Article
Cell Biology
Mandy Mun Yee Kwong, Jee Whu Lee, Mohammed Razip Samian, Habibah A. Wahab, Nobumoto Watanabe, Eugene Boon Beng Ong
Summary: Certain plant extracts have been found to extend chronological lifespan in budding yeast by enhancing stress resistance and modulating longevity-defined signaling pathways. These extracts also confer oxidative stress tolerance, potentially extending yeast chronological lifespan through the upregulation of stress response pathways.
Review
Biochemistry & Molecular Biology
Till Klecker, Benedikt Westermann
Summary: Mitochondria are complex organelles with two membranes, characterized by characteristic folds of the inner membrane called cristae. Recent studies have identified four major pathways that cooperate to shape cristae membranes, including ATP synthase dimer formation, assembly of MICOS, inner membrane remodelling by GTPase, and modulation of mitochondrial lipid composition. These pathways play a crucial role in establishing mitochondrial membrane architecture.
Article
Biochemistry & Molecular Biology
Elisa Enriquez-Hesles, Daniel L. Smith, Nazif Maqani, Margaret B. Wierman, Matthew D. Sutcliffe, Ryan D. Fine, Agata Kalita, Sean M. Santos, Michael J. Muehlbauer, James R. Bain, Kevin A. Janes, John L. Hartman, Matthew D. Hirschey, Jeffrey S. Smith
Summary: Caloric restriction has been shown to improve the health span and life span of various organisms by influencing the metabolism of specific amino acids, such as L-serine, through the one-carbon metabolism pathway. This mechanism suggests a potential non-cell-autonomous regulation of life span, providing insights into interventions for aging-associated diseases.
JOURNAL OF BIOLOGICAL CHEMISTRY
(2021)
Article
Biochemistry & Molecular Biology
Francesco Abbiati, Stefano Angelo Garagnani, Ivan Orlandi, Marina Vai
Summary: Supplementation of Quercetin (QUER) in yeast cells can increase their lifespan by reducing oxidative stress and promoting anabolic metabolism, specifically gluconeogenesis, leading to an increase in trehalose, a reserve carbohydrate.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Article
Cell Biology
Arman Ali Shah, Binghua Liu, Zhihuai Tang, Wang Wang, Wenjie Yang, Quanjun Hu, Yan Liu, Nianhui Zhang, Ke Liu
Summary: This study demonstrates that short-term treatment with fast H2S releasing donor NaHS at 96 hours after inoculation extends yeast lifespan, while treatments before 72 hours fail to do so. Early and late H2S treatments have similar effects on pathways related to lifespan regulation, but early treatment leads to unstable expression of antioxidant genes. Differences in gene regulation are also observed between early and late H2S treatment.
Article
Biochemistry & Molecular Biology
Siming Wang, Juhui Qiao, Chunyan Jiang, Daian Pan, Shiting Yu, Jingjing Chen, Shichao Liu, Peiguang Zhang, Daqing Zhao, Meichen Liu
Summary: Ginsenosides, active substances in ginseng, have been found to extend lifespan, ameliorate age-related damage, and limit functional decline. However, the specific components and molecular mechanisms of ginsenosides are not well understood. In this study, ginsenoside Rg1 was found to promote longevity in Saccharomyces cerevisiae by reducing aging-related surface wrinkling, enhancing stress resistance, decreasing reactive oxygen species' production and apoptosis, improving antioxidant enzyme activity, and slowing down the aging rate. Proteomic analysis revealed that Rg1 delays yeast senescence by regulating metabolic homeostasis, with CDC19 and SDH2 potentially being the effector proteins involved. Further experiments confirmed that Rg1 improves mitochondrial bioenergetics and glycolysis in yeast. These findings suggest that Rg1 could be used as a new treatment for slowing down the aging process.
Article
Food Science & Technology
Juan Antonio Porras-Aguera, Jaime Moreno-Garcia, Teresa Garcia-Martinez, Juan Moreno, Juan Carlos Mauricio
Summary: The prise de mousse stage during the elaboration of sparkling wine through the traditional method involves a second fermentation in a sealed bottle, which significantly contributes to the unique organoleptic properties of these wines. This study characterizes the mitochondrial response of Saccharomyces cerevisiae strains used in sparkling wine production and found that CO2 overpressure negatively affects mitochondrion-related proteins. However, proteins involved in wine aromas and respiratory chain are found to be over-represented in sealed bottles, with differences in concentrations observed depending on time and CO2 overpressure parameters. Ethanol content during fermentation may be a key factor in these proteomic changes, highlighting the importance of further research in this area.
INTERNATIONAL JOURNAL OF FOOD MICROBIOLOGY
(2021)
Article
Food Science & Technology
Florencia Sainz, Judit Pardo, Antonio Ruiz, Daniel Exposito, Raquel Armero, Amparo Querol, Jose M. Guillamon
Summary: This study successfully increased the concentration of organic acids and total acidity in Cava base wine using different strains. LA strain produced high concentrations of succinic acid, while VE strain produced high concentrations of lactic acid. Co-inoculation of LA and VE significantly increased the total wine acidity.
LWT-FOOD SCIENCE AND TECHNOLOGY
(2022)
Article
Cell Biology
Daniel D. Bisinski, Ines Gomes Castro, Muriel Mari, Stefan Walter, Florian Froehlich, Maya Schuldiner, Ayelen Gonzalez Montoro
Summary: Membrane contact sites are specialized platforms between organelles that facilitate metabolite exchange and influence dynamics. This study identifies a novel protein, Cvm1, that forms multiple contact sites in the yeast vacuole and plays a crucial role in sphingolipid homeostasis.
JOURNAL OF CELL BIOLOGY
(2022)
Article
Multidisciplinary Sciences
Juan Facundo Gulias, Florencia Niesi, Martin Aran, Susana Correa-Garcia, Mariana Bermudez-Moretti
Summary: Aging is a gradual decline in physiological integrity, which impairs functionality and increases mortality susceptibility. Dietary restriction, a known intervention to slow down aging, mimics nutrient scarcity without causing malnutrition. This study investigated the role of the transcription factor Gcn4 in the aging process of S. cerevisiae cells. The absence of Gcn4 led to various physiological changes, including increased mitochondrial activity and reactive oxygen species accumulation. Additionally, the mutant cells exhibited reduced ethanol production and lower levels of trehalose and free amino acids, disrupting cellular homeostasis and ultimately leading to a shortened lifespan.
Review
Biochemistry & Molecular Biology
Alessandra Ferramosca, Vincenzo Zara
Summary: Yeast mitochondrial carriers play a crucial role in cellular metabolism by connecting mitochondrial and cytosolic reactions, contributing to various important metabolic pathways.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2021)
Article
Water Resources
Mohaddeseh Zahmatkesh Anbarani, Afsaneh Esmaeili Nasrabadi, Ziaeddin Bonyadi
Summary: The aim of this study was to evaluate the efficiency of S. cerevisiae in removing PS from aqueous solutions. BBD was used to determine the optimal removal conditions. The maximum PS removal efficiency was 98.81% under optimized conditions. Based on the results, it can be concluded that S. cerevisiae can be used as a natural and environmentally friendly biocoagulant to remove PS.
APPLIED WATER SCIENCE
(2023)
Article
Cell Biology
William Wickner, Karina Lopes, Hongki Song, Josep Rizo, Amy Orr
Summary: In preparation for fusion, the R-SNARE on one membrane binds to Qa-, Qb-, and Qc-SNAREs on its fusion partner's membrane, forming a four-helical bundle that brings the two membranes together. The distribution of transmembrane (TM) anchors on the Q-SNAREs is crucial for efficient fusion, as a TM anchor on the Qa-SNARE promotes rapid fusion even in the absence of anchors on the other Q-SNAREs. A TM anchor on the Qb-SNARE is dispensable and insufficient for rapid fusion as the sole anchor. The need for Qa-SNARE anchoring is fundamental for vacuolar SNARE zippering-induced fusion and may apply to SNARE-mediated fusion in general.
MOLECULAR BIOLOGY OF THE CELL
(2023)
Review
Physiology
Tyler Ralph-Epps, Chisom J. Onu, Linh Vo, Michael W. Schmidtke, Anh Le, Miriam L. Greenberg
Summary: Saccharomyces cerevisiae, commonly known as baker's yeast, is extensively studied in science and has been crucial in researching human diseases and lipid-related pathophysiologies. Its contribution to understanding mitochondrial phospholipid cardiolipin and Barth syndrome, as well as its impact on Alzheimer's and Parkinson's diseases, are highlighted in this review.
FRONTIERS IN PHYSIOLOGY
(2021)
Article
Biotechnology & Applied Microbiology
Takuya Matsumoto, Tomoki Osawa, Hikaru Taniguchi, Akira Saito, Ryosuke Yamada, Hiroyasu Ogino
Summary: This study focused on utilizing accumulated intermediates, including acetyl-CoA, in mitochondria to enhance carotenoid production in Saccharomyces cerevisiae. By localizing carotenoid-producing enzymes in the mitochondria, the strain showed improved carotenoid production compared to the strain with enzymes in the cytosol. Furthermore, increasing glucose concentration improved cell growth and carotenoid production in mitochondria, but not in the cytosol.
BIOCHEMICAL ENGINEERING JOURNAL
(2022)
Article
Cell & Tissue Engineering
Simge Kelekci, Deniz Ugurlu-Cimen, Ata Berk Demir, Burcu Ozcimen, Abdullah Burak Yildiz, Mehmet Batuhan Karakus, Esra Borklu Yucel, Tamer T. Onder
Summary: In this study, iPSC lines were successfully generated from fibroblasts of three unrelated FRDA patients, which expressed pluripotency markers, displayed normal karyotypes, and could differentiate into all three germ layers via in vivo teratoma formation assay.
STEM CELL RESEARCH
(2021)
Review
Biochemical Research Methods
Elif Esvap, Kutlu O. Ulgen
Summary: Genome scale metabolic models (GEMs) are mathematical representations of organism metabolic pathways, which are valuable for predicting phenotypes and analyzing metabolic capabilities and behaviors. They have been used in microbial community analysis to study the interactions between organisms and hosts, as well as to explore the impact of microbiota on human diseases.
ACS SYNTHETIC BIOLOGY
(2021)
Article
Genetics & Heredity
Umut Altunoglu, Esra Borklu, Anju Shukla, Nathalie Escande-Beillard, Susanne Ledig, Hulya Azakli, Shalini S. Nayak, Serpil Eraslan, Katta Mohan Girisha, Ingo Kennerknecht, Hulya Kayserili
Summary: Homozygous variants in PPP2R3C gene can cause a syndromic 46,XY complete gonadal dysgenesis phenotype, while heterozygous variants may lead to reduced fertility in males. The study described patients from Turkish and Indian descent, including both 46,XX and 46,XY affected individuals displaying various external genital phenotypes.
Article
Genetics & Heredity
Esra Borklu, Umut Altunoglu, Serpil Eraslan, Hulya Kayserili
Summary: OTUD6B gene mutations can cause a syndrome with intellectual disability, seizures, and dysmorphic features. This study reports a case with Tetralogy of Fallot (ToF), along with microcephaly, renal parenchymal disease, and simple cortical cysts. Whole exome sequencing (WES) revealed a novel mutation in the OTUD6B gene, as well as a previously known mutation in the PKD1 gene, explaining the blended phenotype observed in the patient.
MOLECULAR SYNDROMOLOGY
(2022)
Article
Microbiology
Basak Atas, Cemile Selin Aksoy, Fatma Gizem Avci, Nihat Alpagu Sayar, Kutlu Ulgen, Elif Ozkirimli, Berna Sariyar Akbulut
Summary: The essential oil carvacrol from oregano enhance the antimicrobial activity of berberine by inhibiting efflux pumps. However, it is likely that the observed activity is not only due to the inhibition of efflux pumps but also involves different targets.
CURRENT MICROBIOLOGY
(2022)
Article
Chemistry, Multidisciplinary
Elif Gencturk, Muge Kasim, Berna Morova, Alper Kiraz, Kutlu O. Ulgen
Summary: This study utilizes droplet-based microfluidic devices to investigate the response of monocytic THP-1 cells to drug administration. Different drugs are examined and their effects on THP-1 cells in the context of the inflammasome and apoptosis relationship are analyzed. The results provide insights into cell-to-cell heterogeneity, which is crucial in cancer treatment.
Article
Biochemistry & Molecular Biology
Ilkay Irem Ozbek, Kutlu O. Ulgen
Summary: Computer models are used to imitate the characteristics of medulloblastoma (MB) and find effective therapeutic targets with minimal toxic effects on healthy cells. The study suggests that interfering with enzymes related to fatty acid and cholesterol synthesis, suppressing cardiolipin production, and inhibiting tumor-supporting sphingolipid metabolites may be effective approaches for treating MB. Additionally, decreasing succinate synthesis and GABA-catalyzing enzyme activity concurrently may be a promising strategy for metastatic MB.
Article
Genetics & Heredity
Ece Cepni, Esra Borklu, Sahin Avci, Tugba Kalayci, Serpil Eraslan, Hulya Kayserili
Summary: DNA Topoisomerase II beta (TOP2B) is involved in DNA topology during transcription and plays a critical role in neural development. Pathogenic changes in the TOP2B gene have been associated with overlapping immunodeficiency, acral, and urogenital anomalies. In this study, we report on a family with distinct TOP2B-associated phenotypes and propose a new acronym, TICAS, to describe the phenotypic spectrum observed in these patients.
Article
Biochemistry & Molecular Biology
Elif Esvap, Kutlu O. Ulgen
Summary: Autism spectrum disorders (ASD) are a group of heterogeneous neurodevelopmental disorders characterized by repetitive behaviors, communication difficulties, and social behavior deficits. This study aimed to understand ASD brain metabolism by constructing an ASD-specific prefrontal cortex genome-scale metabolic model (GEM) using transcriptomics data. The study identified elevated oxidative stress, mitochondrial dysfunction, and inflammatory markers in ASD. Abnormalities in sphingolipid metabolism were also observed, suggesting the potential of sphingolipid metabolites as biomarkers for ASD diagnosis. The study highlights the importance of early intervention and provides insights into the metabolic dysregulations associated with ASD.
Article
Behavioral Sciences
Ekin Yurdakul, Yaman Barlas, Kutlu O. Ulgen
Summary: This study reconstructs the protein-protein interaction network of autism spectrum disorder (ASD) and circadian rhythm to understand their connection. Graph theoretical analysis is used to evaluate the network attributes, and gene ontology enrichment analysis provides information about important biological processes.
BRAIN AND BEHAVIOR
(2023)
Meeting Abstract
Biochemistry & Molecular Biology
Elanur Yilmaz, Esra Borklu, Umut Altunoglu, Sahin Avci, Serpil Eraslan, Hulya Kayserili
EUROPEAN JOURNAL OF HUMAN GENETICS
(2022)
Meeting Abstract
Biochemistry & Molecular Biology
Marwan Nashabat, Sahin Avci, Esra Borklu-Yucel, Hilal Piril Saracoglu, Piraye Oflazer, Nathalie Escande-Beillard, Hulya Kayserili
EUROPEAN JOURNAL OF HUMAN GENETICS
(2022)
Meeting Abstract
Biochemistry & Molecular Biology
Hilal Piril P. Saracoglu, Yeliz Guven, Sermin Dice Aksakal, Tugba Kalayci, Umut Altunoglu, Zehra Oya Uyguner, Serpil Eraslan, Esra Borklu-Yucel, Hulya Kayserili Karabey
EUROPEAN JOURNAL OF HUMAN GENETICS
(2022)
