Advanced genetics (Hoboken, N.J.)最新文献

{"title":"Editorial Board: (Advanced Genetics 3/06)","authors":"","doi":"10.1002/ggn2.70012","DOIUrl":"https://doi.org/10.1002/ggn2.70012","url":null,"abstract":"","PeriodicalId":72071,"journal":{"name":"Advanced genetics (Hoboken, N.J.)","volume":"6 3","pages":""},"PeriodicalIF":0.0,"publicationDate":"2025-09-30","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://advanced.onlinelibrary.wiley.com/doi/epdf/10.1002/ggn2.70012","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145197175","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Two Decades of Optogenetic Tools: A Retrospective and a Look Ahead (Advanced Genetics 3/06)","authors":"Xiao Duan,&nbsp;Mo Zhu,&nbsp;Shiqiang Gao","doi":"10.1002/ggn2.70013","DOIUrl":"https://doi.org/10.1002/ggn2.70013","url":null,"abstract":"<p><b>Illuminating Life with Optogenetics</b></p><p>Beams of light orchestrate cellular control: light-gated ion channels shape ion flux; photoswitchable enzymes and receptors modulate signaling pathways; light-controlled protein interactions tune function; and light-regulated gene expression. In article 202500021, Xiao Duan, Mo Zhu, and Shiqiang Gao review two decades of optogenetics, from fundamental biology to early clinical translation. The cover image is based on the article <b><i>Two Decades of Optogenetic Tools: A Retrospective and a Look Ahead</i></b> by Xiao Duan et al., https://doi.org/10.1002/ggn2.202500021.\u0000\u0000 <figure>\u0000 <div><picture>\u0000 <source></source></picture><p></p>\u0000 </div>\u0000 </figure></p>","PeriodicalId":72071,"journal":{"name":"Advanced genetics (Hoboken, N.J.)","volume":"6 3","pages":""},"PeriodicalIF":0.0,"publicationDate":"2025-09-30","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://advanced.onlinelibrary.wiley.com/doi/epdf/10.1002/ggn2.70013","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145197193","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"3D Genome Architecture in Stem Cell Lineage Commitment: from Structural Organization to Precision Regulation","authors":"Yanchi He,&nbsp;Wenrui Li,&nbsp;Lin Li,&nbsp;Ying Yang,&nbsp;Yutong Lu,&nbsp;Yufei Pan,&nbsp;Qing Wang,&nbsp;Yuqiang Sun,&nbsp;Yuxuan Xie,&nbsp;Mingyue Wu,&nbsp;Peng Luo,&nbsp;Wansu Sun,&nbsp;Hengguo Zhang","doi":"10.1002/ggn2.202500035","DOIUrl":"https://doi.org/10.1002/ggn2.202500035","url":null,"abstract":"<p>Stem cell lineage commitment is governed by intricate interactions between epigenetic mechanisms and 3D genome organization. Traditional linear epigenetics, including DNA methylation and histone modifications, cannot fully elucidate the complex spatiotemporal regulation of gene expression. Recent advances in spatial genomics technologies, such as high-throughput chromosome conformation capture (Hi-C), single-cell Hi-C, and Chromatin immunoprecipitation combined with Hi-C (Hi-ChIP), have provided unprecedented insights into genome architecture, revealing key structural units like chromatin compartments, topologically associating domains (TADs), and chromatin loops. These structures dynamically reorganize during differentiation, influencing transcriptional accessibility and lineage-specific gene activation. Additionally, liquid-liquid phase separation (LLPS)-mediated transcriptional condensates, such as transcription factories and super-enhancers, have emerged as essential regulators of gene expression patterns during cell fate transitions. The integration of multiomics data and artificial intelligence-driven predictive modeling further enhances the understanding of these regulatory networks. Despite ongoing technical challenges, including limitations in resolution, data complexity, and causal inference, recent advances continue to push the field forward. Engineered interventions such as CRISPR-based spatial genome editing and AI-powered computational platforms hold great promise for translating structural insights into targeted therapeutic strategies in regenerative medicine.</p>","PeriodicalId":72071,"journal":{"name":"Advanced genetics (Hoboken, N.J.)","volume":"6 3","pages":""},"PeriodicalIF":0.0,"publicationDate":"2025-09-16","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://advanced.onlinelibrary.wiley.com/doi/epdf/10.1002/ggn2.202500035","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145196855","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"How Everything Is Connected to Everything Else – Population-Specific Connections between Adaptive Evolution, Disease Susceptibility, and Drug Responsiveness","authors":"Ji Tang,&nbsp;Hao Zhu","doi":"10.1002/ggn2.202500018","DOIUrl":"https://doi.org/10.1002/ggn2.202500018","url":null,"abstract":"<p>The genome is like a kaleidoscope through which researchers have obtained varied findings, including favored mutations, disease susceptibility sites, and drug-responsive sites. Whether these findings have inherent connections is a question deserving investigation. Favored mutations enable humans to adapt to changing environments and lifestyles; however, the adaptation may come with some costs. This is because a favored mutation can change the frequency of varied neutral nucleotides across a large genomic region, and a favored mutation may become disfavored as environments and lifestyles change further. These are the best-known classes of connections whose causes and consequences have been understood. However, many favored mutations remain unidentified. Using a deep learning network (<i>DeepFavored</i>) that integrates statistical tests and is trained on large datasets, favored mutations are recently identified in 17 human populations. The analyses of the results, in conjunction with genome-wide association study (GWAS) data, suggest that the connection between adaptive evolution, disease susceptibility, and drug responsiveness (referred to as a trade-off) is extensive and highly population-specific. The analyses, along with other emerging evidence, suggest that there are other types of connections. In this commentary, these issues are discussed from both retrospective and prospective views, including current challenges and future directions.</p>","PeriodicalId":72071,"journal":{"name":"Advanced genetics (Hoboken, N.J.)","volume":"6 3","pages":""},"PeriodicalIF":0.0,"publicationDate":"2025-09-10","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://advanced.onlinelibrary.wiley.com/doi/epdf/10.1002/ggn2.202500018","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145196688","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Delving Into the Dialogue between Epigenetic Modifications and Immunometabolism in Cancer","authors":"Xiaowen Xie,&nbsp;Weici Liu,&nbsp;Pengpeng Zhang,&nbsp;Peng Luo,&nbsp;Bufu Tang,&nbsp;Wenjun Mao","doi":"10.1002/ggn2.202500034","DOIUrl":"https://doi.org/10.1002/ggn2.202500034","url":null,"abstract":"<p>Tumor immunometabolism and epigenetic modifications are intricately linked in reshaping the tumor microenvironment, with their crosstalk offering novel insights into cancer biology. Nutrient deprivation and metabolic byproducts drive metabolic reprogramming in immune cells, where metabolites act as epigenetic modulators to regulate immune-related gene expression and influence immune cell activation, differentiation, and functional states. The cellular complexity, dynamic interactions, and spatiotemporal heterogeneity of the tumor microenvironment pose significant challenges to current studies. Emerging technologies such as single-cell sequencing, spatial omics, and artificial intelligence provide powerful tools to address these complexities. This perspective discusses the crosstalk between tumor immunometabolism and epigenetic modifications, while also exploring how the emerging technologies may advance mechanistic insights and therapeutic innovation in this field.</p>","PeriodicalId":72071,"journal":{"name":"Advanced genetics (Hoboken, N.J.)","volume":"6 3","pages":""},"PeriodicalIF":0.0,"publicationDate":"2025-09-05","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://advanced.onlinelibrary.wiley.com/doi/epdf/10.1002/ggn2.202500034","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145196616","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Brachydactyly with Novel BMP8A and FGFR1 Variants: A Case Report with Review of Literature","authors":"Luke Hunter,&nbsp;Muhammad Ilyas","doi":"10.1002/ggn2.202500015","DOIUrl":"https://doi.org/10.1002/ggn2.202500015","url":null,"abstract":"<p>Bone morphogenetic proteins (BMPs) and the fibroblast growth factor receptor 1 (FGFR1) gene play essential roles in the development and maintenance of the skeletal system. Brachydactyly is a genetic condition characterized by shortened or missing bones in the hands and feet. Several types of brachydactyly have been identified, each associated with different genetic mutations. However, some cases do not fit into existing classifications, necessitating further genetic investigation. A 34-year-old female patient with an absent middle phalanx in the second digit of her left foot and her 13-year-old son, who presented with absent or malformed middle and distal phalanx in all ten toes, are evaluated. Whole Genome Sequencing (WGS) analysis identifies a missense variant (c.1073A &gt;T; p.K358M) in the BMP8A gene and a novel missense variant (c.1787C &gt;T, p.Ser596Phe) in the FGFR1 gene. Functional protein association network analysis demonstrates a strong association of BMP8A and FGFR1 with other brachydactyly disease-causing genes. Given that these mutations have not been previously linked to any recognized brachydactyly subtype, they likely define a distinct genetic condition. The findings suggest a novel form of brachydactyly, which naming is proposed as brachydactyly type AB.</p>","PeriodicalId":72071,"journal":{"name":"Advanced genetics (Hoboken, N.J.)","volume":"6 3","pages":""},"PeriodicalIF":0.0,"publicationDate":"2025-09-04","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://advanced.onlinelibrary.wiley.com/doi/epdf/10.1002/ggn2.202500015","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145196521","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Two Decades of Optogenetic Tools: A Retrospective and a Look Ahead","authors":"Xiao Duan,&nbsp;Mo Zhu,&nbsp;Shiqiang Gao","doi":"10.1002/ggn2.202500021","DOIUrl":"https://doi.org/10.1002/ggn2.202500021","url":null,"abstract":"<p>Over the past two decades, optogenetics has evolved from a conceptual framework into a powerful and versatile technology for controlling cellular processes with light. Rooted in the discovery and characterization of natural photoreceptors, the field has advanced through the development of genetically encoded, light-sensitive proteins that enable precise spatiotemporal control of ion flux, intracellular signaling, gene expression, and protein interactions. This review traces key milestones in the emergence of optogenetics and highlights the development of major optogenetic tools. From the perspective of genetic tool innovation, the focus is on how these tools have been engineered and optimized for novel or enhanced functions, altered spectral properties, improved light sensitivity, subcellular targeting, and beyond. Their broadening applications are also explored across neuroscience, cardiovascular biology, hematology, plant sciences, and other emerging fields. In addition, current trends such as all-optical approaches, multiplexed control, and clinical translation, particularly in vision restoration are discussed. Finally, ongoing challenges are addressed and outline future directions in optogenetic tool development and in vivo applications, positioning optogenetics as a transformative platform for basic research and therapeutic advancement.</p>","PeriodicalId":72071,"journal":{"name":"Advanced genetics (Hoboken, N.J.)","volume":"6 3","pages":""},"PeriodicalIF":0.0,"publicationDate":"2025-09-02","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://advanced.onlinelibrary.wiley.com/doi/epdf/10.1002/ggn2.202500021","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145196451","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Advanced Dialogues: From Laboratory to Clinics: Plant Cell-Based Affordable Biologics","authors":"Henry Daniell","doi":"10.1002/ggn2.202500045","DOIUrl":"https://doi.org/10.1002/ggn2.202500045","url":null,"abstract":"&lt;p&gt;My research group at the University of Pennsylvania School of Dental Medicine focuses on noninvasive and affordable delivery of recombinant proteins. Although biologics have been used in the clinic for more than eight decades, they are mostly unaffordable, thereby limiting their access to a large global population. The high cost is largely due to their production in cell culture systems (bacteria, yeast, CHO cells) requiring prohibitively expensive fermentation systems, purification of host cell proteins (&gt;99%) to minimize allergic reactions, and instability of purified proteins requiring cold chain/transportation and invasive delivery through injections. Therefore, my lab pioneered the approach to develop recombinant proteins in edible plant cells that could be delivered orally via capsules or topically using chewing gums, eliminating the need for fermentation, purification, or cold chain. FDA approval of biologics bioencapsulated in plant cells has demonstrated a dramatic decrease in the cost of drugs (&lt;5%) and a fraction of the regulatory cost for launching new drugs. Some of the recent advances are discussed in this editorial.&lt;/p&gt;&lt;p&gt;Biologics are unavailable or unaffordable for a large majority of the global population because of the way they are produced and delivered. The estimated average cost to develop a new biological product is ≈$2.6 billion.&lt;sup&gt;[&lt;/sup&gt;&lt;span&gt;&lt;sup&gt;1&lt;/sup&gt;&lt;/span&gt;&lt;sup&gt;]&lt;/sup&gt; Among FDA-approved biologics since 2015, &gt;90% are injectable drugs, which are produced in prohibitively expensive fermentation systems, requiring purification and a cold chain for storage and transportation.&lt;sup&gt;[&lt;/sup&gt;&lt;span&gt;&lt;sup&gt;2-4&lt;/sup&gt;&lt;/span&gt;&lt;sup&gt;]&lt;/sup&gt; These challenges became quite evident when only 2.2% of COVID-19 vaccines were available for low-income countries, and 19 million doses of mRNA vaccines were discarded in Africa due to a lack of cold chain.&lt;sup&gt;[&lt;/sup&gt;&lt;span&gt;&lt;sup&gt;5&lt;/sup&gt;&lt;/span&gt;&lt;sup&gt;]&lt;/sup&gt; While oral or topical drugs are highly preferred by patients because of their affordability and convenience, only two oral and four topical biologic drugs were approved by the FDA since 2015,&lt;sup&gt;[&lt;/sup&gt;&lt;span&gt;&lt;sup&gt;2, 3&lt;/sup&gt;&lt;/span&gt;&lt;sup&gt;]&lt;/sup&gt; probably because of regulatory guidelines developed over eight decades that are built on cell culture-based production of biologics and injectable delivery systems.&lt;/p&gt;&lt;p&gt;Strikingly, the per capita prescription of drug spending in the U.S. is the highest in the world. The interquartile range of biological product prices ranged from $18861 to $288759 between 2008 and 2021.&lt;sup&gt;[&lt;/sup&gt;&lt;span&gt;&lt;sup&gt;2-6&lt;/sup&gt;&lt;/span&gt;&lt;sup&gt;]&lt;/sup&gt; However, the cost of Palforzia 360 capsules with peanut cells (annual dose) is &lt;3% (≈$2500) of the median annual price of biologics ($84508).&lt;sup&gt;[&lt;/sup&gt;&lt;span&gt;&lt;sup&gt;2, 3&lt;/sup&gt;&lt;/span&gt;&lt;sup&gt;]&lt;/sup&gt; This median price excludes prohibitively expensive gene therapy drugs. Hemophilia A drug Roctavian costs $2.9 million per patient (WSJ June 29, 2023), and hemophilia B Hemgenix cost","PeriodicalId":72071,"journal":{"name":"Advanced genetics (Hoboken, N.J.)","volume":"6 3","pages":""},"PeriodicalIF":0.0,"publicationDate":"2025-08-09","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://advanced.onlinelibrary.wiley.com/doi/epdf/10.1002/ggn2.202500045","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145196679","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Editorial Board: (Advanced Genetics 2/06)","authors":"","doi":"10.1002/ggn2.70004","DOIUrl":"10.1002/ggn2.70004","url":null,"abstract":"","PeriodicalId":72071,"journal":{"name":"Advanced genetics (Hoboken, N.J.)","volume":"6 2","pages":""},"PeriodicalIF":0.0,"publicationDate":"2025-07-10","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1002/ggn2.70004","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144598502","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Decoding RNA–Protein Interactions: Methodological Advances and Emerging Challenges (Advanced Genetics 2/06)","authors":"Wenkai Yi,&nbsp;Jian Yan","doi":"10.1002/ggn2.70001","DOIUrl":"10.1002/ggn2.70001","url":null,"abstract":"<p><b>RNA–Protein Interactions</b></p><p>This cover art symbolizes RNA-protein interaction methodologies. The boy's fishing line represents RNA bait, while the hooked carp embodies RNA-binding proteins captured via dynamic interplay. In article number 2500011, Wenkai Yi and Jian Yan dissect cutting-edge techniques–from RNA-centric to protein-centric–that decode these molecular dialogues, emphasizing their roles in gene regulation and disease. The metaphor underscores how innovative tools “reel in” elusive targets, bridging mechanistic discovery with therapeutic potential.\u0000\u0000 <figure>\u0000 <div><picture>\u0000 <source></source></picture><p></p>\u0000 </div>\u0000 </figure></p>","PeriodicalId":72071,"journal":{"name":"Advanced genetics (Hoboken, N.J.)","volume":"6 2","pages":""},"PeriodicalIF":0.0,"publicationDate":"2025-07-10","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1002/ggn2.70001","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144598501","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}