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The complex universe of inactive PARP1. 非活性 PARP1 的复杂世界。
IF 13.6 2区 生物学
Trends in Genetics Pub Date : 2024-12-01 Epub Date: 2024-09-20 DOI: 10.1016/j.tig.2024.08.009
Doudou Huang, Ziyi Su, Yanxia Mei, Zhengping Shao
{"title":"The complex universe of inactive PARP1.","authors":"Doudou Huang, Ziyi Su, Yanxia Mei, Zhengping Shao","doi":"10.1016/j.tig.2024.08.009","DOIUrl":"10.1016/j.tig.2024.08.009","url":null,"abstract":"<p><p>Poly(ADP-ribose) polymerase 1 (PARP1) is a crucial member of the PARP family, which modifies targets through ADP-ribosylation and plays key roles in a variety of biological processes. PARP inhibitors (PARPis) hinder ADP-ribosylation and lead to the retention of PARP1 at the DNA lesion (also known as trapping), which underlies their toxicity. However, inhibitors and mutations that make PARP1 inactive do not necessarily correlate with trapping potency, challenging the current understanding of inactivation-caused trapping. Recent studies on mouse models indicate that both trapping and non-trapping inactivating mutations of PARP1 lead to embryonic lethality, suggesting the unexpected toxicity of the current inhibition strategy. The allosteric model, complicated automodification, and various biological functions of PARP1 all contribute to the complexity of PARP1 inactivation.</p>","PeriodicalId":54413,"journal":{"name":"Trends in Genetics","volume":" ","pages":"1074-1085"},"PeriodicalIF":13.6,"publicationDate":"2024-12-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142301092","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}
引用次数: 0
Yes, polygenic sex determination is a thing! 是的，多基因性别决定是个东西！
IF 13.6 2区 生物学
Trends in Genetics Pub Date : 2024-12-01 Epub Date: 2024-11-05 DOI: 10.1016/j.tig.2024.10.003
Thomas D Kocher, Richard P Meisel, Tony Gamble, Kristen A Behrens, William J Gammerdinger
{"title":"Yes, polygenic sex determination is a thing!","authors":"Thomas D Kocher, Richard P Meisel, Tony Gamble, Kristen A Behrens, William J Gammerdinger","doi":"10.1016/j.tig.2024.10.003","DOIUrl":"10.1016/j.tig.2024.10.003","url":null,"abstract":"<p><p>The process of sexual development in animals is modulated by a variety of mechanisms. Some species respond to environmental cues, while, in others, sex determination is thought to be controlled by a single 'master regulator' gene. However, many animals respond to a combination of environmental cues (e.g., temperature) and genetic factors (e.g., sex chromosomes). Even among species in which genetic factors predominate, there is a continuum between monofactorial and polygenic systems. The perception that polygenic systems are rare may result from experiments that lack the statistical power to detect multiple loci. Intellectual biases against the existence of polygenic sex determination (PSD) may further arise from misconceptions about the regulation of developmental processes and a misreading of theoretical results on the stability of polygenic systems of sex determination.</p>","PeriodicalId":54413,"journal":{"name":"Trends in Genetics","volume":" ","pages":"1001-1017"},"PeriodicalIF":13.6,"publicationDate":"2024-12-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142592117","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}
引用次数: 0
Genetic origins, regulators, and biomarkers of cellular senescence. 细胞衰老的遗传起源、调节因子和生物标志物。
IF 13.6 2区 生物学
Trends in Genetics Pub Date : 2024-12-01 Epub Date: 2024-09-27 DOI: 10.1016/j.tig.2024.08.007
Grasiela Torres, Ivan A Salladay-Perez, Anika Dhingra, Anthony J Covarrubias
{"title":"Genetic origins, regulators, and biomarkers of cellular senescence.","authors":"Grasiela Torres, Ivan A Salladay-Perez, Anika Dhingra, Anthony J Covarrubias","doi":"10.1016/j.tig.2024.08.007","DOIUrl":"10.1016/j.tig.2024.08.007","url":null,"abstract":"<p><p>This review comprehensively examines the molecular biology and genetic origins of cellular senescence. We focus on various cellular stressors and pathways leading to senescence, including recent advances in the understanding of the genetic influences driving senescence, such as telomere attrition, chemotherapy-induced DNA damage, pathogens, oncogene activation, and cellular and metabolic stress. This review also highlights the complex interplay of various signaling and metabolic pathways involved in cellular senescence and provides insights into potential therapeutic targets for aging-related diseases. Furthermore, this review outlines future research directions to deepen our understanding of senescence biology and develop effective interventions targeting senescent cells (SnCs).</p>","PeriodicalId":54413,"journal":{"name":"Trends in Genetics","volume":" ","pages":"1018-1031"},"PeriodicalIF":13.6,"publicationDate":"2024-12-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142332464","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}
引用次数: 0
Can developmental signals shatter or mend our genomes? 发育信号能粉碎或修补我们的基因组吗？
IF 13.6 2区 生物学
Trends in Genetics Pub Date : 2024-12-01 Epub Date: 2024-11-07 DOI: 10.1016/j.tig.2024.10.006
Yimiao Qu, Kyle M Loh
{"title":"Can developmental signals shatter or mend our genomes?","authors":"Yimiao Qu, Kyle M Loh","doi":"10.1016/j.tig.2024.10.006","DOIUrl":"10.1016/j.tig.2024.10.006","url":null,"abstract":"<p><p>Consensus holds that most cells in the embryo are genetically identical and have healthy genomes. However, embryonic cells with abnormal chromosomes are surprisingly frequent. In a recent publication, de Jaime-Soguero et al. report that extracellular developmental signaling pathways, including BMP, FGF, and WNT, can promote or prevent chromosome instability in certain cell types.</p>","PeriodicalId":54413,"journal":{"name":"Trends in Genetics","volume":" ","pages":"993-994"},"PeriodicalIF":13.6,"publicationDate":"2024-12-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142607437","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}
引用次数: 0
To genetic rescue or not? 要不要拯救基因？
IF 13.6 2区 生物学
Trends in Genetics Pub Date : 2024-11-27 DOI: 10.1016/j.tig.2024.11.004
Karin Norén, Malin Hasselgren
{"title":"To genetic rescue or not?","authors":"Karin Norén, Malin Hasselgren","doi":"10.1016/j.tig.2024.11.004","DOIUrl":"https://doi.org/10.1016/j.tig.2024.11.004","url":null,"abstract":"<p><p>Inbreeding depression and genetic rescue are central themes in conservation biology. Translocation is a tool to assist genetic rescue but is connected to risks. A new study by Quinn et al. used genomic data to evaluate translocations as a potential action in montane red fox, bringing important implications also for other threatened species.</p>","PeriodicalId":54413,"journal":{"name":"Trends in Genetics","volume":" ","pages":""},"PeriodicalIF":13.6,"publicationDate":"2024-11-27","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142741125","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}
引用次数: 0
Amyloids transmit acquired epigenetic feminizing information between generations.
IF 13.6 2区 生物学
Trends in Genetics Pub Date : 2024-11-27 DOI: 10.1016/j.tig.2024.11.003
Craig P Hunter
{"title":"Amyloids transmit acquired epigenetic feminizing information between generations.","authors":"Craig P Hunter","doi":"10.1016/j.tig.2024.11.003","DOIUrl":"https://doi.org/10.1016/j.tig.2024.11.003","url":null,"abstract":"<p><p>In a recent article in Nature Cell Biology, Eroglu et al. link heritable, environment-induced epigenetic germline feminization to the accumulation, transmission, and replication of amyloid particles in Caenorhabditis elegans.</p>","PeriodicalId":54413,"journal":{"name":"Trends in Genetics","volume":" ","pages":""},"PeriodicalIF":13.6,"publicationDate":"2024-11-27","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142752252","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}
引用次数: 0
Imprinting of the paternal marsupial X chromosome by DNA methylation.
IF 13.6 2区 生物学
Trends in Genetics Pub Date : 2024-11-27 DOI: 10.1016/j.tig.2024.10.011
Jennifer A M Graves
{"title":"Imprinting of the paternal marsupial X chromosome by DNA methylation.","authors":"Jennifer A M Graves","doi":"10.1016/j.tig.2024.10.011","DOIUrl":"https://doi.org/10.1016/j.tig.2024.10.011","url":null,"abstract":"<p><p>Why is it that the X chromosome that comes from the male parent is inactivated in female marsupials, female mice, and even female mealy bugs, or the whole paternal chromosome complement in some weird flies? A new paper by Milton et al. now reveals DNA methylation patterns established in the male germline before meiosis in wallabies that may constitute the elusive paternal imprint.</p>","PeriodicalId":54413,"journal":{"name":"Trends in Genetics","volume":" ","pages":""},"PeriodicalIF":13.6,"publicationDate":"2024-11-27","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142752254","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}
引用次数: 0
Cis to trans: small ORF functions emerging through evolution. 从顺式到反式：进化过程中出现的小型 ORF 功能。
IF 13.6 2区 生物学
Trends in Genetics Pub Date : 2024-11-26 DOI: 10.1016/j.tig.2024.10.012
Casimiro Baena-Angulo, Ana Isabel Platero, Juan Pablo Couso
{"title":"Cis to trans: small ORF functions emerging through evolution.","authors":"Casimiro Baena-Angulo, Ana Isabel Platero, Juan Pablo Couso","doi":"10.1016/j.tig.2024.10.012","DOIUrl":"https://doi.org/10.1016/j.tig.2024.10.012","url":null,"abstract":"<p><p>Hundreds of thousands of small open reading frames (smORFs) of less than 100 codons exist in every genome, especially in long noncoding RNAs (lncRNAs) and in the 5' leaders of mRNAs. smORFs are often discarded as nonfunctional, but ribosomal profiling (RiboSeq) reveals that thousands are translated, while characterised smORF functions have risen from anecdotal to identifiable trends: smORFs can either have a cis-noncoding regulatory function (involving low translation of nonfunctional peptides) or full coding function mediated by robustly translated peptides, often having cellular and physiological roles as membrane-associated regulators of canonical proteins. The evolutionary context reveals that many smORFs represent new genes emerging de novo from noncoding sequences. We suggest a mechanism for this process, where cis-noncoding smORF functions provide niches for the subsequent evolution of full peptide functions.</p>","PeriodicalId":54413,"journal":{"name":"Trends in Genetics","volume":" ","pages":""},"PeriodicalIF":13.6,"publicationDate":"2024-11-26","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142741061","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}
引用次数: 0
A more elaborate genetic clock for clonal species. 克隆物种的遗传时钟更加精细。
IF 13.6 2区 生物学
Trends in Genetics Pub Date : 2024-11-26 DOI: 10.1016/j.tig.2024.11.002
Jinhee Ryu, Yeonjin Kim, Young Seok Ju
{"title":"A more elaborate genetic clock for clonal species.","authors":"Jinhee Ryu, Yeonjin Kim, Young Seok Ju","doi":"10.1016/j.tig.2024.11.002","DOIUrl":"https://doi.org/10.1016/j.tig.2024.11.002","url":null,"abstract":"<p><p>The genetic clock is a well-established tool used in evolutionary biology for estimating divergence times between species, individuals, or cells based on DNA sequence changes. Yu et al. have revisited the clock to make it applicable to clonal multicellular organisms that expand through asexual reproduction mechanisms, enabling more comprehensive evolutionary tracking.</p>","PeriodicalId":54413,"journal":{"name":"Trends in Genetics","volume":" ","pages":""},"PeriodicalIF":13.6,"publicationDate":"2024-11-26","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142740780","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}
引用次数: 0
Cell-free DNA from clinical testing as a resource of population genetic analysis. 将临床检测中的无细胞 DNA 作为群体遗传分析的资源。
IF 13.6 2区 生物学
Trends in Genetics Pub Date : 2024-11-22 DOI: 10.1016/j.tig.2024.10.007
Huanhuan Zhu, Yu Wang, Linxuan Li, Lin Wang, Haiqiang Zhang, Xin Jin
{"title":"Cell-free DNA from clinical testing as a resource of population genetic analysis.","authors":"Huanhuan Zhu, Yu Wang, Linxuan Li, Lin Wang, Haiqiang Zhang, Xin Jin","doi":"10.1016/j.tig.2024.10.007","DOIUrl":"https://doi.org/10.1016/j.tig.2024.10.007","url":null,"abstract":"<p><p>As a noninvasive biomarker, cell-free DNA (cfDNA) has achieved remarkable success in clinical applications. Notably, cfDNA is essentially DNA, and conducting whole-genome sequencing (WGS) can yield a wealth of genetic information. These invaluable data should not be confined to one-time use; instead, they should be leveraged for more comprehensive population genetic analysis, including genetic variation spectrum, population structure and genetic selection, and genome-wide association studies (GWASs), among others. Such research findings can, in turn, facilitate clinical practice, enabling more advanced and accurate disease predictions. This review explores the advantages, challenges, and current research areas of cfDNA in population genetics. We hope that this review can serve as a new chapter in the repurposing of cfDNA sequence data generated from clinical testing in population genetics.</p>","PeriodicalId":54413,"journal":{"name":"Trends in Genetics","volume":" ","pages":""},"PeriodicalIF":13.6,"publicationDate":"2024-11-22","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142694015","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}
引用次数: 0
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