Article
Biochemistry & Molecular Biology
Haihua Wu, Jing Liu, Xuhan Zhang, Xueyao Zhang, Jianzhen Zhang, Enbo Ma
Summary: In this study, four alternative splicing transcripts of icCuZnSOD1 in Oxya chinensis were identified, showing differences in heat resistance and antioxidant capacity. These variants exhibited varied expression patterns during developmental stages and in different tissues, with distinct responses to CuCl2 and ZnSO4. The transcripts played roles in defense against CdCl2-induced oxidative stress, with OcicCuZnSOD1a exhibiting the strongest antioxidant capacity.
INTERNATIONAL JOURNAL OF BIOLOGICAL MACROMOLECULES
(2021)
Article
Genetics & Heredity
Qi Liu, Leiming Fang, Chengjun Wu
Summary: Alternative splicing of pre-mRNA is a key mechanism for increasing protein complexity, leading to diversity of transcriptomes and proteomes in a tissue-specific manner. Changes and errors in splicing regulation caused by splicing factors are closely related to various diseases. Understanding cellular factors that mediate alternative splicing regulation is a potential avenue for developing specific drugs targeting the dynamic RNA splicing process.
Review
Biochemistry & Molecular Biology
Andrea Corsi, Cristina Bombieri, Maria Teresa Valenti, Maria Grazia Romanelli
Summary: Tau microtubule-associated proteins play important roles in neurons and are associated with several neurodegenerative diseases. Recent studies have focused on understanding the regulation of Tau splicing to develop new treatment approaches.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2022)
Article
Plant Sciences
Jingli Yang, Wanqiu Lv, Liying Shao, Yanrui Fu, Haimei Liu, Chengjun Yang, Aihua Chen, Xieyu Xie, Zhiwei Wang, Chenghao Li
Summary: This study utilized SMRT sequencing technology to investigate AS regulation in poplar under cold stress, revealing intron retention as the most prominent type. RNA-Seq data uncovered the importance of calcium, abscisic acid, and reactive oxygen species signaling in cold stress response.
FRONTIERS IN PLANT SCIENCE
(2021)
Article
Plant Sciences
Shijia Zhang, Huili Liu, Li Yuan, Xiaojing Li, Lingbao Wang, Xiaodong Xu, Qiguang Xie
Summary: The study identified that CCA1 alpha and CCA1 beta protein variants respond to light and temperature cues, with higher temperatures promoting CCA1 beta protein production. The levels of CCA1 proteins peak in the morning and the detection of CCA1 beta is dependent on specific conditions at 22 degrees Celsius.
PLANT CELL REPORTS
(2021)
Article
Biotechnology & Applied Microbiology
Soma Jana, Partha P. Datta
Summary: The study found that the pI values of translation factors are related to the translation event, where initiation factors are mainly basic, while elongation and release factors are strictly acidic. Among all translation factors, initiation factor 2 (IF2) and ribosome recycling factor (RRF) showed variable pI values that are linked to the order of phylogeny.
Article
Biotechnology & Applied Microbiology
A. Gallo, D. Dolfini, A. Bernardini, N. Gnesutta, R. Mantovani
Summary: NF-YA, the regulatory subunit of the trimeric CCAAT-binding transcription factor NF-Y, has multiple alternative spliced isoforms, and NF-YAx and NF-YAg are enriched in Aves and play a major role in early chicken embryo development. In addition, the absence of exon-5 in NF-YAg leads to a global reduction of beta-stranded elements, while removal of the disordered exon-3 sequence has limited effects on TAD architecture.
Article
Biochemistry & Molecular Biology
Jose Teixeira, Farhan Basit, Peter H. G. M. Willems, Jori A. Wagenaars, Els van de Westerlo, Ricardo Amorim, Fernando Cagide, Sofia Benfeito, Catarina Oliveira, Fernanda Borges, Paulo J. Oliveira, Werner J. H. Koopman
Summary: The novel mitochondria-targeted variants of gallic and caffeic acid were found to increase ROS levels, stimulate NRF2 expression, and increase SOD2 and GSH levels.
FREE RADICAL BIOLOGY AND MEDICINE
(2021)
Article
Developmental Biology
Cansu Akkaya, Dila Atak, Altug Kamacioglu, Busra Aytul Akarlar, Gokhan Guner, Efil Bayam, Ali Cihan Taskin, Nurhan Ozlu, Gulayse Ince-Dunn
Summary: KIF2A is essential for dendritic arborization and radial migration of cortical neurons during brain development. Three Kif2a isoforms were studied, with only two supporting neuronal migration. A KIF2A mutation causing brain malformations led to changes in its interactome, including depletion of mitochondrial proteins.
Article
Oncology
BaiHeTiYa AZhaTi, Gaoliang Wu, Hailun Zhan, Wei Liang, Zhijian Song, Leilei Lu, Qichao Xie
Summary: This study identified 2589 prognosis-related alternative splicing (AS) events in muscle-invasive bladder cancer (MIBC). Enriched pathways, such as spliceosomal complex, DNA-directed RNA polymerase II core complex, and base excision repair, were observed. A signature based on 15 AS events was established and showed good predictive ability for prognosis in MIBC patients. FGFR3 mutations and focal amplification were associated with low-risk MIBC patients. Functional and immune infiltration analysis revealed potential signaling pathways and distinct immune states between high- and low-risk groups. Furthermore, a splicing correlation network demonstrated the regulatory mode of prognostic splicing factors in MIBC patients.
WORLD JOURNAL OF SURGICAL ONCOLOGY
(2022)
Article
Pharmacology & Pharmacy
Xinxin Shao, Mengzhu Zhang, Yingxuan Chen, Siyu Sun, Shengcai Yang, Quanshun Li
Summary: Aging is a process driven by reactive oxygen species (ROS), and superoxide dismutase (SOD) can scavenge ROS to extend lifespan. However, the instability and impermeability of native SOD limit its application. In this study, SOD was encapsulated into exosomes to obtain SOD@EXO, which significantly extended the lifespan of C. elegans and improved resistance against stress conditions.
INTERNATIONAL JOURNAL OF PHARMACEUTICS
(2023)
Article
Forestry
Xue Wang, Yan Wang, Ruixue Wang, Longfeng Gong, Lei Wang, Jichen Xu
Summary: Through alternative splicing, eukaryotic genes generate transcription isoforms that control plant development and stress tolerance. High temperatures significantly impact the alternative splicing process, and the information on isoforms helps understand stress-resistance mechanisms and molecular breeding.
Article
Biochemistry & Molecular Biology
Janae D. Sweeney, Marija Debeljak, Stacy Riel, Ana Cecilia Millena, James R. Eshleman, Channing J. Paller, Valerie Odero-Marah
Summary: The research showed that SOD2 expression did not correlate with tumor aggressiveness or SOD2 genotype in prostate cancer. However, the Ala-SOD2 allele may promote EMT, leading to increased cell migration. The antioxidant MSKE could inhibit EMT mediated by Ala-SOD2 SNP, indicating promising therapeutic potential for halting prostate cancer progression.
Review
Biochemistry & Molecular Biology
Brianne R. O'Leary, Rory S. Carroll, Garett J. Steers, Jennifer Hrabe, Frederick E. Domann, Joseph J. Cullen
Summary: Reactive oxygen species are essential components in cell signaling and immune responses, but an imbalance can lead to oxidative stress. Cancer cells show increased oxidative stress and decreased expression of extracellular superoxide dismutase, an antioxidant enzyme that plays a role in maintaining redox balance and protecting against oxidative damage. Understanding the role of EcSOD in cancer could have potential implications for detection, prognosis, and treatment of malignancies.
Article
Genetics & Heredity
Dongjie Zhang, Qian Zhang, Liang Wang, Jiaxin Li, Wanjun Hao, Yuanlu Sun, Di Liu, Xiuqin Yang
Summary: The study found that alternative splicing occurs in pig CREB genes, and two isoforms, V1 and V2, have similar roles but exhibit gene-specific effects. Additionally, V3 has no effect on gene expression, while V4 acts as a repressor. The different mechanisms underlying the roles of V1 and V2 were identified through RNA-seq, and specific genes regulated by them were identified.
Article
Biochemistry & Molecular Biology
Ying Liu, Rodolfo A. Maniero, Ricardo F. H. Giehl, Michael Melzer, Priscille Steensma, Gabriel Krouk, Teresa B. Fitzpatrick, Nicolaus von Wire
Summary: This study found that apoplastic acidification induced by ammonium is associated with iron precipitation and hydrogen peroxide accumulation along the stele in root tips, indicating iron-dependent ROS formation. Through screening ammonium sensitivity in genes, PDX1.1 was identified as an ammonium-responsive gene that is upregulated in the root stele and catalyzes the de novo synthesis of vitamin B-6. Mutants of pdx1.1 exhibit hypersensitivity to ammonium, while chemical complementation or overexpression of PDX1.1 restores root elongation. The synthesis of non-phosphorylated B-6 vitamers mediated by PDX1.1 acts as a primary strategy to protect roots from ammonium-induced ROS formation.
Article
Plant Sciences
Jonathan Przybyla-Toscano, Andrew E. Maclean, Marina Franceschetti, Daniela Liebsch, Florence Vignols, Olivier Keech, Nicolas Rouhier, Janneke Balk
Summary: NFU4 and NFU5 proteins in plants have a housekeeping function and are involved in the lipoylation process of mitochondrial dehydrogenases, providing Fe-S clusters to lipoyl synthase.
Article
Biochemistry & Molecular Biology
Arjan de Groot, Laurence Blanchard, Nicolas Rouhier, Pascal Rey
Summary: Deinococcus species have remarkable tolerance to oxidative damage in extreme environmental conditions. Thiol reductases (TRs) play important roles in metabolism regulation and stress responses. The study reveals that Deinococcus possesses multiple enzyme systems that protect proteins and maintain redox status. Recent research further confirms the importance of TRs in Deinococcus' tolerance to oxidative treatments.
News Item
Biochemistry & Molecular Biology
Nicolas Rouhier
Summary: Ferredoxins are found to be universal electron donors, and a study on human mitochondrial ferredoxins reveals the presence of unique cellular functions and partners for each protein.
NATURE CHEMICAL BIOLOGY
(2023)
Article
Plant Sciences
Helene Roehricht, Jonathan Przybyla-Toscano, Joachim Forner, Clement Boussardon, Olivier Keech, Nicolas Rouhier, Etienne H. Meyer
Summary: This study identified an atypical mitochondrial ferredoxin (mFDX-like) that plays a crucial role in the assembly of complex I and formation of complex I-containing supercomplexes.
Article
Biochemistry & Molecular Biology
Loick Christ, Jeremy Couturier, Nicolas Rouhier
Summary: This study discovered the redox properties of the Arabidopsis thaliana mitochondrial class II GRXS15 protein, showing that it is prone to oxidation and forms reversible oxidation forms. These forms may serve as catalytic intermediates of the oxidoreductase activity or as a protective mechanism, preventing irreversible oxidation and allowing Fe-S cluster binding upon reduction.
Review
Plant Sciences
Damien Caubriere, Anna Moseler, Nicolas Rouhier, Jeremy Couturier
Summary: This review focuses on the biochemical, structural, and physiological roles of cysteine desulfurases in sulfur-dependent biosynthetic pathways in photosynthetic organisms, with particular emphasis on Arabidopsis isoforms. Cysteine desulfurases are highly conserved enzymes that catalyze the extraction of sulfur from cysteine, leading to the formation of persulfide groups on catalytic cysteine residues. The sulfur is then transferred to various targets, including iron-sulfur clusters and molybdenum cofactors. While there is extensive knowledge about cysteine desulfurases in some pathways, such as iron-sulfur cluster synthesis, our understanding of their involvement in other pathways, especially in photosynthetic organisms, is limited. This review summarizes the current knowledge of cysteine desulfurases and highlights gaps in understanding, emphasizing the need for future research in this area.
JOURNAL OF EXPERIMENTAL BOTANY
(2023)
Article
Plant Sciences
Leo Bellin, Michael Melzer, Alexander Hilo, Diana Laura Garza Amaya, Isabel Keller, Joerg Meurer, Torsten Moehlmann
Summary: Nucleotide limitation and imbalance in plants have important consequences on metabolism and gene expression. In this study, we investigated the role of two organellar localized enzymes, chloroplast aspartate transcarbamoylase (ATC) and mitochondrial dihydroorotate dehydrogenase (DHODH), in pyrimidine metabolism. Knock-down mutants of ATC showed severe phenotypic effects, including low pyrimidine nucleotide levels, reduced photosynthetic capacity, and altered leaf morphology. DHODH knock-down mutants exhibited impaired seed germination and altered mitochondrial ultrastructure. Our findings suggest that ATC and DHODH play critical roles in nucleotide metabolism and have far-reaching effects on plant growth and development.
PLANT AND CELL PHYSIOLOGY
(2023)
Article
Microbiology
Mercedes Rocafort, Vaibhav Srivastava, Joanna K. Bowen, Sara M. Diaz-Moreno, Yanan Guo, Vincent Bulone, Kim M. Plummer, Paul W. Sutherland, Marilyn A. Anderson, Rosie E. Bradshaw, Carl H. Mesarich
Summary: The fungal pathogen Venturia inaequalis causes scab, the most economically important disease of apples. It forms specialized infection structures during the colonization of the apple host, but little is known about their differentiation and protection from host defenses.
MICROBIOLOGY SPECTRUM
(2023)
Article
Plant Sciences
Christian Hertig, Twan Rutten, Michael Melzer, Jos H. M. Schippers, Johannes Thiel
Summary: Endosperm development in barley involves the formation of a multinucleate syncytium and subsequent cellularization, leading to the differentiation of endosperm transfer cells (ETCs) and aleurone cells (AL). The positional signaling in the syncytial stage determines the cell identity in the cereal endosperm. This study used morphological analysis and RNA-seq to investigate the developmental and regulatory programs directing cell specification in early endosperm. The results revealed specific characteristics and identified signaling pathways and transcription factors involved in ETC and AL specification.
Article
Plant Sciences
Agata Daszkowska-Golec, Devang Mehta, R. Glen Uhrig, Agnieszka Braszewska, Ondrej Novak, Irene M. Fontana, Michael Melzer, Tomasz Plociniczak, Marek Marzec
Summary: We used a combination of transcriptomics, proteomics, and phytohormonomics analyses to investigate the SL-dependent mechanisms associated with water deficit response in barley. Our research revealed the role of SLs in alleviating the effects of water limitation on plants and identified potential strategies for developing drought-resistant barley.
Letter
Plant Sciences
Mariana Demarchi, Rocio C. Arce, Mabel Campi, Juan J. Pierella Karlusich, Mohammad-Reza Hajirezaei, Michael Melzer, Anabella F. Lodeyro, Raquel L. Chan, Nestor Carrillo
Article
Biochemistry & Molecular Biology
Rajender Kumar, Sanjiv Kumar, Vincent Bulone, Vaibhav Srivastava
Summary: The structural and functional properties of Pi-PME, a PME from the oomycete plant pathogen Phytophthora infestans, have been determined. Pi-PME exhibits maximum activity at alkaline pH and a wide temperature range. Molecular dynamic simulations show that Pi-PME interacts most strongly with partially demethylated homogalacturonans, indicating its preference for this type of substrate.
COMPUTATIONAL AND STRUCTURAL BIOTECHNOLOGY JOURNAL
(2022)
Article
Biochemistry & Molecular Biology
Indira Saado, Khong-Sam Chia, Ruben Betz, Andre Alcantara, Aladar Pettko-Szandtner, Fernando Navarrete, John C. D'Auria, Michael Kolomiets, Michael Melzer, Ivo Feussner, Armin Djamei
Summary: The study shows that the smut fungus Ustilago maydis secretes effector proteins to suppress host defense responses in maize plants, with Rip1 playing a key role in inhibiting host immunity and affecting antioxidant reactions. By relocalizing the host factor ZmLox3, the fungus can partially suppress ROS burst responses in maize plants.
Article
Chemistry, Inorganic & Nuclear
Flavien Zannini, Sandrine Mathiot, Jeremy Couturier, Claude Didierjean, Nicolas Rouhier
Summary: This study reveals the three-dimensional structure of a natural hybrid protein formed by the fusion of an N-terminal glutaredoxin-like domain and an FDR domain in the marine bacterium Desulfotalea psychrophila Lsv54. The structure provides insights into the dispensability of the variable subunit that normally protects the Fe-S cluster in FDR proteins and the electron flow involving RBX, FDR, and GRX protein domains observed in anaerobic methanogen archaea.