Gene Reports最新文献

{"title":"Investigating polymorphism of Plasmodium falciparum msp1 and msp2 vaccine candidates reveals a high proportion of genetically diverse monoclonal infections in Cameroon","authors":"Loick P. Kojom Foko ,&nbsp;Joseph Hawadak ,&nbsp;Vineeta Singh","doi":"10.1016/j.genrep.2025.102348","DOIUrl":"10.1016/j.genrep.2025.102348","url":null,"abstract":"<div><h3>Background</h3><div>Antimalarial immunity is greatly modulated by the genetic structure of <em>Plasmodium</em> populations, which is an important hurdle to successful vaccine development.</div></div><div><h3>Methods</h3><div>Dried blood spots were collected from hospital patients living in four towns (Douala, Maroua, Mayo-Oulo, and Pette). Genomic DNA was extracted and used to genotype the merozoite surface protein 1 and 2 genes (<em>msp1</em> and <em>msp2</em>).</div></div><div><h3>Results</h3><div>K1 (76.3 %) and IC/3D7 (83.3 %) were the most frequently found <em>msp1</em> and <em>msp2</em> allelic types, respectively. The total number of genotypes was 24 <em>msp1</em> (11 K1; 8 Mad20; 5 RO33) and 43 <em>msp2</em> (29 IC/3D7; 14 FC27). Monoclonal infections were predominant: 68.4 % for <em>msp1</em> [K1 (46.1 %), Mad20 (18.4 %), and RO33 (3.9 %)], and 67.1 % for <em>msp2</em> [IC/3D7 (50.0 %), and FC27 (17.1 %)]. Individuals living in Pette had fewer chances to get <em>msp1</em>-related monoclonal infections than those living in Douala (OR = 0.22, <em>p</em> = 0.01). Regarding <em>msp2</em>, IC/3D7 and FC27 genotypes found in MI accounted for 58.6 % and 100 % of total IC/3D7 and FC27 genotypes found. No statistically significant association was found between MOI, age, parasite density, and geographical area.</div></div><div><h3>Conclusion</h3><div>This study reveals a high genetic diversity of <em>P. falciparum</em> infections, with a predominance of monoclonal infections.</div></div>","PeriodicalId":12673,"journal":{"name":"Gene Reports","volume":"41 ","pages":"Article 102348"},"PeriodicalIF":0.9,"publicationDate":"2025-10-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145216395","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Genomic architecture of skeletal malocclusions: Implications for precision orthodontics - Narrative review","authors":"Katarzyna Chojnacka ,&nbsp;Marcin Mikulewicz","doi":"10.1016/j.genrep.2025.102347","DOIUrl":"10.1016/j.genrep.2025.102347","url":null,"abstract":"<div><h3>Background</h3><div>Genetic variants, particularly single-nucleotide polymorphisms (SNPs), have been linked to craniofacial growth, dentoalveolar development, and skeletal remodeling through core pathways that govern morphogenesis (e.g., FGF/FGFR, WNT/β-catenin, TGF-β/BMP, and the GH/IGF axis). Interethnic differences in allele frequencies and effect sizes indicate ancestry-specific architecture. Multiple candidate genes and loci related to skeletal Class II/III malocclusion have been reported across genome-wide association studies (GWAS) and candidate-gene analyses, including signals at GHR/IGF1, FGFR2, RUNX2, WNT3A, MSX1, and GLI2.</div></div><div><h3>Aim</h3><div>To collate and critically appraise current genetic evidence on skeletal malocclusions and to identify a functionally supported subset of SNPs relevant to precision orthodontic care. Given cohort heterogeneity and ancestry-specific effects, loci labeled as higher-confidence were prioritized when replication (where available), biological plausibility, and clinical association converged. Here, a functional SNP denotes a variant with experimental or expression evidence for a biological effect on gene regulation, protein function, or development.</div></div><div><h3>Methods</h3><div>Narrative review with a structured search of PubMed/Scopus (last search May 5, 2025). Two complementary approaches were applied: (i) an annotation table linking genotype, phenotype, putative mechanism, zygosity, and references; and (ii) an allele-phenotype matrix stratified by ancestry (Asian, European, admixed).</div></div><div><h3>Results</h3><div>Of approximately 95 reported SNPs screened, 38 met the predefined criteria (including replication where available, functional relevance to craniofacial development, and clinical association with prognathism and/or maxillary deficiency). Replication remains limited for several loci. The resulting set provides a pragmatic basis for risk stratification, not deterministic prediction. From this 38-SNP higher-confidence set, we selected an illustrative 11-SNP subset to prototype PRS-Ortho v1.</div></div><div><h3>Conclusions</h3><div>This narrative review synthesizes evidence from over 70 peer-reviewed studies and presents 38 functionally supported SNPs currently most relevant to craniofacial growth. These data support the personalization of diagnosis, treatment planning, and prognosis in precision orthodontics, while underscoring the need for multi-ethnic replication and prospective evaluation before routine clinical testing. An 11-SNP subset (PRS-Ortho v1) is provided as a prototype for illustrative, unweighted scoring.</div></div>","PeriodicalId":12673,"journal":{"name":"Gene Reports","volume":"41 ","pages":"Article 102347"},"PeriodicalIF":0.9,"publicationDate":"2025-09-30","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145216391","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Prevalence and molecular characterization of carbapenem-resistant Pseudomonas aeruginosa and emergence of blaNDM gene","authors":"Samira Ahmadi Asli ,&nbsp;Shabnam Golbouy Daghdari ,&nbsp;Farzin Asghari-Sana ,&nbsp;Mohammad Sarkheili","doi":"10.1016/j.genrep.2025.102346","DOIUrl":"10.1016/j.genrep.2025.102346","url":null,"abstract":"<div><div><em>Pseudomonas aeruginosa</em> is a major cause of hospital-acquired infections, with increasing multidrug resistance. This study aimed to evaluate antimicrobial resistance patterns, assess phenotypic metallo-β-lactamase (MBL) detection, and investigate key resistance genes (<em>bla</em>_NDM, <em>bla</em>_IMP, <em>bla</em>_VIM, and <em>bla</em>_OXA-10) in clinical isolates. A total of 472 clinical samples were collected from three major hospitals in Urmia, Iran, resulting in the identification of 81 confirmed <em>P. aeruginosa</em> isolates. Antimicrobial susceptibility was tested using the disk diffusion method, and MBL production was assessed through four phenotypic tests (CDT-IPM, DDST-IPM, CDT-CAZ, and DDST-CAZ). Resistance genes were confirmed using both uniplex and multiplex PCR. The highest resistance was observed against cefoxitin (93.8 %) and meropenem (60.0 %), while colistin and amikacin remained the most effective agents. Among the phenotypic tests, DDST-IPM demonstrated the highest sensitivity (100 %), but showed limited specificity (57 %). CDT-IPM showed comparable specificity. In contrast, CDT-CAZ and DDST-CAZ exhibited lower specificity and variable sensitivity. PCR results showed that <em>bla</em>_OXA-10 was present in 85.7 % of carbapenem-resistant isolates, followed by <em>bla</em>_VIM (73.5 %), <em>bla</em>_IMP (53.0 %), and <em>bla</em>_NDM (38.8 %). The detection of colistin-resistant strains and the co-occurrence of multiple MBL genes raise concerns about treatment limitations and highlight the need for better diagnostics and resistance monitoring.</div></div>","PeriodicalId":12673,"journal":{"name":"Gene Reports","volume":"41 ","pages":"Article 102346"},"PeriodicalIF":0.9,"publicationDate":"2025-09-26","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145216513","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"A hypothetical link between FAHD1 and mitochondrial resilience?","authors":"Konstantin A. Wilhelmy ,&nbsp;Yana Rytchenko ,&nbsp;Alexander K.H. Weiss","doi":"10.1016/j.genrep.2025.102343","DOIUrl":"10.1016/j.genrep.2025.102343","url":null,"abstract":"<div><div>The mitochondrial enzyme FAHD1 may influence acetyl-CoA metabolism under certain conditions, although physiological relevance remains to be determined. This study explores the potential association between a naturally occurring FAHD1 variant with altered catalytic properties, that is statistically expressed in some long-lived species. Through comparative gene expression and metabolic pathway analyses in kidney, liver, and brain tissues, we examine whether this FAHD1 variant is associated with mitochondrial gene expression patterns indicative of metabolic adaptation. However, our conclusions remain exploratory and hypothesis-generating rather than definitive. The variant's altered catalytic properties might affect acetyl-CoA-related pathways, potentially influencing mitochondrial energy balance and biosynthesis, though <em>in vivo</em> physiological consequences remain unconfirmed. Given the exclusively transcriptomic nature of the data, no causal inferences can be drawn; the findings are exploratory and intended to generate hypotheses for future validation.</div></div>","PeriodicalId":12673,"journal":{"name":"Gene Reports","volume":"41 ","pages":"Article 102343"},"PeriodicalIF":0.9,"publicationDate":"2025-09-24","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145216397","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Association of CDH1 gene variant C > A (rs16260) with expression and treatment outcomes in cervical cancer patients receiving chemoradiotherapy","authors":"Shireen Masood ,&nbsp;Atar Singh Kushwah ,&nbsp;Kirti Srivastava ,&nbsp;Monisha Banerjee","doi":"10.1016/j.genrep.2025.102344","DOIUrl":"10.1016/j.genrep.2025.102344","url":null,"abstract":"<div><h3>Background</h3><div>The <em>CDH1</em> gene promoter variant C &gt; A (rs16260) is associated with downregulation of E-cadherin, which compromises epithelial integrity and has been linked to poor prognosis in various cancers. This study investigates the association of the <em>CDH1</em> C &gt; A variant with gene expression and its potential as a prognostic biomarker for cervical cancer in an Indian population.</div></div><div><h3>Methods</h3><div>This case-control study involved 107 cervical cancer patients and 96 age-matched healthy controls. Genotyping of the <em>CDH1</em> C &gt; A (rs16260) variant was performed using PCR-RFLP, and gene expression was analyzed through qPCR. Kaplan-Meier and Cox regression analyses were used to correlate genotypes and gene expression with treatment response and survival outcomes. Statistical analysis was conducted using QUANTO (v.1.2), GraphPad Prism (v. 10), SPSS (v. 25).</div></div><div><h3>Results</h3><div>The CA and CA + AA genotypes of the <em>CDH1</em> variant were significantly associated with cervical cancer risk (<em>P</em> = 0.011 and <em>P</em> = 0.004, respectively). <em>CDH1</em> gene expression was significantly downregulated in cervical cancer patients compared to controls (<em>P</em> = 0.023). While the CA genotype was protective against recurrence and treatment toxicity (<em>P</em> &lt; 0.001 and <em>P</em> = 0.050, respectively), the CC genotype was linked to increased toxicity and recurrence. CA genotype shows a trend toward better overall survival (median 27 vs. 19 months; HR &lt; 1), though not statistically significant (<em>P</em> = 0.079).</div></div><div><h3>Conclusion</h3><div>The <em>CDH1</em> C &gt; A (rs16260) variant may be a prognostic biomarker to predict toxicity and recurrence of cervical cancer, with implications for personalized treatment strategies. However, further studies in larger, more diverse cohorts are necessary to validate these findings.</div></div>","PeriodicalId":12673,"journal":{"name":"Gene Reports","volume":"41 ","pages":"Article 102344"},"PeriodicalIF":0.9,"publicationDate":"2025-09-19","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145109488","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Phylogenetic structure and paternal migration history of Sichuan Bouyei people revealed by Y-chromosomal STRs","authors":"Guang-Yao Fan ,&nbsp;En-Na Wang ,&nbsp;Jia-Xin Han ,&nbsp;Xin-Ying Yu ,&nbsp;An-Ying Zheng ,&nbsp;Ying Zhu","doi":"10.1016/j.genrep.2025.102342","DOIUrl":"10.1016/j.genrep.2025.102342","url":null,"abstract":"<div><div>This study investigates the phylogenetic structure and demographic history of the Sichuan Bouyei people. Genetic profiles of 37 Y-chromosomal short tandem repeat (STR) loci among 425 Bouyei males from eight regions in Sichuan Province were analyzed. Along with published datasets, multidimensional scaling plots, principal component analysis, and phylogenetic reconstruction were conducted on both an Asia-wide and national scale. Genetic stratification in the studied populations was influenced by linguistic and geographic distribution patterns. Significant genetic differentiation was observed between two predominant Bouyei groups from the counties of Ningnan and Muli. Machine learning-based category prediction was performed among contemporary Bouyei and non-Bouyei individuals using the Linear Discriminant Analysis (LDA) method. The results of the LDA indicated a deep fusion between Tai-Kadai-speaking and Hmong-Mien-speaking populations. The timing of population differentiations was estimated using BATWING. Furthermore, the migration rate between the Sichuan Bouyei and other populations was inferred using coalescence theory in the Migrate-n program. The migration models and directions were evaluated, revealing gene flow of Bouyei people from the Sichuan Muli to Vietnam. The data presented here for the Sichuan Bouyei people will be useful in establishing a more comprehensive Y-STR database, and enrich our understanding of the patrilineal history of Tai-Kadai-speaking peoples in China.</div></div>","PeriodicalId":12673,"journal":{"name":"Gene Reports","volume":"41 ","pages":"Article 102342"},"PeriodicalIF":0.9,"publicationDate":"2025-09-18","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145104788","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Antimicrobial resistance and bioactive metabolites of Serratia marcescens CAB03 from a Palk Bay coral reef","authors":"S. Hari Krishna Kumar ,&nbsp;Ragothaman Prathiviraj ,&nbsp;Muregesan Sobanaa ,&nbsp;George Seghal Kiran ,&nbsp;Joseph Selvin","doi":"10.1016/j.genrep.2025.102339","DOIUrl":"10.1016/j.genrep.2025.102339","url":null,"abstract":"<div><div>Antimicrobial-resistant pathogens are poorly understood and pose emerging threats to coral reef ecosystems. Coral-associated microbial diversity is crucial for reef resilience; however, there is a limited understanding of opportunistic pathogens from Indian reefs. Here, we report the identification of <em>Serratia marcescens</em> CAB03, which may be associated with coral disease, isolated from <em>Acropora cythera</em> of Palk Bay coral reef, India. Whole genome sequencing of <em>S. marcescens</em> CAB03 produced 24 contigs (total G + C 59.7 %) and 4713 predicted genes. Identification of functional annotation revealed 17 antimicrobial resistance (AMR) genes, including three copies of the <em>adeF</em> gene, which encapsulates a resistance-nodulation-division (RND) efflux system that provides resistance to tetracyclines and fluoroquinolones. At the same time, related genes were also associated with resistance to β-lactams, aminoglycosides, macrolides, glycopeptides, and disinfectants, suggesting that this strain may have multidrug resistance potential. Further secondary metabolite prediction revealed biosynthetic gene clusters for ririwpeptide, a cyclic lipopetide with membrane-disrupting antibacterial and anticancer activity, and prodigiosin, which has gained notoriety for its antimicrobial, anticancer, and immunosuppressant activities as a red-colored pigment. Genome-based evidence clearly indicates that <em>S. marcescens</em> CAB03 is a contributor to coral health degradation through the proliferation of AMR bacteria and also a potential repository of bioactive compounds for pharmaceutical purposes. We used whole-genome sequencing here to address a long-standing knowledge gap regarding AMR bacteria associated with coral from Indian reefs. This study illustrates the need for genomic surveillance and conservation for AMR bacteria, ideally and more generally advances the study of microbial metabolites for drug discovery. Linking pathogen genomic profiles to reef health and advances in applied biotechnology reveal new reasons for coral reef conservation and provide new sources of data for potential drug development.</div></div>","PeriodicalId":12673,"journal":{"name":"Gene Reports","volume":"41 ","pages":"Article 102339"},"PeriodicalIF":0.9,"publicationDate":"2025-09-18","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145216396","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Comparative temporal transcriptome analysis identifies genes involved in gonadal differentiation and development in Pacific abalone","authors":"Yuanyuan Huang ,&nbsp;Xiaobin Ye ,&nbsp;Chaonan Tang ,&nbsp;Xuan Luo ,&nbsp;Weiwei You ,&nbsp;Caihuan Ke ,&nbsp;Mingyi Cai","doi":"10.1016/j.genrep.2025.102334","DOIUrl":"10.1016/j.genrep.2025.102334","url":null,"abstract":"<div><div>The mechanisms governing sex determination and gonadal differentiation in mollusks remain largely unresolved. To characterize transcriptional regulation during early gonadal development in <em>Haliotis discus hannai</em>, a temporal transcriptomic analysis was conducted across six developmental stages. The results revealed a two-phase differentiation model. In Phase I (240–270 days post-fertilization), male and female gonads exhibited highly similar expression profiles, with few sex-biased genes. In Phase II (284 dpf to 24-month-old), a marked increase in sex-biased gene expression was observed, coinciding with functional divergence of gonads. Across all stages, 75 consistently sex-biased genes were identified, including evolutionarily conserved regulators such as <em>Dmrt1</em>, <em>Foxl2</em>, and <em>Sohlh2</em>, supporting their central roles in testicular and ovarian development. Co-expression network analysis uncovered distinct sex-associated gene modules: female-enriched modules featured <em>Foxl2</em> and oocyte-related genes, while male-associated modules included <em>Dmrt1</em> and spermatogenesis regulators. Additionally, sex-biased expression of genes involved in circadian rhythm and phototransduction suggests environmental cues may influence gonadal development. Together, these findings establish a dynamic regulatory framework for sex differentiation in abalone, integrating conserved genetic factors with environmentally responsive pathways. This work provides important insights into molluscan reproductive biology and lays a foundation for future applications in sex control and aquaculture breeding.</div></div>","PeriodicalId":12673,"journal":{"name":"Gene Reports","volume":"41 ","pages":"Article 102334"},"PeriodicalIF":0.9,"publicationDate":"2025-09-13","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145104791","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Exploring the influences on rheumatoid arthritis progression: A comprehensive review of autoimmunity and cellular mechanisms","authors":"Prachi Agnihotri ,&nbsp;Mohd Saquib ,&nbsp;Niyati Pal ,&nbsp;Lovely Joshi ,&nbsp;Sagarika Biswas","doi":"10.1016/j.genrep.2025.102337","DOIUrl":"10.1016/j.genrep.2025.102337","url":null,"abstract":"<div><div>This review revealed the complex relationship between autoimmunity and Rheumatoid Arthritis (RA), emphasizing the importance of understanding various intrinsic and extrinsic factors contributing to disease progression. RA, affecting 1 % of the world's population, predominantly impacts females and presents clinical symptoms such as joint swelling and morning stiffness. Biomarkers like RF and ACPA are used for disease prognosis. Autoimmunity, characterized by the immune system's attack on self-cells, leads to the production of autoantibodies against self-biomolecules, initiating cellular impairment and disease onset. Our review aims to comprehensively synthesize the myriad risk factors involved in RA progression, encompassing genetic, epigenetic, cellular, and environmental determinants. These factors contribute to the production of autoantibodies and shape the autoimmune milieu within RA. The autoimmune nature of RA, demonstrated by the presence of ACPA and other autoantibodies, triggers immune responses and proinflammatory cytokine release, stimulating synovial fibroblast activity and joint destruction. Furthermore, aggressive epigenetically modified synovial fibroblasts play a role in disease pathology. In this article, we highlighted the significance of understanding immune tolerance alterations related to autoimmune diseases like RA and advocated for studying similar factors in other diseases to enhance our understanding of RA pathophysiology. Advances in clinical investigations, such as using RA-specific peptides or proteins and cell-based therapies, showed promise in improving RA patient outcomes. Overall, our review aims to provide valuable insights into the intricate mechanisms driving RA progression, offering potential avenues for therapeutic intervention and disease management.</div></div>","PeriodicalId":12673,"journal":{"name":"Gene Reports","volume":"41 ","pages":"Article 102337"},"PeriodicalIF":0.9,"publicationDate":"2025-09-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145104792","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Comparative gonadal transcriptome analysis reveals sex-biased genes in Siniperca scherzeri","authors":"Shengyue Lin ,&nbsp;Dingxian Chen ,&nbsp;Weiqian Liang ,&nbsp;Weijian Chen ,&nbsp;Weibin Li ,&nbsp;Ziyan Deng ,&nbsp;Guojun Cai ,&nbsp;Sixun Li ,&nbsp;Binhua Deng ,&nbsp;Kaifeng Wang ,&nbsp;Chong Han ,&nbsp;Qiang Li","doi":"10.1016/j.genrep.2025.102340","DOIUrl":"10.1016/j.genrep.2025.102340","url":null,"abstract":"<div><div><em>Siniperca scherzeri</em> is a valuable freshwater fish in China. The economic value of female <em>S. scherzeri</em> far exceeds that of males. Nevertheless, the lack of sex-related research has significantly impeded the development of single-sex breeding programs for this species.</div><div>In this investigation, Illumina Novaseq technology was employed to perform a comparative analysis of the gonadal transcriptomes of <em>S. scherzeri</em> in the first time. Assembly yielded 33,690 unigenes, of which 31,395 were successfully annotated. A comparative analysis identified 15,146 differentially expressed genes between the ovary and testis. Specifically, 9514 genes were downregulated and 5632 genes were upregulated in the ovaries. Moreover, multiple genes participating in gonadal differentiation and development, steroid synthetic pathway, and gametogenesis were screened out. Among these genes, <em>sox 1</em>, <em>sox3</em>, <em>cyp26a1</em>, <em>gdf9</em>, <em>bmp15</em>, <em>zp3</em>, <em>foxh1</em>, and <em>nr0b1</em> showed ovary-biased expression; <em>Amh</em>, <em>dmrt1b</em>, <em>sox 4</em>, and <em>nanos 2</em> showed testis-bias expression. Our real-time PCR also confirmed the RNA-seq results of these genes. These results are of great significance for elucidating the molecular mechanisms of sex differentiation and development in <em>S. scherzeri</em>.</div></div>","PeriodicalId":12673,"journal":{"name":"Gene Reports","volume":"41 ","pages":"Article 102340"},"PeriodicalIF":0.9,"publicationDate":"2025-09-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145060542","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}