Article
Plant Sciences
Meng Na Pu, Gang Liang
Summary: Iron (Fe) is important for plants, and the expression of Fe deficiency-responsive genes is modulated by the transcription factor POPEYE (PYE). This study shows that PYE directly represses the transcription of bHLH Ib genes and negatively regulates its own transcription. The nuclear localization of PYE and its interaction with bHLH IVc members are crucial for maintaining Fe homeostasis in Arabidopsis.
JOURNAL OF EXPERIMENTAL BOTANY
(2023)
Article
Gastroenterology & Hepatology
Xiao-Mei Yang, Xiao-Qi Wang, Li-Peng Hu, Ming-Xuan Feng, Yao-Qi Zhou, Dong-Xue Li, Jun Li, Xiao-Cao Miao, Yan-Li Zhang, Hui-Zhen Nie, Shan Huang, Qiang Xia, Xue-Li Zhang, Shu-Heng Jiang, Zhi-Gang Zhang
Summary: This study discovered that HEATR1 is downregulated by insulin-like growth factor 1-mammalian target of rapamycin complex 1-specificity protein 1 signaling, and it plays a crucial regulatory role in ribosome biogenesis and proteome homeostasis to promote HCC development.
Article
Biochemistry & Molecular Biology
Hui Zhen, Mujie Huang, Mingyue Zheng, Lili Gao, Zepeng Guo, Qiuxiang Pang, Guoxiang Jin, Zhongjun Zhou
Summary: In this study, we investigated the expression pattern and functions of the conserved WTAP gene in planarians. Knocking down WTAP resulted in severe morphological defects and lethality within 20 days. Silencing WTAP promoted the proliferation of PiwiA+ cells but impaired the differentiation of various cell types. RNA-seq analysis revealed upregulation of H4, Histone-lysine N-methyltransferase-SETMAR like, and TNF receptor-associated factor 6 (TRAF6) upon WTAP knockdown. Knocking down TRAF6 partially rescued the tissue homeostasis and regeneration defects, suggesting that WTAP maintains planarian regeneration and homeostasis via TRAF6.
INTERNATIONAL JOURNAL OF BIOLOGICAL MACROMOLECULES
(2023)
Review
Plant Sciences
Jing Li, Yongqing Yang
Summary: This review focuses on the mechanisms of ion and pH homeostasis in plant cells under saline-alkali stress, including regulation of ion sensing, uptake, exclusion, sequestration, and redistribution among organs through long-distance transport. Outstanding questions in this field are also discussed.
FRONTIERS IN PLANT SCIENCE
(2023)
Article
Biochemistry & Molecular Biology
Jincai Shi, Boyu Zhao, Shuang Zheng, Xiaowei Zhang, Xiaolin Wang, Wentao Dong, Qiujin Xie, Gang Wang, Yunping Xiao, Fan Chen, Nan Yu, Ertao Wang
Summary: Most land plants acquire phosphorus from soil through direct phosphate uptake pathway via root hairs and epidermis, or through an indirect pathway via mycorrhizal symbiosis. The gene regulatory network between transcription factors and mycorrhizal symbiosis-related genes is controlled by the conserved P-sensing pathway centered on phosphate starvation response (PHR) transcription factors. SPX-domain proteins and OsPHR2 play crucial roles in regulating symbiosis-related genes during mycorrhizal infection.
Article
Plant Sciences
Hyo-Gil Choi, Dong-Young Park, Nam-Jun Kang
Summary: This study investigates the changes in proteome expression of different tomato genotypes at different ripening stages. The results show that the number of protein spots differs among tomato genotypes and ripening stages. Protein spots related to metabolism, energy, protein synthesis, and interaction with the cellular environment show significant changes according to fruit color at different ripening stages.
Article
Cell Biology
Tao Wang, Honghe Liu, Kie Itoh, Sungtaek Oh, Liang Zhao, Daisuke Murata, Hiromi Sesaki, Thomas Hartung, Chan Hyun Na, Jiou Wang
Summary: Haploinsufficiency of C9orf72 is linked to ALS and FTD, with C9orf72 playing a role in regulating cellular energy balance by stabilizing TIMMDC1, a crucial component of OXPHOS complex I in mitochondria.
Article
Microbiology
Corey M. Knowles, David Goich, Amanda L. M. Bloom, Murat C. Kalem, John C. Panepinto
Summary: In response to host-relevant stress, the human pathogen Cryptococcus neoformans must reprogram its translatome, remove pro-growth mRNAs from the translating pool, and allow stress-responsive mRNAs to enter the pool. The removal of pro-growth mRNAs is controlled by Gcn2-mediated translation initiation repression and Ccr4-mediated decay. Translatome reprogramming in response to oxidative stress requires both Gcn2 and Ccr4, while the response to temperature stress only requires Ccr4. The induction of the integrated stress response (ISR) regulon is observed, where translation of the ISR transcription factor Gcn4 is induced, but not necessarily transcription of target genes in response to all stresses.
Article
Multidisciplinary Sciences
Mengyue Chen, Yang Zhang, Shu Zeng, Danyang Li, Mengyue You, Mingyang Zhang, Zhenyu Wang, Li Wei, Yaxi Chen, Xiong Z. Ruan
Summary: The mammalian circadian clock and glucose metabolism are closely related, and disruption of this connection has negative health outcomes. The liver is a major source of endogenous glucose production and has an important peripheral clock system. This study shows that CD36 regulates the liver clock and glucose homeostasis. Knockout of CD36 in hepatocytes inhibits insulin signaling and activates FoxO1, resulting in disrupted clock oscillation and behavioral rhythm.
Article
Biology
Shu Zhang, Chang Wang, Yue Wang, Hao Zhang, Chen Xu, Yiwei Cheng, Yan Yuan, Jiahao Sha, Xuejiang Guo, Yiqiang Cui
Summary: In this study, an endogenous circular RNA (circRsrc1) was discovered, which encodes a novel protein (Rsrc1-161aa). Deletion of Rsrc1-161aa in mice resulted in impaired male fertility, characterized by decreased sperm count and motility due to mitochondrial energy metabolism dysfunctions. In vitro experiments showed that circRsrc1 regulates mitochondrial functions through its encoded protein Rsrc1-161aa. Mechanistically, Rsrc1-161aa interacts with mitochondrial protein C1qbp to enhance its binding activity to mitochondrial mRNAs, thereby regulating mitochondrial ribosome assembly and translation.
Article
Cell Biology
Liraz Shmuel-Galia, Fiachra Humphries, Tim Vierbuchen, Zhaozhao Jiang, Nolan Santos, John Johnson, Boris Shklyar, Leonel Joannas, Nicholas Mustone, Shany Sherman, Doyle Ward, Jeanmarie Houghton, Christina E. Baer, Aisling O'Hara, Jorge Henao-Mejia, Kasper Hoebe, Katherine A. Fitzgerald
Summary: This study presents a new mechanism involving a regulatory RNA transcribed from a noncoding genomic locus to restrict intestinal inflammation. The lncRNA HOXA11os, specifically expressed in the distal colon, is reduced in colitis. HOXA11os interacts with a core subunit of complex 1 of the electron transport chain (ETC) and its deficiency leads to complex I deficiency, dysfunctional oxidative phosphorylation, and the production of mitochondrial reactive oxygen species (mtROS). HOXA11os-deficient mice develop spontaneous intestinal inflammation and are hypersusceptible to colitis.
Article
Plant Sciences
Qiutao Xu, Yijie Wang, Yaping Yue, Zhengting Chen, Dao-Xiu Zhou, Yu Zhao
Summary: This article has been withdrawn due to an error, and the definitive version is published under DOI.
Article
Multidisciplinary Sciences
Khine Myint, Linda Shyue Huey Chuang, Yu Xuan Teh, Nur Astiana Mawan, Edward Jizhong Shi, Michelle Meng Huang Mok, Napat Nuttonmanit, Junichi Matsuo, Ying Li, Henry Yang, Atsushi Okabe, Atsushi Kaneda, Motomi Osato, Jimmy Bok-Yan So, Wei Peng Yong, Patrick Tan, Khay Guan Yeoh, Yoshiaki Ito
Summary: We reported earlier that IQGAP3 is an important stem cell factor in rapidly proliferating isthmus stem cells in the stomach and that IQGAP3 expression is robustly induced in terminally differentiated chief cells and de-differentiated cells following tissue damage. The elevated IQGAP3 expression in cancer and its association with metastasis suggest a fundamental role for IQGAP3 in proliferating cancer stem cells. What causes IQGAP3 upregulation in cancer is unclear.
Article
Cell Biology
Allegra Terhorst, Arzu Sandikci, Charles A. Whittaker, Tamas Szoradi, Liam J. Holt, Gabriel E. Neurohr, Angelika Amon
Summary: Prolonged cell cycle arrests lead to growth attenuation, activation of the Environmental Stress Response (ESR), and reduced ribosome content. The ESR plays a cytoprotective role during prolonged arrests.
FRONTIERS IN CELL AND DEVELOPMENTAL BIOLOGY
(2023)
Article
Cell Biology
Cameron Howard Lee, Sue Biggins
Summary: During mitosis, proper regulation of gene expression programs is crucial for accurate cellular division. Disruption of microtubules can lead to coordinated translational and transcriptional repression of certain genes involved in cell wall biology processes. This study uncovers a previously unknown link between microtubule function and the regulation of mitotic gene expression.
FRONTIERS IN CELL AND DEVELOPMENTAL BIOLOGY
(2022)
Article
Biochemistry & Molecular Biology
Sivakumar Vadivel Gnanasundram, Isabelle C. Kos-Braun, Martin Kos
NUCLEIC ACIDS RESEARCH
(2019)
Article
Biochemistry & Molecular Biology
Maxime Mivelaz, Anne-Marinette Cao, Slawomir Kubik, Sevil Zencir, Ruud Hovius, Iuliia Boichenko, Anna Maria Stachowicz, Christoph F. Kurat, David Shore, Beat Fierz
Article
Biochemistry & Molecular Biology
Clemens Heissenberger, Lisa Liendl, Fabian Nagelreiter, Yulia Gonskikh, Guohuan Yang, Elena M. Stelzer, Teresa L. Krammer, Lucia Micutkova, Stefan Vogt, David P. Kreil, Gerhard Sekot, Emilio Siena, Ina Poser, Eva Harreither, Angela Linder, Viktoria Ehret, Thomas H. Helbich, Regina Grillari-Voglauer, Pidder Jansen-Duerr, Martin Kos, Norbert Polacek, Johannes Grillari, Markus Schosserer
NUCLEIC ACIDS RESEARCH
(2019)
Article
Cell Biology
Maksym Shyian, Benjamin Albert, Andreja Moset Zupan, Vitalii Ivanitsa, Gabriel Charbonnet, Daniel Dilg, David Shore
GENES & DEVELOPMENT
(2020)
Article
Biochemistry & Molecular Biology
Lise Dauban, Remi Montagne, Agnes Thierry, Luciana Lazar-Stefanita, Nathalie Bastie, Olivier Gadal, Axel Cournac, Romain Koszul, Frederic Beckouet
Article
Biochemistry & Molecular Biology
Yulia Gonskikh, Matthias Gerstl, Martin Kos, Nicole Borth, Markus Schosserer, Johannes Grillari, Norbert Polacek
Article
Biochemistry & Molecular Biology
Ellen K. Okuda, Fernando A. Gonzales-Zubiate, Olivier Gadal, Carla C. Oliveira
JOURNAL OF BIOLOGICAL CHEMISTRY
(2020)
Article
Biology
Isabelle C. Kos-Braun, Bjoern Gerlach, Claudia Pitzer
Review
Biochemistry & Molecular Biology
David Shore, Sevil Zencir, Benjamin Albert
Summary: Ribosome biogenesis in yeast cells requires significant transcriptional output and is regulated by various transcription factors such as Rap1, Fhl1, Ifh1, and Sfp1. Recent studies have also identified the involvement of Hmo1 and a protein homeostasis mechanism known as the Ribosome Assembly Stress Response (RASTR) in the control of RPG transcription.
BIOCHEMICAL SOCIETY TRANSACTIONS
(2021)
Editorial Material
Biochemistry & Molecular Biology
Leonardo Restivo, Bjoern Gerlach, Michael Tsoory, Lior Bikovski, Sylvia Badurek, Claudia Pitzer, Isabelle C. Kos-Braun, Anne-Laure M. J. Mausset-Bonnefont, Jonathan Ward, Michael Schunn, Lucas P. J. J. Noldus, Anton Bespalov, Vootele Voikar
Review
Biochemistry & Molecular Biology
Chaima Azouzi, Mariam Jaafar, Christophe Dez, Raghida Abou Merhi, Annick Lesne, Anthony K. Henras, Olivier Gadal
Summary: The study highlights the coupling between rRNA production and nascent rRNA folding, showing that RNA folding acts as an anti-pausing mechanism and favors transcription elongation. Defects in co-transcriptional folding of rRNA may induce Pol I pausing, and premature termination of transcription can potentially control rRNA production in vivo.
FRONTIERS IN MOLECULAR BIOSCIENCES
(2021)
Article
Biochemistry & Molecular Biology
Nathalie Bastie, Christophe Chapard, Lise Dauban, Olivier Gadal, Frederic Beckouet, Romain Koszul
Summary: This study investigates the roles of various cohesin regulators in tuning chromatin loop expansion in budding yeast, revealing that Scc2 plays a key role in both stimulating cohesin ATPase activity and driving cohesin translocation on DNA, while Smc3 acetylation during S phase counteracts this activity by stabilizing Pds5 to finely tune loop size and stability in G2.
NATURE STRUCTURAL & MOLECULAR BIOLOGY
(2022)
Editorial Material
Multidisciplinary Sciences
Sevil Zencir, Daniel Dilg, David Shore, Benjamin Albert
NATURE COMMUNICATIONS
(2022)
Article
Biochemistry & Molecular Biology
Emma Lesage, Jorge Perez-Fernandez, Sophie Queille, Christophe Dez, Olivier Gadal, Marta Kwapisz
Summary: The study discusses pervasive transcription in eukaryotes, particularly the generation of long non-coding RNAs from ribosomal RNA gene promoters called UPS. It was found that UPS transcripts from closed rDNA genes are produced in wild-type cells but are hidden within the vast production of rRNA. The levels of UPS increase when rDNA chromatin states are altered due to high temperatures or entering/leaving quiescence, indicating their role in regulating rDNA chromatin states and rRNA production.