<em>gnrhr2</em> and <em>ar</em>), promote ovarian development genes (<em>cga</em>, <em>cgba</em>, <em>fshb</em>, <em>lhb</em>), estrogen synthase and regulated genes (<em>cyp19a1</em>, <em>hdac9b</em>, and <em>gadd45b</em>), hormone regulation (<em>fgfr4</em>). Additionally, changes have been observed in nociceptive inhibitory and appetite-related genes (e.g. <em>tmem</em>100 and <em>reln</em>). GO and KEGG enrichment analysis revealed that the PI3K-AKT signaling pathway is implicated in the regulation of pituitary hormones. The transcriptomic data provide valuable insights for further study of the regulatory role of the pituitary gland in the ovarian development of spotted scat and provide data support for better artificial regulation of ovarian development and egg maturation in captive breeding of spotted scat.</div></div>","PeriodicalId":55235,"journal":{"name":"Comparative Biochemistry and Physiology D-Genomics & Proteomics","volume":"56 ","pages":"Article 101573"},"PeriodicalIF":2.2,"publicationDate":"2025-07-05","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144748946","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 stomach loss preceding body inflation evolution in Tetraodontiformes: Evidence of gene loss and rapid evolution","authors":"Chang Liu ,&nbsp;Lei Lin ,&nbsp;Sheng Du ,&nbsp;Kaiqiang Liu ,&nbsp;Honglong Ji ,&nbsp;Qian Wang ,&nbsp;Yangbin He ,&nbsp;Changwei Shao","doi":"10.1016/j.cbd.2025.101574","DOIUrl":"10.1016/j.cbd.2025.101574","url":null,"abstract":"<div><div>Tetraodontiformes species exhibit several evolutionary innovations, notably the convergent evolution of two traits in some clades: defensive body inflation and the loss of acid-peptic digestion. It has been widely believed that the evolution of body inflation drove the loss of gastric digestion, as ingesting seawater during inflation would hinder acidification and ultimately lead to the loss of gastric digestion. Leveraging accumulating genome resources, we investigated the presence, synteny, gene expression, and rapid evolution of nine genes associated with acid-peptic digestion across seven species from four Tetraodontiformes families, representing two branches that underwent convergent evolution. In the first evolutionary branch, all agastric species—including the species lacking inflation capability (<em>Mola mola</em>)—exhibit loss or pseudogenization of eight gastric-function-related genes. Among these, only <em>pga1</em> is retained, though it lacks digestive functionality. In another branch, the greenfin horse-faced filefish (<em>Thamnaconus septentrionalis</em>), which possesses a functional stomach, maintains solely <em>pga2</em> as its single pepsinogen gene, with <em>pga1</em> and <em>pgc</em> having been lost, while <em>slc26a9</em> and <em>vsig1</em> show evidence of rapid evolution. These findings suggest that the convergent loss of gastric digestion likely occurred before the evolution of body inflation in both branches, supporting an “unfunctional-stomach-first” evolutionary scenario.</div></div>","PeriodicalId":55235,"journal":{"name":"Comparative Biochemistry and Physiology D-Genomics & Proteomics","volume":"56 ","pages":"Article 101574"},"PeriodicalIF":2.2,"publicationDate":"2025-07-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144921780","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}