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The winner of the 2024 FEBS Letters Award—an interview with Rachel Flynn 2024 年 FEBS Letters 奖得主--专访瑞秋-弗林（Rachel Flynn）。
IF 3.5 4区 生物学
FEBS Letters Pub Date : 2024-10-07 DOI: 10.1002/1873-3468.15031
Rachel Litman Flynn, Duncan E. Wright
{"title":"The winner of the 2024 FEBS Letters Award—an interview with Rachel Flynn","authors":"Rachel Litman Flynn,&nbsp;Duncan E. Wright","doi":"10.1002/1873-3468.15031","DOIUrl":"10.1002/1873-3468.15031","url":null,"abstract":"<p>Since 2003, <i>FEBS Letters</i> has awarded an annual prize to the corresponding author of the best research paper published in the journal in the previous calendar year. The award-winning article is selected by a special committee formed by appointed members of the Editorial Board, plus one external member. The winner of the 2024 <i>FEBS Letters</i> Award is Professor Rachel Flynn of Boston University Chobanian &amp; Avedisian School of Medicine, for the outstanding paper “The exoribonuclease XRN2 mediates degradation of the long non-coding telomeric RNA TERRA.” In this interview, Rachel Flynn talks about her award-winning research.</p>","PeriodicalId":12142,"journal":{"name":"FEBS Letters","volume":"598 20","pages":"2467-2469"},"PeriodicalIF":3.5,"publicationDate":"2024-10-07","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1002/1873-3468.15031","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142389192","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Predicting genome-wide tissue-specific enhancers via combinatorial transcription factor genomic occupancy analysis. 通过组合转录因子基因组占位分析预测全基因组组织特异性增强子
IF 3.5 4区 生物学
FEBS Letters Pub Date : 2024-10-04 DOI: 10.1002/1873-3468.15030
Huma Shireen, Fatima Batool, Hizran Khatoon, Nazia Parveen, Noor Us Sehar, Irfan Hussain, Shahid Ali, Amir Ali Abbasi
{"title":"Predicting genome-wide tissue-specific enhancers via combinatorial transcription factor genomic occupancy analysis.","authors":"Huma Shireen, Fatima Batool, Hizran Khatoon, Nazia Parveen, Noor Us Sehar, Irfan Hussain, Shahid Ali, Amir Ali Abbasi","doi":"10.1002/1873-3468.15030","DOIUrl":"https://doi.org/10.1002/1873-3468.15030","url":null,"abstract":"<p><p>Enhancers are non-coding cis-regulatory elements crucial for transcriptional regulation. Mutations in enhancers can disrupt gene regulation, leading to disease phenotypes. Identifying enhancers and their tissue-specific activity is challenging due to their lack of stereotyped sequences. This study presents a sequence-based computational model that uses combinatorial transcription factor (TF) genomic occupancy to predict tissue-specific enhancers. Trained on diverse datasets, including ENCODE and Vista enhancer browser data, the model predicted 25 000 forebrain-specific cis-regulatory modules (CRMs) in the human genome. Validation using biochemical features, disease-associated SNPs, and in vivo zebrafish analysis confirmed its effectiveness. This model aids in predicting enhancers lacking well-characterized chromatin features, complementing experimental approaches in tissue-specific enhancer discovery.</p>","PeriodicalId":12142,"journal":{"name":"FEBS Letters","volume":" ","pages":""},"PeriodicalIF":3.5,"publicationDate":"2024-10-04","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142375353","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"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
Transforming science communication through storytelling 通过讲故事改变科学传播。
IF 3.5 4区 生物学
FEBS Letters Pub Date : 2024-10-02 DOI: 10.1002/1873-3468.15026
Giorgia Guglielmi, Emil Petersen, Laura Alvarez, Eva Zacharioudaki, Ana Morais, Esther Dorado-Ladera, Mari Kaunisto
{"title":"Transforming science communication through storytelling","authors":"Giorgia Guglielmi,&nbsp;Emil Petersen,&nbsp;Laura Alvarez,&nbsp;Eva Zacharioudaki,&nbsp;Ana Morais,&nbsp;Esther Dorado-Ladera,&nbsp;Mari Kaunisto","doi":"10.1002/1873-3468.15026","DOIUrl":"10.1002/1873-3468.15026","url":null,"abstract":"<p>Science communication is an important skill. It is easier for nonacademic audiences to remember stories that resonate with their imagination rather than facts and figures. To help early-career researchers develop their skills, the EU-LIFE Science Communications Working Group (SCWG) developed a training course based on the experience from previous workshops held at a research institute in Denmark. The stories crafted in the workshops proved impactful, with some integrated into broader campaigns and featured in science magazines. The initiative holds potential for transformative change, helping researchers promote their findings and increasing awareness of emerging research topics among the public. Recently, the initiative has been customized for a summer school aimed at medical doctors pursuing a PhD, marking a step forward in the SCWG's mission to equip researchers with essential communication skills.</p>","PeriodicalId":12142,"journal":{"name":"FEBS Letters","volume":"598 19","pages":"2323-2327"},"PeriodicalIF":3.5,"publicationDate":"2024-10-02","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1002/1873-3468.15026","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142364945","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Non-gonadal expression of piRNAs is widespread across Arthropoda. 在节肢动物中，piRNA 的非生殖腺表达非常普遍。
IF 3.5 4区 生物学
FEBS Letters Pub Date : 2024-10-02 DOI: 10.1002/1873-3468.15023
Takahisa Yamashita, Krystian Komenda, Rafał Miłodrowski, Dominik Robak, Szymon Szrajer, Tomasz Gaczorek, Guillem Ylla
{"title":"Non-gonadal expression of piRNAs is widespread across Arthropoda.","authors":"Takahisa Yamashita, Krystian Komenda, Rafał Miłodrowski, Dominik Robak, Szymon Szrajer, Tomasz Gaczorek, Guillem Ylla","doi":"10.1002/1873-3468.15023","DOIUrl":"https://doi.org/10.1002/1873-3468.15023","url":null,"abstract":"<p><p>PIWI-interacting RNAs (piRNAs) were discovered in the early 2000s and became known for their role in protecting the germline genome against mobile genetic elements. Successively, piRNAs were also detected in the somatic cells of gonads in multiple animal species. In recent years, piRNAs have been reported in non-gonadal tissues in various arthropods, contrary to the initial assumptions of piRNAs being exclusive to gonads. Here, we performed an extensive literature review, which revealed that reports on non-gonadal somatic piRNA expression are not limited to a few specific species. Instead, when multiple studies are considered collectively, it appears to be a widespread phenomenon across arthropods. Furthermore, we systematically analyzed 168 publicly available small RNA-seq datasets from diverse tissues in 17 species, which further supported the bibliographic reports that piRNAs are expressed across tissues and species in Arthropoda.</p>","PeriodicalId":12142,"journal":{"name":"FEBS Letters","volume":" ","pages":""},"PeriodicalIF":3.5,"publicationDate":"2024-10-02","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142364944","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"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
RETRACTION: Selection for TRAIL Resistance Results in Melanoma Cells with High Proliferative Potential 回溯：选择 TRAIL 抗性会产生具有高增殖潜力的黑色素瘤细胞。
IF 3.5 4区 生物学
FEBS Letters Pub Date : 2024-09-27 DOI: 10.1002/1873-3468.15028
{"title":"RETRACTION: Selection for TRAIL Resistance Results in Melanoma Cells with High Proliferative Potential","authors":"","doi":"10.1002/1873-3468.15028","DOIUrl":"10.1002/1873-3468.15028","url":null,"abstract":"<p><b>RETRACTION</b>: J. J. Wu, X. D. Zhang, S. Gillespie, and P. Hersey, “Selection for TRAIL Resistance Results in Melanoma Cells with High Proliferative Potential,” <i>FEBS Letters</i> 579, no. 9 (2005): 1940–1944, https://doi.org/10.1016/j.febslet.2005.02.041.</p><p>The above article, published online on February 25, 2005, in Wiley Online Library (wileyonlinelibrary.com), has been retracted by agreement between the journal Editor-in-Chief, Michael Brunner; FEBS Press; and John Wiley and Sons Ltd. The retraction has been agreed upon following an investigation into concerns raised by a third party, which revealed inappropriate duplications of image sections within the article (Fig. 2A, 3A-C, 4A-B) depicting different experimental conditions. The authors were unable to provide a satisfactory explanation and due to the elapsed time the raw data was not available. Given the extent of the identified issues, the editors have lost confidence in the data presented and the article's conclusions can no longer be considered reliable.</p>","PeriodicalId":12142,"journal":{"name":"FEBS Letters","volume":"598 20","pages":"2615"},"PeriodicalIF":3.5,"publicationDate":"2024-09-27","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1002/1873-3468.15028","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142344323","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Traffic light at DSB-transit regulation between gene transcription and DNA repair. DSB上的红绿灯--基因转录和DNA修复之间的过渡调控。
IF 3.5 4区 生物学
FEBS Letters Pub Date : 2024-09-27 DOI: 10.1002/1873-3468.15024
Stefania Modafferi, Francesca Esposito, Sara Tavella, Ubaldo Gioia, Sofia Francia
{"title":"Traffic light at DSB-transit regulation between gene transcription and DNA repair.","authors":"Stefania Modafferi, Francesca Esposito, Sara Tavella, Ubaldo Gioia, Sofia Francia","doi":"10.1002/1873-3468.15024","DOIUrl":"https://doi.org/10.1002/1873-3468.15024","url":null,"abstract":"<p><p>Transcription of actively expressed genes is dampened for kilobases around DNA lesions via chromatin modifications. This is believed to favour repair and prevent genome instability. Nonetheless, mounting evidence suggests that transcription may be induced by DNA breakage, resulting in the local de novo synthesis of non-coding RNAs (ncRNAs). Such transcripts have been proposed to play important functions in both DNA damage signalling and repair. Here, we review the recently identified mechanistic details of transcriptional silencing at damaged chromatin, highlighting how post-translational histone modifications can also be modulated by the local synthesis of DNA damage-induced ncRNAs. Finally, we envision that these entangled transcriptional events at DNA breakages can be targeted to modulate DNA repair, with potential implications for locus-specific therapeutic strategies.</p>","PeriodicalId":12142,"journal":{"name":"FEBS Letters","volume":" ","pages":""},"PeriodicalIF":3.5,"publicationDate":"2024-09-27","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142344324","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"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
Engineered CRISPR RNA improves the RNA cleavage efficiency of hfCas13X 设计的 CRISPR RNA 提高了 hfCas13X 的 RNA 切割效率。
IF 3.5 4区 生物学
FEBS Letters Pub Date : 2024-09-26 DOI: 10.1002/1873-3468.15025
Zehui Liu, Wenxia Zhang, Haili Wang, Pingping Shangguan, Tong Pan, Yimu Yang, Yi Zhang, Xi Mao, Yingle Liu, Qi Zhang
{"title":"Engineered CRISPR RNA improves the RNA cleavage efficiency of hfCas13X","authors":"Zehui Liu,&nbsp;Wenxia Zhang,&nbsp;Haili Wang,&nbsp;Pingping Shangguan,&nbsp;Tong Pan,&nbsp;Yimu Yang,&nbsp;Yi Zhang,&nbsp;Xi Mao,&nbsp;Yingle Liu,&nbsp;Qi Zhang","doi":"10.1002/1873-3468.15025","DOIUrl":"10.1002/1873-3468.15025","url":null,"abstract":"<p>As the most compact variant in the Cas13 family, CRISPR-Cas13X holds considerable promise for gene therapy applications. The development of high-fidelity Cas13X (hfCas13X) mutants has enhanced the safety profile for <i>in vivo</i> applications. However, a notable reduction in on-target cleavage efficiency accompanies the diminished collateral cleavage activity in hfCas13X. In this study, we obtained two engineered crRNA mutants that notably enhance the on-target cleavage efficiency of hfCas13X. Furthermore, we have identified a novel crRNA structure that consistently augments the on-target cleavage efficiency of hfCas13X across various cellular environments, without significant enhancement of its collateral activity. These findings collectively enrich the gene-editing toolkit, presenting a more effective hfCas13X system for future research and application.</p>","PeriodicalId":12142,"journal":{"name":"FEBS Letters","volume":"598 19","pages":"2438-2449"},"PeriodicalIF":3.5,"publicationDate":"2024-09-26","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1002/1873-3468.15025","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142344321","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Molecular and mechanical mechanisms of animal cell abscission. 动物细胞脱落的分子和机械机制。
IF 3.5 4区 生物学
FEBS Letters Pub Date : 2024-09-26 DOI: 10.1002/1873-3468.15015
Amber Öztop, Agathe Chaigne
{"title":"Molecular and mechanical mechanisms of animal cell abscission.","authors":"Amber Öztop, Agathe Chaigne","doi":"10.1002/1873-3468.15015","DOIUrl":"10.1002/1873-3468.15015","url":null,"abstract":"","PeriodicalId":12142,"journal":{"name":"FEBS Letters","volume":" ","pages":""},"PeriodicalIF":3.5,"publicationDate":"2024-09-26","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142344322","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"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 splicing factor hnRNPL demonstrates conserved myocardial regulation across species and is altered in heart failure 剪接因子 hnRNPL 在不同物种中对心肌的调控是一致的，并在心力衰竭中发生改变。
IF 3.5 4区 生物学
FEBS Letters Pub Date : 2024-09-19 DOI: 10.1002/1873-3468.15020
Isabelle Draper, Wanting Huang, Suchita Pande, Aaron Zou, Timothy D. Calamaras, Richard H. Choe, Ana Correia-Branco, Ariel L. Mei, Howard H. Chen, Hannah R. Littel, Mekala Gunasekaran, Natalya M. Wells, Christine C. Bruels, Audrey L. Daugherty, Matthew J. Wolf, Peter B. Kang, Vicky K. Yang, Donna K. Slonim, Mary C. Wallingford, Robert M. Blanton
{"title":"The splicing factor hnRNPL demonstrates conserved myocardial regulation across species and is altered in heart failure","authors":"Isabelle Draper,&nbsp;Wanting Huang,&nbsp;Suchita Pande,&nbsp;Aaron Zou,&nbsp;Timothy D. Calamaras,&nbsp;Richard H. Choe,&nbsp;Ana Correia-Branco,&nbsp;Ariel L. Mei,&nbsp;Howard H. Chen,&nbsp;Hannah R. Littel,&nbsp;Mekala Gunasekaran,&nbsp;Natalya M. Wells,&nbsp;Christine C. Bruels,&nbsp;Audrey L. Daugherty,&nbsp;Matthew J. Wolf,&nbsp;Peter B. Kang,&nbsp;Vicky K. Yang,&nbsp;Donna K. Slonim,&nbsp;Mary C. Wallingford,&nbsp;Robert M. Blanton","doi":"10.1002/1873-3468.15020","DOIUrl":"10.1002/1873-3468.15020","url":null,"abstract":"<p>Heart failure (HF) is highly prevalent. Mechanisms underlying HF remain incompletely understood. Splicing factors (SF), which control pre-mRNA alternative splicing, regulate cardiac structure and function. This study investigated regulation of the splicing factor heterogeneous nuclear ribonucleoprotein-L (hnRNPL) in the failing heart. hnRNPL protein increased in left ventricular tissue from mice with transaortic constriction-induced HF and from HF patients. In left ventricular tissue, hnRNPL was detected predominantly in nuclei. Knockdown of the hnRNPL homolog Smooth in <i>Drosophila</i> induced cardiomyopathy. Computational analysis of predicted mouse and human hnRNPL binding sites suggested hnRNPL-mediated alternative splicing of tropomyosin, which was confirmed in C2C12 myoblasts. These findings identify hnRNPL as a sensor of cardiac dysfunction and suggest that disturbances of hnRNPL affect alternative splicing in HF.</p>","PeriodicalId":12142,"journal":{"name":"FEBS Letters","volume":"598 21","pages":"2670-2682"},"PeriodicalIF":3.5,"publicationDate":"2024-09-19","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142282617","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"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
EVL is not essential for cuticular plate and stereocilia development in mouse auditory hair cells. EVL对小鼠听毛细胞的角质板和立体纤毛的发育并非必不可少。
IF 3.5 4区 生物学
FEBS Letters Pub Date : 2024-09-19 DOI: 10.1002/1873-3468.15021
Keji Yan, Haoqing Zhang, Chengli Qu, Yixiao Sun, Xiaoyang Sun, Zhigang Xu
{"title":"EVL is not essential for cuticular plate and stereocilia development in mouse auditory hair cells.","authors":"Keji Yan, Haoqing Zhang, Chengli Qu, Yixiao Sun, Xiaoyang Sun, Zhigang Xu","doi":"10.1002/1873-3468.15021","DOIUrl":"https://doi.org/10.1002/1873-3468.15021","url":null,"abstract":"<p><p>In inner ear hair cells, the stereocilia are inserted into a dense F-actin-enriched meshwork named the cuticular plate, which provides support to the stereocilia. Enah/Vasp-like (EVL) was shown to localize at the cuticular plate, and evl knockdown leads to disrupted cuticular plate and disorganized stereocilia in Xenopus hair cells. In the present work, we show that Evl transcripts are specifically expressed in mouse hair cells, and EVL is localized to the cuticular plate. However, the cuticular plate and stereocilia are unaffected by Evl knockout, and auditory function is largely normal in Evl knockout mice. In conclusion, our present data suggest that EVL is not essential for cuticular plate and stereocilia development in mouse auditory hair cells.</p>","PeriodicalId":12142,"journal":{"name":"FEBS Letters","volume":" ","pages":""},"PeriodicalIF":3.5,"publicationDate":"2024-09-19","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142282615","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"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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