发布求助
文献互助 智能选刊 最新文献

Trends in Genetics最新文献

筛选
英文 中文
A bioinformatics toolbox to prioritize causal genetic variants in candidate regions. 生物信息学工具箱，用于确定候选区域因果遗传变异的优先次序。
IF 13.6 2区 生物学
Trends in Genetics Pub Date : 2024-10-15 DOI: 10.1016/j.tig.2024.09.007
Martin Šimon, Maša Čater, Tanja Kunej, Nicholas M Morton, Simon Horvat
{"title":"A bioinformatics toolbox to prioritize causal genetic variants in candidate regions.","authors":"Martin Šimon, Maša Čater, Tanja Kunej, Nicholas M Morton, Simon Horvat","doi":"10.1016/j.tig.2024.09.007","DOIUrl":"https://doi.org/10.1016/j.tig.2024.09.007","url":null,"abstract":"<p><p>This review addresses the significant challenge of identifying causal genetic variants within quantitative trait loci (QTLs) for complex traits and diseases. Despite progress in detecting the ever-larger number of such loci, establishing causality remains daunting. We advocate for integrating bioinformatics and multiomics analyses to streamline the prioritization of candidate genes' variants. Our case study on the Pla2g4e gene, identified previously as a positional candidate obesity gene through genetic mapping and expression studies, demonstrates how applying multiomic data filtered through regulatory elements containing SNPs can refine the search for causative variants. This approach can yield results that guide more efficient experimental strategies, accelerating genetic research toward functional validation and therapeutic development.</p>","PeriodicalId":54413,"journal":{"name":"Trends in Genetics","volume":" ","pages":""},"PeriodicalIF":13.6,"publicationDate":"2024-10-15","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142481006","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
Exploring the world of small proteins in plant biology and bioengineering. 探索植物生物学和生物工程中的小蛋白质世界。
IF 13.6 2区 生物学
Trends in Genetics Pub Date : 2024-10-14 DOI: 10.1016/j.tig.2024.09.004
Louise Petri, Anne Van Humbeeck, Huanying Niu, Casper Ter Waarbeek, Ashleigh Edwards, Maurizio Junior Chiurazzi, Ylenia Vittozzi, Stephan Wenkel
{"title":"Exploring the world of small proteins in plant biology and bioengineering.","authors":"Louise Petri, Anne Van Humbeeck, Huanying Niu, Casper Ter Waarbeek, Ashleigh Edwards, Maurizio Junior Chiurazzi, Ylenia Vittozzi, Stephan Wenkel","doi":"10.1016/j.tig.2024.09.004","DOIUrl":"https://doi.org/10.1016/j.tig.2024.09.004","url":null,"abstract":"<p><p>Small proteins are ubiquitous in all kingdoms of life. MicroProteins, initially characterized as small proteins with protein interaction domains that enable them to interact with larger multidomain proteins, frequently modulate the function of these proteins. The study of these small proteins has contributed to a greater comprehension of protein regulation. In addition to sequence homology, sequence-divergent small proteins have the potential to function as microProtein mimics, binding to structurally related proteins. Moreover, a multitude of other small proteins encoded by short open reading frames (sORFs) and peptides, derived from diverse sources such as long noncoding RNAs (lncRNAs) and miRNAs, contribute to a variety of biological processes. The potential of small proteins is evident, offering promising avenues for bioengineering that could revolutionize crop performance and reduce reliance on agrochemicals in future agriculture.</p>","PeriodicalId":54413,"journal":{"name":"Trends in Genetics","volume":" ","pages":""},"PeriodicalIF":13.6,"publicationDate":"2024-10-14","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142481007","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
The cryptic immunopeptidome in health and disease. 健康和疾病中的隐性免疫肽组。
IF 13.6 2区 生物学
Trends in Genetics Pub Date : 2024-10-09 DOI: 10.1016/j.tig.2024.09.003
Eralda Kina, Jean-David Larouche, Pierre Thibault, Claude Perreault
{"title":"The cryptic immunopeptidome in health and disease.","authors":"Eralda Kina, Jean-David Larouche, Pierre Thibault, Claude Perreault","doi":"10.1016/j.tig.2024.09.003","DOIUrl":"https://doi.org/10.1016/j.tig.2024.09.003","url":null,"abstract":"<p><p>Peptides presented by MHC proteins regulate all aspects of T cell biology. These MHC-associated peptides (MAPs) form what is known as the immunopeptidome and their comprehensive analysis has catalyzed the burgeoning field of immunopeptidomics. Advances in mass spectrometry (MS) and next-generation sequencing have facilitated significant breakthroughs in this area, some of which are highlighted in this article on the cryptic immunopeptidome. Here, 'cryptic' refers to peptides and proteins encoded by noncanonical open reading frames (ORFs). Cryptic MAPs derive mainly from short unstable proteins found in normal, infected, and neoplastic cells. Cryptic MAPs show minimal overlap with cryptic proteins found in whole-cell extracts. In many cancer types, most cancer-specific MAPs are cryptic.</p>","PeriodicalId":54413,"journal":{"name":"Trends in Genetics","volume":" ","pages":""},"PeriodicalIF":13.6,"publicationDate":"2024-10-09","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142401991","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
Microproteins in cancer: identification, biological functions, and clinical implications. 癌症中的微蛋白：识别、生物功能和临床意义。
IF 13.6 2区 生物学
Trends in Genetics Pub Date : 2024-10-07 DOI: 10.1016/j.tig.2024.09.002
Damon A Hofman, John R Prensner, Sebastiaan van Heesch
{"title":"Microproteins in cancer: identification, biological functions, and clinical implications.","authors":"Damon A Hofman, John R Prensner, Sebastiaan van Heesch","doi":"10.1016/j.tig.2024.09.002","DOIUrl":"https://doi.org/10.1016/j.tig.2024.09.002","url":null,"abstract":"<p><p>Cancer continues to be a major global health challenge, accounting for 10 million deaths annually worldwide. Since the inception of genome-wide cancer sequencing studies 20 years ago, a core set of ~700 oncogenes and tumor suppressor genes has become the basis for cancer research. However, this research has been based largely on an understanding that the human genome encodes ~19 500 protein-coding genes. Complementing this genomic landscape, recent advances have described numerous microproteins which are now poised to redefine our understanding of oncogenic processes and open new avenues for therapeutic intervention. This review explores the emerging evidence for microprotein involvement in cancer mechanisms and discusses potential therapeutic applications, with an emphasis on highlighting recent advances in the field.</p>","PeriodicalId":54413,"journal":{"name":"Trends in Genetics","volume":" ","pages":""},"PeriodicalIF":13.6,"publicationDate":"2024-10-07","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142395250","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 molecular mechanism for environmental sex determination. 环境性别决定的分子机制
IF 13.6 2区 生物学
Trends in Genetics Pub Date : 2024-10-01 Epub Date: 2024-07-29 DOI: 10.1016/j.tig.2024.07.005
Xiaojing Li, John K Colbourne
{"title":"A molecular mechanism for environmental sex determination.","authors":"Xiaojing Li, John K Colbourne","doi":"10.1016/j.tig.2024.07.005","DOIUrl":"10.1016/j.tig.2024.07.005","url":null,"abstract":"<p><p>Daphnia produce genetically identical males and females; their sex is determined by environmental conditions. Recently, Kato et al. identified isoform switching events in Daphnia as a gene regulatory mechanism for sex-specific development. This finding uncovers the impact of alternative usage of gene isoforms on this extreme phenotypic plasticity trait.</p>","PeriodicalId":54413,"journal":{"name":"Trends in Genetics","volume":" ","pages":"817-818"},"PeriodicalIF":13.6,"publicationDate":"2024-10-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141857158","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
New insights into oocyte cytoplasmic lattice-associated proteins. 对卵母细胞胞质晶格相关蛋白的新认识。
IF 13.6 2区 生物学
Trends in Genetics Pub Date : 2024-10-01 Epub Date: 2024-07-01 DOI: 10.1016/j.tig.2024.06.002
Carlo Giaccari, Francesco Cecere, Lucia Argenziano, Angela Pagano, Andrea Riccio
{"title":"New insights into oocyte cytoplasmic lattice-associated proteins.","authors":"Carlo Giaccari, Francesco Cecere, Lucia Argenziano, Angela Pagano, Andrea Riccio","doi":"10.1016/j.tig.2024.06.002","DOIUrl":"10.1016/j.tig.2024.06.002","url":null,"abstract":"<p><p>Oocyte maturation and preimplantation embryo development are critical to successful pregnancy outcomes and the correct establishment and maintenance of genomic imprinting. Thanks to novel technologies and omics studies in human patients and mouse models, the importance of the proteins associated with the cytoplasmic lattices (CPLs), highly abundant structures found in the cytoplasm of mammalian oocytes and preimplantation embryos, in the maternal to zygotic transition is becoming increasingly evident. This review highlights the recent discoveries on the role of these proteins in protein storage and other oocyte cytoplasmic processes, epigenetic reprogramming, and zygotic genome activation (ZGA). A better comprehension of these events may significantly improve clinical diagnosis and pave the way for targeted interventions aiming to correct or mitigate female fertility issues and genomic imprinting disorders.</p>","PeriodicalId":54413,"journal":{"name":"Trends in Genetics","volume":" ","pages":"880-890"},"PeriodicalIF":13.6,"publicationDate":"2024-10-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141494289","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
Artificial intelligence in plant breeding. 人工智能在植物育种中的应用。
IF 13.6 2区 生物学
Trends in Genetics Pub Date : 2024-10-01 Epub Date: 2024-08-07 DOI: 10.1016/j.tig.2024.07.001
Muhammad Amjad Farooq, Shang Gao, Muhammad Adeel Hassan, Zhangping Huang, Awais Rasheed, Sarah Hearne, Boddupalli Prasanna, Xinhai Li, Huihui Li
{"title":"Artificial intelligence in plant breeding.","authors":"Muhammad Amjad Farooq, Shang Gao, Muhammad Adeel Hassan, Zhangping Huang, Awais Rasheed, Sarah Hearne, Boddupalli Prasanna, Xinhai Li, Huihui Li","doi":"10.1016/j.tig.2024.07.001","DOIUrl":"10.1016/j.tig.2024.07.001","url":null,"abstract":"<p><p>Harnessing cutting-edge technologies to enhance crop productivity is a pivotal goal in modern plant breeding. Artificial intelligence (AI) is renowned for its prowess in big data analysis and pattern recognition, and is revolutionizing numerous scientific domains including plant breeding. We explore the wider potential of AI tools in various facets of breeding, including data collection, unlocking genetic diversity within genebanks, and bridging the genotype-phenotype gap to facilitate crop breeding. This will enable the development of crop cultivars tailored to the projected future environments. Moreover, AI tools also hold promise for refining crop traits by improving the precision of gene-editing systems and predicting the potential effects of gene variants on plant phenotypes. Leveraging AI-enabled precision breeding can augment the efficiency of breeding programs and holds promise for optimizing cropping systems at the grassroots level. This entails identifying optimal inter-cropping and crop-rotation models to enhance agricultural sustainability and productivity in the field.</p>","PeriodicalId":54413,"journal":{"name":"Trends in Genetics","volume":" ","pages":"891-908"},"PeriodicalIF":13.6,"publicationDate":"2024-10-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141908320","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
i-Motif DNA: identification, formation, and cellular functions. i-Motif DNA：识别、形成和细胞功能。
IF 13.6 2区 生物学
Trends in Genetics Pub Date : 2024-10-01 Epub Date: 2024-06-19 DOI: 10.1016/j.tig.2024.05.011
Shentong Tao, Yonghang Run, David Monchaud, Wenli Zhang
{"title":"i-Motif DNA: identification, formation, and cellular functions.","authors":"Shentong Tao, Yonghang Run, David Monchaud, Wenli Zhang","doi":"10.1016/j.tig.2024.05.011","DOIUrl":"10.1016/j.tig.2024.05.011","url":null,"abstract":"<p><p>An i-motif (iM) is a four-stranded (quadruplex) DNA structure that folds from cytosine (C)-rich sequences. iMs can fold under many different conditions in vitro, which paves the way for their formation in living cells. iMs are thought to play key roles in various DNA transactions, notably in the regulation of genome stability, gene transcription, mRNA translation, DNA replication, telomere and centromere functions, and human diseases. We summarize the different techniques used to assess the folding of iMs in vitro and provide an overview of the internal and external factors that affect their formation and stability in vivo. We describe the possible biological relevance of iMs and propose directions towards their use as target in biology.</p>","PeriodicalId":54413,"journal":{"name":"Trends in Genetics","volume":" ","pages":"853-867"},"PeriodicalIF":13.6,"publicationDate":"2024-10-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141433317","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
Unveiling contact-mediated cellular crosstalk. 揭示接触介导的细胞串扰
IF 13.6 2区 生物学
Trends in Genetics Pub Date : 2024-10-01 Epub Date: 2024-06-21 DOI: 10.1016/j.tig.2024.05.010
Hyobin Kim, Kwang-Eun Kim, Esha Madan, Patrick Martin, Rajan Gogna, Hyun-Woo Rhee, Kyoung-Jae Won
{"title":"Unveiling contact-mediated cellular crosstalk.","authors":"Hyobin Kim, Kwang-Eun Kim, Esha Madan, Patrick Martin, Rajan Gogna, Hyun-Woo Rhee, Kyoung-Jae Won","doi":"10.1016/j.tig.2024.05.010","DOIUrl":"10.1016/j.tig.2024.05.010","url":null,"abstract":"<p><p>Cell-cell interactions orchestrate complex functions in multicellular organisms, forming a regulatory network for diverse biological processes. Their disruption leads to disease states. Recent advancements - including single-cell sequencing and spatial transcriptomics, coupled with powerful bioengineering and molecular tools - have revolutionized our understanding of how cells respond to each other. Notably, spatial transcriptomics allows us to analyze gene expression changes based on cell proximity, offering a unique window into the impact of cell-cell contact. Additionally, computational approaches are being developed to decipher how cell contact governs the symphony of cellular responses. This review explores these cutting-edge approaches, providing valuable insights into deciphering the intricate cellular changes influenced by cell-cell communication.</p>","PeriodicalId":54413,"journal":{"name":"Trends in Genetics","volume":" ","pages":"868-879"},"PeriodicalIF":13.6,"publicationDate":"2024-10-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141437790","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
On the evolutionary developmental biology of the cell. 细胞进化发育生物学。
IF 13.6 2区 生物学
Trends in Genetics Pub Date : 2024-10-01 Epub Date: 2024-07-05 DOI: 10.1016/j.tig.2024.06.003
Leslie S Babonis
{"title":"On the evolutionary developmental biology of the cell.","authors":"Leslie S Babonis","doi":"10.1016/j.tig.2024.06.003","DOIUrl":"10.1016/j.tig.2024.06.003","url":null,"abstract":"<p><p>Organisms are complex assemblages of cells, cells that produce light, shoot harpoons, and secrete glue. Therefore, identifying the mechanisms that generate novelty at the level of the individual cell is essential for understanding how multicellular life evolves. For decades, the field of evolutionary developmental biology (Evo-Devo) has been developing a framework for connecting genetic variation that arises during embryonic development to the emergence of diverse adult forms. With increasing access to new single cell 'omics technologies and an array of techniques for manipulating gene expression, we can now extend these inquiries inward to the level of the individual cell. In this opinion, I argue that applying an Evo-Devo framework to single cells makes it possible to explore the natural history of cells, where this was once only possible at the organismal level.</p>","PeriodicalId":54413,"journal":{"name":"Trends in Genetics","volume":" ","pages":"822-833"},"PeriodicalIF":13.6,"publicationDate":"2024-10-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141545553","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
首页 上一页 下一页 尾页
0
×
引用
GB/T 7714-2015
复制
MLA
复制
APA
复制
导出至
BibTeX EndNote RefMan NoteFirst NoteExpress
×
提示
您的信息不完整，为了账户安全，请先补充。
现在去补充
×
提示
您因"违规操作"
具体请查看互助需知
我知道了
×
提示
现在去查看 取消
×
提示
确定
请完成安全验证×
相关产品
×
本文献相关产品
联系我们：info@booksci.cn Book学术提供免费学术资源搜索服务，方便国内外学者检索中英文文献。致力于提供最便捷和优质的服务体验。 Copyright © 2023 布克学术 All rights reserved.
京ICP备2023020795号-1
ghs 京公网安备 11010802042870号
Book学术文献互助
Book学术文献互助群
群 号：481959085
Book学术官方微信