Article
Biochemistry & Molecular Biology
K. Shanmugha Rajan, Katerina Adler, Hava Madmoni, Dana Peleg-Chen, Smadar Cohen-Chalamish, Tirza Doniger, Beathrice Galili, Doron Gerber, Ron Unger, Christian Tschudi, Shulamit Michaeli
Summary: The parasite Trypanosoma brucei was found to contain around 273 pseudouridines (Psi) on mRNA, including developmentally regulated Psi guided by pseudouridine synthases. The Psi modification was shown to affect mRNA stability by inhibiting protein binding to their target, adding an additional level of regulation to post-transcriptional control in these parasites.
MOLECULAR MICROBIOLOGY
(2021)
Article
Biochemistry & Molecular Biology
Gargi Ghosh, Satyabrata Samui, Santanu Das, Vandana Singh, Doel Pal, Subhanwita Das, Jishu Naskar, Soumya Sinha Roy, Utpal Basu
Summary: This study identified PCBP2 as a suppressor for the expression of utrophin-A mRNA, demonstrating its role in nuclear retention of both utrophin-A and follistatin mRNA, suggesting that targeting PCBP2 may be a way to de-repress utrophin-A expression in Duchenne Muscular Dystrophy.
Article
Biochemistry & Molecular Biology
Karolina Majewska, Patrycja Wroblewska-Ankiewicz, Magda Rudzka, Malwina Hyjek-Skladanowska, Marcin Golebiewski, Dariusz Jan Smolinski, Agnieszka Kolowerzo-Lubnau
Summary: Recent studies have highlighted the crucial role of post-transcriptional processes in gene expression regulation, particularly the retention of mRNA in the nucleus. Analysis of larch microsporocytes revealed two main patterns of nuclear accumulation and transport of transcripts, indicating an evolutionarily conserved mechanism of gene regulation across various cell types.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2021)
Article
Biochemistry & Molecular Biology
Dasol Han, Andrew P. Longhini, Xuemei Zhang, Vivian Hoang, Maxwell Z. Wilson, Kenneth S. Kosik
Summary: m(6)A methylation, as a reversible chemical modification on mRNA, plays a crucial role in gene regulation. This study reveals that the recruitment of the mRNA m(6)A methyltransferase writer complex to nuclear speckles is important for its regulation, and its phase state is determined by the binding of the small molecule cofactor SAM.
Article
Multidisciplinary Sciences
Hideharu Hashimoto, Daniel H. Ramirez, Ophelie Lautier, Natalie Pawlak, Gunter Blobel, Benoit Palancade, Erik W. Debler
Summary: The study reports the retention of unspliced pre-mRNA by ScPml39 protein in Saccharomyces cerevisiae prior to export through nuclear pore complexes. The crystal structure of ScPml39 was determined, revealing its structural orthologs and providing insights into its function and mechanism.
SCIENTIFIC REPORTS
(2022)
Article
Physics, Multidisciplinary
S. Moeller, A. Kreter, N. Helfer, N. Aghdassi, R. Rayaprolu, M. Rasinski, T. Dittmar, M. Flebbe, Ch Linsmeier
Summary: New results on the irradiation of Eurofer97, Beryllium, and W-5%Re sintered alloy at temperatures below 400K show differences in deuterium retention among different materials. Deuterium retention in W-5Re increased by a factor of 10.3, while in Eurofer97 it remained independent of displacement damage.
Review
Cell Biology
Pierre Bensidoun, Daniel Zenklusen, Marlene Oeffinger
Summary: The nuclear pore complex (NPC) is the central gate for mRNA transportation from the nucleus to the cytoplasm. The export competence of mRNAs is linked to upstream nuclear processes, and recent evidence suggests that the NPC may be more heterogeneous than previously believed, providing functional plasticity to mRNA export. Interconnected processes of nuclear mRNA metabolism and NPC heterogeneity play crucial roles in regulating export competence.
WILEY INTERDISCIPLINARY REVIEWS-RNA
(2021)
Article
Public, Environmental & Occupational Health
Yingzheng Zhao, Guangcui Xu, Haibin Li, Meiyu Chang, Cheng Xiong, Yingjun Tao, Yi Guan, Yuchun Li, Sanqiao Yao
Summary: The study found that the lymphocyte oxidative stress state in silicosis patients is related to the NRF2 signaling pathway. These results suggest that NRF2 may play a role in the prevention and treatment of silicosis.
JOURNAL OF OCCUPATIONAL MEDICINE AND TOXICOLOGY
(2021)
Article
Developmental Biology
Jason Burgess, Jeffrey T. Burrows, Roshan Sadhak, Sharon Chiang, Alex Weiss, Cassandra D'Amata, Alyssa M. Molinaro, Shujun Zhu, Michael Long, Chun Hu, Henry M. Krause, Bret J. Pearson
DEVELOPMENTAL BIOLOGY
(2020)
Article
Environmental Sciences
Jiajun Han, Wen Gu, Holly Barrett, Diwen Yang, Song Tang, Jianxian Sun, Jiabao Liu, Henry M. Krause, Keith A. Houck, Hui Peng
Summary: The study identified five structural categories of PFAS prone to metabolism, with hydrolysis identified as a major metabolism pathway for diverse PFAS highly related to their structures.
ENVIRONMENTAL HEALTH PERSPECTIVES
(2021)
Article
Genetics & Heredity
Evan Witt, Zhantao Shao, Chun Hu, Henry M. Krause, Li Zhao
Summary: This study explored dosage compensation in Drosophila testis at the single-cell level, revealing that certain germ cell types exhibit X chromosome expression similar to autosomes, indicating dosage compensation activity. Genes near chromatin entry sites showed higher expression in cell types with dosage compensation, providing additional evidence of this process. Lack of expression of most dosage compensation complex genes suggests a potential noncanonical mechanism mediating observed pre-meiotic dosage compensation. These findings offer new insights into the understanding of sex chromosomes.
Article
Chemistry, Medicinal
Cigdem Sahin, Lilia Magomedova, Thais A. M. Ferreira, Jiabao Liu, Jens Tiefenbach, Priscilla S. Alves, Fellipe J. G. Queiroz, Andressa S. de Oliveira, Mousumi Bhattacharyya, Julie Grouleff, Patricia C. N. Nogueira, Edilberto R. Silveira, Daniel C. Moreira, Jose Roberto Souza de Almeida Leite, Guilherme D. Brand, David Uehling, Gennady Poda, Henry Krause, Carolyn L. Cummins, Luiz A. S. Romeiro
Summary: Metabolic diseases are increasing at alarming rates globally. This study explored the potential use of phenolic lipid derivatives from cashew nut shell liquid as drugs for the treatment of diabetes and obesity. The compounds showed PPAR activity and tissue-specific effects, making them promising candidates for further development.
JOURNAL OF MEDICINAL CHEMISTRY
(2022)
Article
Multidisciplinary Sciences
Mateus C. Adolfi, Kang Du, Susanne Kneitz, Cedric Cabau, Margot Zahm, Christophe Klopp, Romain Feron, Romulo Paixao, Eduardo S. Varela, Fernanda L. de Almeida, Marcos A. de Oliveira, Rafael H. Nobrega, Celine Lopez-Roques, Carole Iampietro, Jerome Lluch, Werner Kloas, Sven Wuertz, Fabian Schaefer, Matthias Stoeck, Yann Guiguen, Manfred Schartl
Summary: The study improved the genome assembly of arapaima and identified a potential male sex-determining gene, id2bbY, which provides important insights into the sex determination mechanism of this species. The research contributes to understanding the evolution of sex determination genetic networks and offers a new tool for the development of arapaima aquaculture for commercial and conservation purposes.
SCIENTIFIC REPORTS
(2021)
Article
Biochemistry & Molecular Biology
Ming Wen, Qiaowei Pan, Elodie Jouanno, Jerome Montfort, Margot Zahm, Cedric Cabau, Christophe Klopp, Carole Iampietro, Celine Roques, Olivier Bouchez, Adrien Castinel, Cecile Donnadieu, Hugues Parrinello, Charles Poncet, Elodie Belmonte, Veronique Gautier, Jean-Christophe Avarre, Remi Dugue, Rudhy Gustiano, Tran Thi Thuy Ha, Marc Campet, Kednapat Sriphairoj, Josiane Ribolli, Fernanda L. de Almeida, Thomas Desvignes, John H. Postlethwait, Christabel Floi Bucao, Marc Robinson-Rechavi, Julien Bobe, Amaury Herpin, Yann Guiguen
Summary: This study generated novel genomic resources for 12 Pangasiids, characterized their sex determination system, and identified a conserved master sex-determining gene. The findings contribute to a better understanding of the dynamics of sex determination systems.
MOLECULAR ECOLOGY RESOURCES
(2022)
Article
Biochemistry & Molecular Biology
Andrew J. Jasonowicz, Anna Simeon, Margot Zahm, Cedric Cabau, Christophe Klopp, Celine Roques, Carole Iampietro, Jerome Lluch, Cecile Donnadieu, Hugues Parrinello, Daniel P. Drinan, Lorenz Hauser, Yann Guiguen, Josep Planas
Summary: This study reports the first generation of a high-quality chromosome-level assembly of the Pacific halibut genome, providing an essential resource for future studies on population structure, evolutionary history, and responses to environmental and anthropogenic influences in Pacific halibut.
MOLECULAR ECOLOGY RESOURCES
(2022)
Article
Biochemistry & Molecular Biology
Jiabao Liu, Cigdem Sahin, Samar Ahmad, Lilia Magomedova, Minhao Zhang, Zhengping Jia, Adam H. Metherel, Arturo Orellana, Gennady Poda, Richard P. Bazinet, Liliana Attisano, Carolyn L. Cummins, Hui Peng, Henry M. Krause
Summary: The nuclear receptor PPAR-α is an important target in the brain for the treatment of cognitive disorders. Researchers have identified an endogenous ligand, 7(S)-HDHA, that activates PPAR-α and promotes neuronal growth and synaptic plasticity.
Article
Multidisciplinary Sciences
Diwen Yang, Qifan Liu, Sizhi Wang, Matin Bozorg, Jiabao Liu, Pranav Nair, Patrick Balaguer, Datong Song, Henry Krause, Boualem Ouazia, Jonathan P. D. Abbatt, Hui Peng
Summary: With the use of protein affinity purification and mass spectrometry analysis, a previously unrecognized class of indoor transformation products formed through gas-surface reactions with nitrous acid (HONO) was identified. The study discovered nitrated bisphenol A (BPA) in house dust extracts, which showed strong binding to estrogen-related receptor y. The researchers also demonstrated a selective heterogeneous indoor chemical transformation that likely occurs between gaseous HONO and surface-bound BPA. In addition, 110 nitration products with distinct aromatic moieties were found from indoor contaminants. This study highlights the importance of incorporating indoor HONO reactions in the risk evaluation of indoor contaminants, particularly bisphenols.
Article
Biochemistry & Molecular Biology
Oscar E. E. Vasquez, Aaron M. M. Allen, Anthony K. -C. So, Quynh H. H. Nguyen, Henry M. M. Krause, Joel D. D. Levine, Marla B. B. Sokolowski
Summary: The foraging gene in Drosophila melanogaster encodes a cGMP-dependent protein kinase (PKG), which plays a crucial role in the regulation of behavior and metabolic traits. Despite its well-known role at the transcript level, little is known about the protein level of the for gene. In this study, we provide a detailed characterization of the for gene protein (FOR) products and introduce new tools for studying them, including isoform-specific antibodies and a transgenic strain. Our results reveal the expression patterns of multiple FOR isoforms and their differences in different developmental stages, larval organs, and allelic variants, providing a foundation for further exploring their functional significance.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Article
Multidisciplinary Sciences
Andrew R. Burns, Rachel J. Baker, Megan Kitner, Jessica Knox, Brittany Cooke, Jonathan R. Volpatti, Aditya S. Vaidya, Emily Puumala, Bruna M. Palmeira, Elizabeth M. Redman, Jamie Snider, Sagar Marwah, Sai W. Chung, Margaret H. MacDonald, Jens Tiefenbach, Chun Hu, Qi Xiao, Constance A. M. Finney, Henry M. Krause, Sonya A. MacParland, Igor Stagljar, John S. Gilleard, Leah E. Cowen, Susan L. F. Meyer, Sean R. Cutler, James J. Dowling, Mark Lautens, Inga Zasada, Peter J. Roy
Summary: Parasitic nematodes pose a major threat to global food security, especially as the world population is set to reach 10 billion. Traditional nematicides have been banned due to their poor selectivity, leaving farmers with limited means of pest control. This study identifies a family of selective imidazothiazole nematicides, called selectivins, which undergo cytochrome P450-mediated bioactivation in nematodes.
Article
Multidisciplinary Sciences
Elise Parey, Alexandra Louis, Jerome Montfort, Olivier Bouchez, Celine Roques, Carole Iampietro, Jerome Lluch, Adrien Castinel, Cecile Donnadieu, Thomas Desvignes, Christabel Floi Bucao, Elodie Jouanno, Ming Wen, Sahar Mejri, Ron Dirks, Hans Jansen, Christiaan Henkel, Wei-Jen Chen, Margot Zahm, Cedric Cabau, Christophe Klopp, Andrew Thompson, Marc Robinson-Rechavi, Ingo Braasch, Guillaume Lecointre, Julien Bobe, John H. Postlethwait, Camille Berthelot, Hugues Roest Crollius, Yann Guiguen
Summary: Through the study of gene sequence and chromosomal rearrangement in teleosts, it was found that Elopomorpha and Osteoglossomorpha are sister groups to all other teleosts, resolving over 50 years of controversy on their evolutionary relationships.
Article
Biology
Amelie A. Raz, Gabriela S. Vida, Sarah R. Stern, Sharvani Mahadevaraju, Jaclyn M. Fingerhut, Jennifer M. Viveiros, Soumitra Pal, Jasmine R. Grey, Mara R. Grace, Cameron W. Berry, Hongjie Li, Jasper Janssens, Wouter Saelens, Zhantao Shao, Chun Hu, Yukiko M. Yamshita, Teresa Przytycka, Brian Oliver, Julie A. Brill, Henry Krause, Erika L. Matunis, Helen White-Cooper, Stephen DiNardo, Margaret T. Fuller, Michael Buszczak
Summary: We provide a comprehensive single nucleus and single cell RNA-seq resource for spermatogenesis in Drosophila, obtained from the analysis of adult testis single nucleus RNA-seq (snRNA-seq) data. This dataset includes over 44,000 nuclei and 6000 cells, allowing for the identification of rare cell types, mapping of intermediate steps in differentiation, and the potential discovery of new factors impacting fertility or controlling differentiation.
Article
Multidisciplinary Sciences
Camille Eche, Carole Iampietro, Clement Birbes, Andreea Dreau, Claire Kuchly, Arnaud Di Franco, Christophe Klopp, Thomas Faraut, Sarah Djebali, Adrien Castinel, Matthias Zytnicki, Erwan Denis, Mekki Boussaha, Cecile Grohs, Didier Boichard, Christine Gaspin, Denis Milan, Cecile Donnadieu
Summary: Inspired by the Genome in a Bottle project, we sequenced a Charolais heifer using various technologies and generated high quality reference genomes. The PacBio HiFi assembly reached a larger size than the ARS-UCD1.2 reference, and the consensus assembly had a high BUSCO score and identified numerous structural variants. This assembly contributes to the bovine pangenome and provides valuable resources for SNP calling, variant analysis, and de novo assembly.
Correction
Microbiology
Robert J. Evans, Katherine Pline, Catherine A. Loynes, Sarah Needs, Maceler Aldrovandi, Jens Tiefenbach, Ewa Bielska, Rachel E. Rubino, Christopher J. Nicol, Robin C. May, Henry M. Krause, Valerie B. O'Donnell, Stephen A. Renshaw, Simon A. Johnston