1
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Le N, Routh J, Kirk C, Wu Q, Patel R, Keyes C, Kim K. Red CdSe/ZnS QDs' Intracellular Trafficking and Its Impact on Yeast Polarization and Actin Filament. Cells 2023; 12:484. [PMID: 36766825 PMCID: PMC9914768 DOI: 10.3390/cells12030484] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/28/2022] [Revised: 01/28/2023] [Accepted: 01/30/2023] [Indexed: 02/05/2023] Open
Abstract
Quantum dots are nanoparticles (2-10 nm) that emit strong and tunable fluorescence. Quantum dots have been heavily used in high-demand commercialized products, research, and for medical purposes. Emerging concerns have demonstrated the negative impact of quantum dots on living cells; however, the intracellular trafficking of QDs in yeast cells and the effect of this interaction remains unclear. The primary goal of our research is to investigate the trafficking path of red cadmium selenide zinc sulfide quantum dots (CdSe/ZnS QDs) in Saccharomyces cerevisiae and the impact QDs have on yeast cellular dynamics. Using cells with GFP-tagged reference organelle markers and confocal microscopy, we were able to track the internalization of QDs. We found that QDs initially aggregate at the exterior of yeast cells, enter the cell using clathrin-receptor-mediated endocytosis, and distribute at the late Golgi/trans-Golgi network. We also found that the treatment of red CdSe/ZnS QDs resulted in growth rate reduction and loss of polarized growth in yeast cells. Our RNA sequence analysis revealed many altered genes. Particularly, we found an upregulation of DID2, which has previously been associated with cell cycle arrest when overexpressed, and a downregulation of APS2, a gene that codes for a subunit of AP2 protein important for the recruitment of proteins to clathrin-mediated endocytosis vesicle. Furthermore, CdSe/ZnS QDs treatment resulted in a slightly delayed endocytosis and altered the actin dynamics in yeast cells. We found that QDs caused an increased level of F-actin and a significant reduction in profilin protein expression. In addition, there was a significant elevation in the amount of coronin protein expressed, while the level of cofilin was unchanged. Altogether, this suggests that QDs favor the assembly of actin filaments. Overall, this study provides a novel toxicity mechanism of red CdSe/ZnS QDs on yeast actin dynamics and cellular processes, including endocytosis.
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Affiliation(s)
- Nhi Le
- Department of Biology, Missouri State University, 901 S National, Springfield, MO 65897, USA
| | - Jonathan Routh
- Department of Biology, Missouri State University, 901 S National, Springfield, MO 65897, USA
| | - Cameron Kirk
- Department of Biology, Missouri State University, 901 S National, Springfield, MO 65897, USA
| | - Qihua Wu
- Jordan Valley Innovation Center, 542 N Boonville, Springfield, MO 65806, USA
| | - Rishi Patel
- Jordan Valley Innovation Center, 542 N Boonville, Springfield, MO 65806, USA
| | - Chloe Keyes
- Jordan Valley Innovation Center, 542 N Boonville, Springfield, MO 65806, USA
| | - Kyoungtae Kim
- Department of Biology, Missouri State University, 901 S National, Springfield, MO 65897, USA
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2
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Aw R, De Wachter C, Laukens B, De Rycke R, De Bruyne M, Bell D, Callewaert N, Polizzi KM. Knockout of RSN1, TVP18 or CSC1-2 causes perturbation of Golgi cisternae in Pichia pastoris. Traffic 2020; 22:48-63. [PMID: 33263222 DOI: 10.1111/tra.12773] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/22/2020] [Revised: 11/25/2020] [Accepted: 11/30/2020] [Indexed: 11/29/2022]
Abstract
The structural organization of the Golgi stacks in mammalian cells is intrinsically linked to function, including glycosylation, but the role of morphology is less clear in lower eukaryotes. Here we investigated the link between the structural organization of the Golgi and secretory pathway function using Pichia pastoris as a model system. To unstack the Golgi cisternae, we disrupted 18 genes encoding proteins in the secretory pathway without loss of viability. Using biosensors, confocal microscopy and transmission electron microscopy we identified three strains with irreversible perturbations in the stacking of the Golgi cisternae, all of which had disruption in genes that encode proteins with annotated function as or homology to calcium/calcium permeable ion channels. Despite this, no variation in the secretory pathway for ER size, whole cell glycomics or recombinant protein glycans was observed. Our investigations showed the robust nature of the secretory pathway in P. pastoris and suggest that Ca2+ concentration, homeostasis or signalling may play a significant role for Golgi stacking in this organism and should be investigated in other organisms.
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Affiliation(s)
- Rochelle Aw
- Department of Chemical Engineering, Imperial College London, London, UK.,Imperial College Centre for Synthetic Biology, Imperial College London, London, United Kingdom
| | - Charlot De Wachter
- VIB-UGent, Center for Medical Biotechnology, Ghent, Belgium.,Department of Biochemistry and Microbiology, Ghent University, Ghent, Belgium
| | - Bram Laukens
- VIB-UGent, Center for Medical Biotechnology, Ghent, Belgium.,Department of Biochemistry and Microbiology, Ghent University, Ghent, Belgium
| | - Riet De Rycke
- Department of Biomedical Molecular Biology and Expertise Centre for Transmission Electron Microscopy, Ghent University, Ghent, Belgium.,VIB Center for Inflammation Research and BioImaging Core, Ghent, Belgium
| | - Michiel De Bruyne
- Department of Biomedical Molecular Biology and Expertise Centre for Transmission Electron Microscopy, Ghent University, Ghent, Belgium.,VIB Center for Inflammation Research and BioImaging Core, Ghent, Belgium
| | - David Bell
- Section for Structural Biology, Department of Medicine, Imperial College London, London, United Kingdom.,London Biofoundry, Imperial College London, London, United Kingdom
| | - Nico Callewaert
- VIB-UGent, Center for Medical Biotechnology, Ghent, Belgium.,Department of Biochemistry and Microbiology, Ghent University, Ghent, Belgium
| | - Karen M Polizzi
- Department of Chemical Engineering, Imperial College London, London, UK.,Imperial College Centre for Synthetic Biology, Imperial College London, London, United Kingdom
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3
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Zhu XM, Li L, Cai YY, Wu XY, Shi HB, Liang S, Qu YM, Naqvi NI, Del Poeta M, Dong B, Lin FC, Liu XH. A VASt-domain protein regulates autophagy, membrane tension, and sterol homeostasis in rice blast fungus. Autophagy 2020; 17:2939-2961. [PMID: 33176558 DOI: 10.1080/15548627.2020.1848129] [Citation(s) in RCA: 29] [Impact Index Per Article: 5.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/16/2022] Open
Abstract
Sterols are a class of lipids critical for fundamental biological processes and membrane dynamics. These molecules are synthesized in the endoplasmic reticulum (ER) and are transported bi-directionally between the ER and plasma membrane (PM). However, the trafficking mechanism of sterols and their relationship with macroautophagy/autophagy are still poorly understood in the rice blast fungus Magnaporthe oryzae. Here, we identified the VAD1 Analog of StAR-related lipid transfer (VASt) domain-containing protein MoVast1 via co-immunoprecipitation in M. oryzae. Loss of MoVAST1 resulted in conidial defects, impaired appressorium development, and reduced pathogenicity. The MoTor (target of rapamycin in M. oryzae) activity is inhibited because MoVast1 deletion leads to high levels of sterol accumulation in the PM. Site-directed mutagenesis showed that the 902 T site is essential for localization and function of MoVast1. Through filipin or Flipper-TR staining, autophagic flux detection, MoAtg8 lipidation, and drug sensitivity assays, we uncovered that MoVast1 acts as a novel autophagy inhibition factor that monitors tension in the PM by regulating the sterol content, which in turn modulates the activity of MoTor. Lipidomics and transcriptomics analyses further confirmed that MoVast1 is an important regulator of lipid metabolism and the autophagy pathway. Our results revealed and characterized a novel sterol transfer protein important for M. oryzae pathogenicity.Abbreviations: AmB: amphotericin B; ATMT: Agrobacterium tumefaciens-mediated transformation; CM: complete medium; dpi: days post-inoculation; ER: endoplasmic reticulum; Flipper-TR: fluorescent lipid tension reporter; GO: Gene ontology; hpi: hours post-inoculation; IH: invasive hyphae; KEGG: kyoto encyclopedia of genes and genomes; MoTor: target of rapamycin in Magnaporthe oryzae; PalmC: palmitoylcarnitine; PM: plasma membrane; SD-N: synthetic defined medium without amino acids and ammonium sulfate; TOR: target of rapamycin; VASt: VAD1 Analog of StAR-related lipid transfer; YFP, yellow fluorescent protein.
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Affiliation(s)
- Xue-Ming Zhu
- St Ate Key Laboratory for Managing Biotic and Chemical Treats to the Quality and Safety of Agro-products, Institute of Biotechnology, Zhejiang University, Hangzhou, China.,State Key Laboratory for Managing Biotic and Chemical Treats to the Quality and Safety of Agro-products, Institute of Plant Protection and Microbiology, Zhejiang Academy of Agricultural Sciences, Hangzhou, China
| | - Lin Li
- St Ate Key Laboratory for Managing Biotic and Chemical Treats to the Quality and Safety of Agro-products, Institute of Biotechnology, Zhejiang University, Hangzhou, China
| | - Ying-Ying Cai
- St Ate Key Laboratory for Managing Biotic and Chemical Treats to the Quality and Safety of Agro-products, Institute of Biotechnology, Zhejiang University, Hangzhou, China
| | - Xi-Yu Wu
- St Ate Key Laboratory for Managing Biotic and Chemical Treats to the Quality and Safety of Agro-products, Institute of Biotechnology, Zhejiang University, Hangzhou, China
| | - Huan-Bin Shi
- St Ate Key Laboratory for Managing Biotic and Chemical Treats to the Quality and Safety of Agro-products, Institute of Biotechnology, Zhejiang University, Hangzhou, China
| | - Shuang Liang
- St Ate Key Laboratory for Managing Biotic and Chemical Treats to the Quality and Safety of Agro-products, Institute of Biotechnology, Zhejiang University, Hangzhou, China
| | - Ying-Min Qu
- St Ate Key Laboratory for Managing Biotic and Chemical Treats to the Quality and Safety of Agro-products, Institute of Biotechnology, Zhejiang University, Hangzhou, China
| | - Naweed I Naqvi
- Temasek Life Sciences Laboratory, Department of Biological Sciences, National University of Singapore, Singapore
| | - Maurizio Del Poeta
- Department of Microbiology and Immunology, Stony Brook University, Stony Brook, New York, USA.,Division of Infectious Diseases, Stony Brook University, Stony Brook, New York, USA.,Veterans Affairs Medical Center, Northport, New York, USA
| | - Bo Dong
- Markey Cancer Center, University of Kentucky, College of Medicine, Lexington, KY, USA
| | - Fu-Cheng Lin
- St Ate Key Laboratory for Managing Biotic and Chemical Treats to the Quality and Safety of Agro-products, Institute of Biotechnology, Zhejiang University, Hangzhou, China.,State Key Laboratory for Managing Biotic and Chemical Treats to the Quality and Safety of Agro-products, Institute of Plant Protection and Microbiology, Zhejiang Academy of Agricultural Sciences, Hangzhou, China
| | - Xiao-Hong Liu
- St Ate Key Laboratory for Managing Biotic and Chemical Treats to the Quality and Safety of Agro-products, Institute of Biotechnology, Zhejiang University, Hangzhou, China
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4
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Buechel ER, Pinkett HW. Transcription factors and ABC transporters: from pleiotropic drug resistance to cellular signaling in yeast. FEBS Lett 2020; 594:3943-3964. [PMID: 33089887 DOI: 10.1002/1873-3468.13964] [Citation(s) in RCA: 36] [Impact Index Per Article: 7.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/30/2020] [Revised: 09/07/2020] [Accepted: 10/15/2020] [Indexed: 12/24/2022]
Abstract
Budding yeast Saccharomyces cerevisiae survives in microenvironments utilizing networks of regulators and ATP-binding cassette (ABC) transporters to circumvent toxins and a variety of drugs. Our understanding of transcriptional regulation of ABC transporters in yeast is mainly derived from the study of multidrug resistance protein networks. Over the past two decades, this research has not only expanded the role of transcriptional regulators in pleiotropic drug resistance (PDR) but evolved to include the role that regulators play in cellular signaling and environmental adaptation. Inspection of the gene networks of the transcriptional regulators and characterization of the ABC transporters has clarified that they also contribute to environmental adaptation by controlling plasma membrane composition, toxic-metal sequestration, and oxidative stress adaptation. Additionally, ABC transporters and their regulators appear to be involved in cellular signaling for adaptation of S. cerevisiae populations to nutrient availability. In this review, we summarize the current understanding of the S. cerevisiae transcriptional regulatory networks and highlight recent work in other notable fungal organisms, underlining the expansion of the study of these gene networks across the kingdom fungi.
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Affiliation(s)
- Evan R Buechel
- Department of Molecular Biosciences, Northwestern University, Evanston, IL, USA
| | - Heather W Pinkett
- Department of Molecular Biosciences, Northwestern University, Evanston, IL, USA
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5
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Regulation of Ergosterol Biosynthesis in Saccharomyces cerevisiae. Genes (Basel) 2020; 11:genes11070795. [PMID: 32679672 PMCID: PMC7397035 DOI: 10.3390/genes11070795] [Citation(s) in RCA: 222] [Impact Index Per Article: 44.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/26/2020] [Revised: 07/06/2020] [Accepted: 07/13/2020] [Indexed: 12/14/2022] Open
Abstract
Ergosterol is an essential component of fungal cell membranes that determines the fluidity, permeability and activity of membrane-associated proteins. Ergosterol biosynthesis is a complex and highly energy-consuming pathway that involves the participation of many enzymes. Deficiencies in sterol biosynthesis cause pleiotropic defects that limit cellular proliferation and adaptation to stress. Thereby, fungal ergosterol levels are tightly controlled by the bioavailability of particular metabolites (e.g., sterols, oxygen and iron) and environmental conditions. The regulation of ergosterol synthesis is achieved by overlapping mechanisms that include transcriptional expression, feedback inhibition of enzymes and changes in their subcellular localization. In the budding yeast Saccharomyces cerevisiae, the sterol regulatory element (SRE)-binding proteins Upc2 and Ecm22, the heme-binding protein Hap1 and the repressor factors Rox1 and Mot3 coordinate ergosterol biosynthesis (ERG) gene expression. Here, we summarize the sterol biosynthesis, transport and detoxification systems of S. cerevisiae, as well as its adaptive response to sterol depletion, low oxygen, hyperosmotic stress and iron deficiency. Because of the large number of ERG genes and the crosstalk between different environmental signals and pathways, many aspects of ergosterol regulation are still unknown. The study of sterol metabolism and its regulation is highly relevant due to its wide applications in antifungal treatments, as well as in food and pharmaceutical industries.
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6
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Ravishankar A, Pupo A, Gallagher JEG. Resistance Mechanisms of Saccharomyces cerevisiae to Commercial Formulations of Glyphosate Involve DNA Damage Repair, the Cell Cycle, and the Cell Wall Structure. G3 (BETHESDA, MD.) 2020; 10:2043-2056. [PMID: 32299824 PMCID: PMC7263678 DOI: 10.1534/g3.120.401183] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 02/25/2020] [Accepted: 04/13/2020] [Indexed: 12/16/2022]
Abstract
The use of glyphosate-based herbicides is widespread and despite their extensive use, their effects are yet to be deciphered completely. The additives in commercial formulations of glyphosate, though labeled inert when used individually, have adverse effects when used in combination with other additives along with the active ingredient. As a species, Saccharomyces cerevisiae has a wide range of resistance to glyphosate-based herbicides. To investigate the underlying genetic differences between sensitive and resistant strains, global changes in gene expression were measured, when yeast were exposed to a glyphosate-based herbicide (GBH). Expression of genes involved in numerous pathways crucial to the cell's functioning, such as DNA replication, MAPK signaling, meiosis, and cell wall synthesis changed. Because so many diverse pathways were affected, these strains were then subjected to in-lab-evolutions (ILE) to select mutations that confer increased resistance. Common fragile sites were found to play a role in adaptation to resistance to long-term exposure of GBHs. Copy number increased in approximately 100 genes associated with cell wall proteins, mitochondria, and sterol transport. Taking ILE and transcriptomic data into account it is evident that GBHs affect multiple biological processes in the cell. One such component is the cell wall structure which acts as a protective barrier in alleviating the stress caused by exposure to inert additives in GBHs. Sed1, a GPI-cell wall protein, plays an important role in tolerance of a GBH. Hence, a detailed study of the changes occurring at the genome and transcriptome levels is essential to better understand the effects of an environmental stressor such as a GBH, on the cell as a whole.
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Affiliation(s)
| | - Amaury Pupo
- Department of Biology, West Virginia University
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7
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Chauhan N, Sere YY, Sokol AM, Graumann J, Menon AK. A PhotoClick cholesterol‐based quantitative proteomics screen for cytoplasmic sterol‐binding proteins in
Saccharomyces cerevisiae. Yeast 2020; 37:15-25. [DOI: 10.1002/yea.3448] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/12/2019] [Revised: 10/30/2019] [Accepted: 11/15/2019] [Indexed: 02/02/2023] Open
Affiliation(s)
- Neha Chauhan
- Department of Biochemistry Weill Cornell Medical College 1300 York Ave. New York NY 10065 USA
| | - Yves Y. Sere
- Department of Biochemistry Weill Cornell Medical College 1300 York Ave. New York NY 10065 USA
| | - Anna M. Sokol
- Biomolecular Mass Spectrometry Max Planck Institute for Heart and Lung Research, W.G. Kerckhoff Institute Ludwigstr. 43 Bad Nauheim Germany
- Biomolecular Mass Spectrometry German Centre for Cardiovascular Research (DZHK), Rhine‐Main site Bad Nauheim Germany
| | - Johannes Graumann
- Biomolecular Mass Spectrometry Max Planck Institute for Heart and Lung Research, W.G. Kerckhoff Institute Ludwigstr. 43 Bad Nauheim Germany
- Biomolecular Mass Spectrometry German Centre for Cardiovascular Research (DZHK), Rhine‐Main site Bad Nauheim Germany
| | - Anant K. Menon
- Department of Biochemistry Weill Cornell Medical College 1300 York Ave. New York NY 10065 USA
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8
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Khelashvili G, Chauhan N, Pandey K, Eliezer D, Menon AK. Exchange of water for sterol underlies sterol egress from a StARkin domain. eLife 2019; 8:53444. [PMID: 31799930 PMCID: PMC6940019 DOI: 10.7554/elife.53444] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/11/2019] [Accepted: 11/29/2019] [Indexed: 12/18/2022] Open
Abstract
Previously we identified Lam/GramD1 proteins, a family of endoplasmic reticulum membrane proteins with sterol-binding StARkin domains that are implicated in intracellular sterol homeostasis. Here, we show how these proteins exchange sterol molecules with membranes. An aperture at one end of the StARkin domain enables sterol to enter/exit the binding pocket. Strikingly, the wall of the pocket is longitudinally fractured, exposing bound sterol to solvent. Large-scale atomistic molecular dynamics simulations reveal that sterol egress involves widening of the fracture, penetration of water into the cavity, and consequent destabilization of the bound sterol. The simulations identify polar residues along the fracture that are important for sterol release. Their replacement with alanine affects the ability of the StARkin domain to bind sterol, catalyze inter-vesicular sterol exchange and alleviate the nystatin-sensitivity of lam2Δ yeast cells. These data suggest an unprecedented, water-controlled mechanism of sterol discharge from a StARkin domain.
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Affiliation(s)
- George Khelashvili
- Department of Physiology and Biophysics, Weill Cornell Medical College, New York, United States.,Institute for Computational Biomedicine, Weill Cornell Medical College, New York, United States
| | - Neha Chauhan
- Department of Biochemistry, Weill Cornell Medical College, New York, United States
| | - Kalpana Pandey
- Department of Biochemistry, Weill Cornell Medical College, New York, United States
| | - David Eliezer
- Department of Biochemistry, Weill Cornell Medical College, New York, United States
| | - Anant K Menon
- Department of Biochemistry, Weill Cornell Medical College, New York, United States
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9
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Godara A, Rodriguez MAG, Weatherston JD, Peabody GL, Wu HJ, Kao KC. Beneficial mutations for carotenoid production identified from laboratory-evolved Saccharomyces cerevisiae. J Ind Microbiol Biotechnol 2019; 46:1793-1804. [PMID: 31595456 DOI: 10.1007/s10295-019-02241-y] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/24/2019] [Accepted: 09/26/2019] [Indexed: 01/26/2023]
Abstract
Adaptive laboratory evolution (ALE) is a powerful tool used to increase strain fitness in the presence of environmental stressors. If production and strain fitness can be coupled, ALE can be used to increase product formation. In earlier work, carotenoids hyperproducing mutants were obtained using an ALE strategy. Here, de novo mutations were identified in hyperproducers, and reconstructed mutants were explored to determine the exact impact of each mutation on production and tolerance. A single mutation in YMRCTy1-3 conferred increased carotenoid production, and when combined with other beneficial mutations led to further increased β-carotene production. Findings also suggest that the ALE strategy selected for mutations that confer increased carotenoid production as primary phenotype. Raman spectroscopy analysis and total lipid quantification revealed positive correlation between increased lipid content and increased β-carotene production. Finally, we demonstrated that the best combinations of mutations identified for β-carotene production were also beneficial for production of lycopene.
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Affiliation(s)
- Avinash Godara
- Department of Chemical Engineering, Texas A&M University, College Station, TX, USA
| | | | - Joshua D Weatherston
- Department of Chemical Engineering, Texas A&M University, College Station, TX, USA
| | | | - Hung-Jen Wu
- Department of Chemical Engineering, Texas A&M University, College Station, TX, USA
| | - Katy C Kao
- Department of Chemical Engineering, Texas A&M University, College Station, TX, USA. .,Department of Chemical and Materials Engineering, San Jose State University, One Washington Square, San Jose, CA, 95129, USA.
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10
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Abstract
Intracellular sterol transport occurs largely by non-vesicular mechanisms in which sterol transport proteins extract sterol from one membrane and transfer it to another across the cytoplasm. Here we describe a suite of complementary assays to measure intracellular sterol transport in the model eukaryote Saccharomyces cerevisiae, as well as to quantify protein-mediated sterol transport between populations of vesicles in vitro. The in vivo assays can be adapted to study sterol transport in other cell types.
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Affiliation(s)
- Neha Chauhan
- Department of Biochemistry, Weill Cornell Medical College, New York, NY, USA
| | - Julian A Jentsch
- Department of Biochemistry, Weill Cornell Medical College, New York, NY, USA
- Institute for Pathophysiology, West German Heart and Vascular Centre, University Hospital Essen, Essen, Germany
| | - Anant K Menon
- Department of Biochemistry, Weill Cornell Medical College, New York, NY, USA.
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11
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Jentsch JA, Kiburu I, Pandey K, Timme M, Ramlall T, Levkau B, Wu J, Eliezer D, Boudker O, Menon AK. Structural basis of sterol binding and transport by a yeast StARkin domain. J Biol Chem 2018; 293:5522-5531. [PMID: 29463678 PMCID: PMC5900764 DOI: 10.1074/jbc.ra118.001881] [Citation(s) in RCA: 35] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/17/2018] [Revised: 02/10/2018] [Indexed: 01/07/2023] Open
Abstract
The StARkin superfamily comprises proteins with steroidogenic acute regulatory protein-related lipid transfer (StART) domains that are implicated in intracellular, non-vesicular lipid transport. A new family of membrane-anchored StARkins was recently identified, including six members, Lam1-Lam6, in the yeast Saccharomyces cerevisiae. Lam1-Lam4 are anchored to the endoplasmic reticulum (ER) membrane at sites where the ER is tethered to the plasma membrane and proposed to be involved in sterol homeostasis in yeast. To better understand the biological roles of these proteins, we carried out a structure-function analysis of the second StARkin domain of Lam4, here termed Lam4S2. NMR experiments indicated that Lam4S2 undergoes specific conformational changes upon binding sterol, and fluorescence-based assays revealed that it catalyzes sterol transport between vesicle populations in vitro, exhibiting a preference for vesicles containing anionic lipids. Using such vesicles, we found that sterols are transported at a rate of ∼50 molecules per Lam4S2 per minute. Crystal structures of Lam4S2, with and without bound sterol, revealed a largely hydrophobic but surprisingly accessible sterol-binding pocket with the 3-OH group of the sterol oriented toward its base. Single or multiple alanine or aspartic acid replacements of conserved lysine residues in a basic patch on the surface of Lam4S2 near the likely sterol entry/egress site strongly attenuated sterol transport. Our results suggest that Lam4S2 engages anionic membranes via a basic surface patch, enabling "head-first" entry of sterol into the binding pocket followed by partial closure of the entryway. Reversal of these steps enables sterol egress.
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Affiliation(s)
- Julian-Alexander Jentsch
- From the Departments of Biochemistry and ,Institute for Pathophysiology, West German Heart and Vascular Centre, University Hospital Essen, 45122 Essen, Germany
| | | | | | | | | | - Bodo Levkau
- Institute for Pathophysiology, West German Heart and Vascular Centre, University Hospital Essen, 45122 Essen, Germany
| | - Jin Wu
- From the Departments of Biochemistry and
| | - David Eliezer
- From the Departments of Biochemistry and , To whom correspondence may be addressed:
Dept. of Biochemistry, Weill Cornell Medical College, 1300 York Ave., New York, NY 10065. Tel.:
212-746-6557; E-mail:
| | - Olga Boudker
- Physiology and Biophysics and ,Howard Hughes Medical Institute, Weill Cornell Medical College, New York, New York 10065 and , To whom correspondence may be addressed:
Dept. of Physiology and Biophysics, Weill Cornell Medical College, 1300 York Ave., New York, NY 10065. Tel.:
212-746-6634; E-mail:
| | - Anant K. Menon
- From the Departments of Biochemistry and , To whom correspondence may be addressed:
Dept. of Biochemistry, Weill Cornell Medical College, 1300 York Ave., New York, NY 10065. Tel.:
646-962-2476; E-mail:
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12
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Solanko LM, Sullivan DP, Sere YY, Szomek M, Lunding A, Solanko KA, Pizovic A, Stanchev LD, Pomorski TG, Menon AK, Wüstner D. Ergosterol is mainly located in the cytoplasmic leaflet of the yeast plasma membrane. Traffic 2018; 19:198-214. [DOI: 10.1111/tra.12545] [Citation(s) in RCA: 50] [Impact Index Per Article: 7.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/23/2016] [Revised: 12/22/2017] [Accepted: 12/22/2017] [Indexed: 12/20/2022]
Affiliation(s)
- Lukasz M. Solanko
- Department of Biochemistry and Molecular BiologyUniversity of Southern Denmark Odense M Denmark
| | - David P. Sullivan
- Department of BiochemistryWeill Cornell Medical College New York, New York
| | - Yves Y. Sere
- Department of BiochemistryWeill Cornell Medical College New York, New York
| | - Maria Szomek
- Department of Biochemistry and Molecular BiologyUniversity of Southern Denmark Odense M Denmark
| | - Anita Lunding
- Department of Biochemistry and Molecular BiologyUniversity of Southern Denmark Odense M Denmark
| | - Katarzyna A. Solanko
- Department of Biochemistry and Molecular BiologyUniversity of Southern Denmark Odense M Denmark
| | - Azra Pizovic
- Department of Biochemistry and Molecular BiologyUniversity of Southern Denmark Odense M Denmark
| | - Lyubomir D. Stanchev
- Department of Plant and Environmental SciencesUniversity of Copenhagen Frederiksberg C Denmark
- Department of Molecular BiochemistryRuhr‐University Bochum Bochum Germany
| | - Thomas Günther Pomorski
- Department of Plant and Environmental SciencesUniversity of Copenhagen Frederiksberg C Denmark
- Department of Molecular BiochemistryRuhr‐University Bochum Bochum Germany
| | - Anant K. Menon
- Department of BiochemistryWeill Cornell Medical College New York, New York
| | - Daniel Wüstner
- Department of Biochemistry and Molecular BiologyUniversity of Southern Denmark Odense M Denmark
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13
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Kasavi C, Eraslan S, Oner ET, Kirdar B. An integrative analysis of transcriptomic response of ethanol tolerant strains to ethanol in Saccharomyces cerevisiae. MOLECULAR BIOSYSTEMS 2016; 12:464-76. [PMID: 26661334 DOI: 10.1039/c5mb00622h] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/21/2023]
Abstract
The accumulation of ethanol is one of the main environmental stresses that Saccharomyces cerevisiae cells are exposed to in industrial alcoholic beverage and bioethanol production processes. Despite the known impacts of ethanol, the molecular mechanisms underlying ethanol tolerance are still not fully understood. Novel gene targets leading to ethanol tolerance were previously identified via a network approach and the investigations of the deletions of these genes resulted in the improved ethanol tolerance of pmt7Δ/pmt7Δ and yhl042wΔ/yhl042wΔ strains. In the present study, an integrative system based approach was used to investigate the global transcriptional changes in these two ethanol tolerant strains in response to ethanol and hence to elucidate the mechanisms leading to the observed tolerant phenotypes. In addition to strain specific biological processes, a number of common and already reported biological processes were found to be affected in the reference and both ethanol tolerant strains. However, the integrative analysis of the transcriptome with the transcriptional regulatory network and the ethanol tolerance network revealed that each ethanol tolerant strain had a specific organization of the transcriptomic response. Transcription factors around which most important changes occur were determined and active subnetworks in response to ethanol and functional clusters were identified in all strains.
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Affiliation(s)
- Ceyda Kasavi
- Department of Chemical Engineering, Boğaziçi University, Istanbul, Turkey.
| | - Serpil Eraslan
- Department of Chemical Engineering, Boğaziçi University, Istanbul, Turkey.
| | - Ebru Toksoy Oner
- Department of Bioengineering, Marmara University, Istanbul, Turkey
| | - Betul Kirdar
- Department of Chemical Engineering, Boğaziçi University, Istanbul, Turkey.
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14
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Yeast ABC transporters in lipid trafficking. Fungal Genet Biol 2016; 93:25-34. [DOI: 10.1016/j.fgb.2016.05.008] [Citation(s) in RCA: 26] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/20/2016] [Revised: 05/28/2016] [Accepted: 05/31/2016] [Indexed: 12/31/2022]
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15
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Gatta AT, Wong LH, Sere YY, Calderón-Noreña DM, Cockcroft S, Menon AK, Levine TP. A new family of StART domain proteins at membrane contact sites has a role in ER-PM sterol transport. eLife 2015; 4. [PMID: 26001273 PMCID: PMC4463742 DOI: 10.7554/elife.07253] [Citation(s) in RCA: 200] [Impact Index Per Article: 20.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/27/2015] [Accepted: 05/20/2015] [Indexed: 12/18/2022] Open
Abstract
Sterol traffic between the endoplasmic reticulum (ER) and plasma membrane (PM) is a fundamental cellular process that occurs by a poorly understood non-vesicular mechanism. We identified a novel, evolutionarily diverse family of ER membrane proteins with StART-like lipid transfer domains and studied them in yeast. StART-like domains from Ysp2p and its paralog Lam4p specifically bind sterols, and Ysp2p, Lam4p and their homologs Ysp1p and Sip3p target punctate ER-PM contact sites distinct from those occupied by known ER-PM tethers. The activity of Ysp2p, reflected in amphotericin-sensitivity assays, requires its second StART-like domain to be positioned so that it can reach across ER-PM contacts. Absence of Ysp2p, Ysp1p or Sip3p reduces the rate at which exogenously supplied sterols traffic from the PM to the ER. Our data suggest that these StART-like proteins act in trans to mediate a step in sterol exchange between the PM and ER. DOI:http://dx.doi.org/10.7554/eLife.07253.001 Membranes are crucial structures for cells that are made primarily of fat molecules. The most important membrane is the external one that surrounds cells and keeps the outside world out and cellular contents in. The single most common fat component in the external membrane is cholesterol, which makes the membrane rigid and better able to withstand the outside world. So even though excess cholesterol contributes to diseases such as heart disease, stroke and Alzheimer's, the external membrane of every cell needs about a billion cholesterol molecules for its normal function. But how do cells manage the traffic of these molecules to their destination? It is known that when external membranes are short of cholesterol they make it at a different cellular location. There is an internal network—called the endoplasmic reticulum—that spreads just about everywhere throughout the cell. This network is where fats like cholesterol are made when the cell has not got enough, and where they are converted into an inert form when the cell has too much. What is not known is how cholesterol moves to and fro between this network and the external membrane. One theory is that cholesterol and other fats move only where the internal network comes into close contact with the external membrane, without quite touching. This theory comes in part from the finding that many of the proteins found in the narrow gaps between the internal network and the external membrane are capable of transferring fats across the gap. However, one of the missing supports for this theory is that no protein that transfers cholesterol across this gap has been found. Gatta, Wong, Sere et al. used computational tools to scan the database of known proteins for those that might be able to transfer cholesterol, and found a new family of fat transfer proteins. Further experiments showed that these proteins only bind to cholesterol out of all the fats. Next, Gatta, Wong, Sere et al. studied what the proteins do in cells, but instead of looking at the proteins in human cells they studied the related proteins in yeast. This is because the details of both the traffic of cholesterol and contacts between the internal network and the external membrane are in many respects understood better in yeast than in human cells. Gatta, Wong, Sere et al. found the cholesterol transfer proteins were embedded in regions where the internal network was in close contact with the external membrane. Also, in cells that lacked these proteins, cholesterol added to the external membrane had difficulty transferring to the internal network. These results together suggest that the newly identified lipid transfer proteins exchange lipids between the plasma membrane and endoplasmic reticulum at membrane contact sites. Further research is required to understand in detail how these proteins work. DOI:http://dx.doi.org/10.7554/eLife.07253.002
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Affiliation(s)
- Alberto T Gatta
- Department of Cell Biology, UCL Institute of Ophthalmology, London, United Kingdom
| | - Louise H Wong
- Department of Cell Biology, UCL Institute of Ophthalmology, London, United Kingdom
| | - Yves Y Sere
- Department of Biochemistry, Weill Cornell Medical College, New York, United States
| | | | - Shamshad Cockcroft
- Department of Neuroscience, Physiology and Pharmacology, University College London, London, United Kingdom
| | - Anant K Menon
- Department of Biochemistry, Weill Cornell Medical College, New York, United States
| | - Tim P Levine
- Department of Cell Biology, UCL Institute of Ophthalmology, London, United Kingdom
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16
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Marek M, Silvestro D, Fredslund MD, Andersen TG, Pomorski TG. Serum albumin promotes ATP-binding cassette transporter-dependent sterol uptake in yeast. FEMS Yeast Res 2014; 14:1223-33. [DOI: 10.1111/1567-1364.12219] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/25/2014] [Revised: 09/21/2014] [Accepted: 10/08/2014] [Indexed: 12/23/2022] Open
Affiliation(s)
- Magdalena Marek
- Centre for Membrane Pumps in Cells and Disease - PUMPKIN; Department of Plant and Environmental Sciences; University of Copenhagen; Frederiksberg C Denmark
| | - Daniele Silvestro
- Copenhagen Plant Science Center and the VILLUM Research Center ‘Plant Plasticity’; Department of Plant and Environmental Sciences; University of Copenhagen; Frederiksberg C, Copenhagen Denmark
| | - Maria D. Fredslund
- Centre for Membrane Pumps in Cells and Disease - PUMPKIN; Department of Plant and Environmental Sciences; University of Copenhagen; Frederiksberg C Denmark
| | - Tonni G. Andersen
- Department of Plant Molecular Biology, Biophore, UNIL-Sorge; University of Lausanne; Lausanne Switzerland
| | - Thomas G. Pomorski
- Centre for Membrane Pumps in Cells and Disease - PUMPKIN; Department of Plant and Environmental Sciences; University of Copenhagen; Frederiksberg C Denmark
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17
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Fatty Acid Composition in Ergosteryl Esters and Triglycerides from the Fungus Ganoderma lucidum. J AM OIL CHEM SOC 2013. [DOI: 10.1007/s11746-013-2296-y] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/26/2022]
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18
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Jacquier N, Schneiter R. Mechanisms of sterol uptake and transport in yeast. J Steroid Biochem Mol Biol 2012; 129:70-8. [PMID: 21145395 DOI: 10.1016/j.jsbmb.2010.11.014] [Citation(s) in RCA: 79] [Impact Index Per Article: 6.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 07/12/2010] [Revised: 11/12/2010] [Accepted: 11/30/2010] [Indexed: 11/21/2022]
Abstract
Sterols are essential lipid components of eukaryotic membranes. Here we summarize recent advances in understanding how sterols are transported between different membranes. Baker's yeast is a particularly attractive organism to dissect this lipid transport pathway, because cells can synthesize their own major sterol, ergosterol, in the membrane of the endoplasmic reticulum from where it is then transported to the plasma membrane. However, Saccharomyces cerevisiae is also a facultative anaerobic organism, which becomes sterol auxotroph in the absence of oxygen. Under these conditions, cells take up sterol from the environment and transport the lipid back into the membrane of the endoplasmic reticulum, where the free sterol becomes esterified and is then stored in lipid droplets. Steryl ester formation is thus a reliable readout to assess the back-transport of exogenously provided sterols from the plasma membrane to the endoplasmic reticulum. Structure/function analysis has revealed that the bulk membrane function of the fungal ergosterol can be provided by structurally related sterols, including the mammalian cholesterol. Foreign sterols, however, are subject to a lipid quality control cycle in which the sterol is reversibly acetylated. Because acetylated sterols are efficiently excreted from cells, the substrate specificity of the deacetylating enzymes determines which sterols are retained. Membrane-bound acetylated sterols are excreted by the secretory pathway, more soluble acetylated sterol derivatives such as the steroid precursor pregnenolone, on the other hand, are excreted by a pathway that is independent of vesicle formation and fusion. Further analysis of this lipid quality control cycle is likely to reveal novel insight into the mechanisms that ensure sterol homeostasis in eukaryotic cells. Article from a special issue on Steroids and Microorganisms.
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Affiliation(s)
- Nicolas Jacquier
- Department of Medicine, Division of Biochemistry, University of Fribourg, Fribourg, Switzerland
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19
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Beh CT, McMaster CR, Kozminski KG, Menon AK. A detour for yeast oxysterol binding proteins. J Biol Chem 2012; 287:11481-8. [PMID: 22334669 DOI: 10.1074/jbc.r111.338400] [Citation(s) in RCA: 57] [Impact Index Per Article: 4.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022] Open
Abstract
Oxysterol binding protein-related proteins, including the yeast proteins encoded by the OSH gene family (OSH1-OSH7), are implicated in the non-vesicular transfer of sterols between intracellular membranes and the plasma membrane. In light of recent studies, we revisited the proposal that Osh proteins are sterol transfer proteins and present new models consistent with known Osh protein functions. These models focus on the role of Osh proteins as sterol-dependent regulators of phosphoinositide and sphingolipid pathways. In contrast to their posited role as non-vesicular sterol transfer proteins, we propose that Osh proteins coordinate lipid signaling and membrane reorganization with the assembly of tethering complexes to promote molecular exchanges at membrane contact sites.
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Affiliation(s)
- Christopher T Beh
- Department of Molecular Biology and Biochemistry, Simon Fraser University, Burnaby, British Columbia V5A 1S6, Canada.
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20
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Georgiev AG, Sullivan DP, Kersting MC, Dittman JS, Beh CT, Menon AK. Osh proteins regulate membrane sterol organization but are not required for sterol movement between the ER and PM. Traffic 2011; 12:1341-55. [PMID: 21689253 DOI: 10.1111/j.1600-0854.2011.01234.x] [Citation(s) in RCA: 105] [Impact Index Per Article: 7.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/06/2023]
Abstract
Sterol transport between the endoplasmic reticulum (ER) and plasma membrane (PM) occurs by an ATP-dependent, non-vesicular mechanism that is presumed to require sterol transport proteins (STPs). In Saccharomyces cerevisiae, homologs of the mammalian oxysterol-binding protein (Osh1-7) have been proposed to function as STPs. To evaluate this proposal we took two approaches. First we used dehydroergosterol (DHE) to visualize sterol movement in living cells by fluorescence microscopy. DHE was introduced into the PM under hypoxic conditions and observed to redistribute to lipid droplets on growing the cells aerobically. Redistribution required ATP and the sterol acyltransferase Are2, but did not require PM-derived transport vesicles. DHE redistribution occurred robustly in a conditional yeast mutant (oshΔ osh4-1(ts)) that lacks all functional Osh proteins at 37°C. In a second approach we used a pulse-chase protocol to analyze the movement of metabolically radiolabeled ergosterol from the ER to the PM. Arrival of radiolabeled ergosterol at the PM was assessed in isolated PM-enriched fractions as well as by extracting sterols from intact cells with methyl-β-cyclodextrin. These experiments revealed that whereas ergosterol is transported effectively from the ER to the PM in Osh-deficient cells, the rate at which it moves within the PM to equilibrate with the methyl-β-cyclodextrin extractable sterol pool is slowed. We conclude (i) that the role of Osh proteins in non-vesicular sterol transport between the PM, ER and lipid droplets is either minimal, or subsumed by other mechanisms and (ii) that Osh proteins regulate the organization of sterols at the PM.
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21
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Munkacsi AB, Chen FW, Brinkman MA, Higaki K, Gutiérrez GD, Chaudhari J, Layer JV, Tong A, Bard M, Boone C, Ioannou YA, Sturley SL. An "exacerbate-reverse" strategy in yeast identifies histone deacetylase inhibition as a correction for cholesterol and sphingolipid transport defects in human Niemann-Pick type C disease. J Biol Chem 2011; 286:23842-51. [PMID: 21489983 PMCID: PMC3129166 DOI: 10.1074/jbc.m111.227645] [Citation(s) in RCA: 59] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/07/2011] [Revised: 04/11/2011] [Indexed: 11/06/2022] Open
Abstract
Niemann-Pick type C (NP-C) disease is a fatal lysosomal lipid storage disorder for which no effective therapy exists. A genome-wide, conditional synthetic lethality screen was performed using the yeast model of NP-C disease during anaerobiosis, an auxotrophic condition that requires yeast to utilize exogenous sterol. We identified 12 pathways and 13 genes as modifiers of the absence of the yeast NPC1 ortholog (NCR1) and quantified the impact of loss of these genes on sterol metabolism in ncr1Δ strains grown under viable aerobic conditions. Deletion of components of the yeast NuA4 histone acetyltransferase complex in ncr1Δ strains conferred anaerobic inviability and accumulation of multiple sterol intermediates. Thus, we hypothesize an imbalance in histone acetylation in human NP-C disease. Accordingly, we show that the majority of the 11 histone deacetylase (HDAC) genes are transcriptionally up-regulated in three genetically distinct fibroblast lines derived from patients with NP-C disease. A clinically approved HDAC inhibitor (suberoylanilide hydroxamic acid) reverses the dysregulation of the majority of the HDAC genes. Consequently, three key cellular diagnostic criteria of NP-C disease are dramatically ameliorated as follows: lysosomal accumulation of both cholesterol and sphingolipids and defective esterification of LDL-derived cholesterol. These data suggest HDAC inhibition as a candidate therapy for NP-C disease. We conclude that pathways that exacerbate lethality in a model organism can be reversed in human cells as a novel therapeutic strategy. This "exacerbate-reverse" approach can potentially be utilized in any model organism for any disease.
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Affiliation(s)
| | - Fannie W. Chen
- the Department of Genetics and Genomic Sciences, Mount Sinai School of Medicine, New York, New York 10029
| | | | - Katsumi Higaki
- the Division of Functional Genomics, Research Center for Bioscience and Technology, Tottori University, Yonago 683-8503, Japan
| | | | - Jagruti Chaudhari
- the Department of Genetics and Genomic Sciences, Mount Sinai School of Medicine, New York, New York 10029
| | - Jacob V. Layer
- the Department of Biology, Indiana University-Purdue University, Indianapolis, Indiana 46202, and
| | - Amy Tong
- the Banting and Best Department of Medical Research and Department of Molecular Genetics and Microbiology, Terrence Donnelly Center for Cellular and Biomolecular Research, University of Toronto, Toronto, Ontario M5S 3E1, Canada
| | - Martin Bard
- the Department of Biology, Indiana University-Purdue University, Indianapolis, Indiana 46202, and
| | - Charles Boone
- the Banting and Best Department of Medical Research and Department of Molecular Genetics and Microbiology, Terrence Donnelly Center for Cellular and Biomolecular Research, University of Toronto, Toronto, Ontario M5S 3E1, Canada
| | - Yiannis A. Ioannou
- the Department of Genetics and Genomic Sciences, Mount Sinai School of Medicine, New York, New York 10029
| | - Stephen L. Sturley
- From the Department of Pediatrics and
- Institute of Human Nutrition, Columbia University Medical Center, New York, New York 10032
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22
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Ho CK, Lam AF, Symington LS. Identification of nucleases and phosphatases by direct biochemical screen of the Saccharomyces cerevisiae proteome. PLoS One 2009; 4:e6993. [PMID: 19753119 PMCID: PMC2737285 DOI: 10.1371/journal.pone.0006993] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/09/2009] [Accepted: 08/19/2009] [Indexed: 11/23/2022] Open
Abstract
The availability of yeast strain collections expressing individually tagged proteins to facilitate one-step purification provides a powerful approach to identify proteins with particular biochemical activities. To identify novel exo- and endo-nucleases that might function in DNA repair, we undertook a proteomic screen making use of the movable ORF (MORF) library of yeast expression plasmids. This library consists of 5,854 yeast strains each expressing a unique yeast ORF fused to a tripartite tag consisting of His6, an HA epitope, a protease 3C cleavage site, and the IgG-binding domain (ZZ) from protein A, under the control of the GAL1 promoter for inducible expression. Pools of proteins were partially purified on IgG sepharose and tested for nuclease activity using three different radiolabeled DNA substrates. Several known nucleases and phosphatases were identified, as well as two new members of the histidine phosphatase superfamily, which includes phosphoglycerate mutases and phosphatases. Subsequent characterization revealed YDR051c/Det1 to be an acid phosphatase with broad substrate specificity, whereas YOR283w has a broad pH range and hydrolyzes hydrophilic phosphorylated substrates. Although no new nuclease activities were identified from this screen, we did find phosphatase activity associated with a protein of unknown function, YOR283w, and with the recently characterized protein Det1. This knowledge should guide further genetic and biochemical characterization of these proteins.
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Affiliation(s)
- Chu Kwen Ho
- Department of Microbiology, Columbia University College of Physicians & Surgeons, New York, New York, United States of America
| | - Alicia F. Lam
- Department of Microbiology, Columbia University College of Physicians & Surgeons, New York, New York, United States of America
| | - Lorraine S. Symington
- Department of Microbiology, Columbia University College of Physicians & Surgeons, New York, New York, United States of America
- * E-mail:
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23
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Current awareness on yeast. Yeast 2009. [DOI: 10.1002/yea.1622] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022] Open
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24
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Intracellular sterol dynamics. Biochim Biophys Acta Mol Cell Biol Lipids 2009; 1791:636-45. [PMID: 19286471 DOI: 10.1016/j.bbalip.2009.03.002] [Citation(s) in RCA: 193] [Impact Index Per Article: 12.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/23/2008] [Revised: 02/27/2009] [Accepted: 03/03/2009] [Indexed: 01/17/2023]
Abstract
We review the cellular mechanisms implicated in cholesterol trafficking and distribution. Recent studies have provided new information about the distribution of sterols within cells, including analysis of its transbilayer distribution. The cholesterol interaction with other lipids and its engagement in various trafficking processes will determine its proper level in a specific membrane; making the cholesterol distribution uneven among the various intracellular organelles. The cholesterol content is important since cholesterol plays an essential role in membranes by controlling their physicochemical properties as well as key cellular events such as signal transduction and protein trafficking. Cholesterol movement between cellular organelles is highly dynamic, and can be achieved by vesicular and non-vesicular processes. Various studies have analyzed the proteins that play a significant role in these processes, giving us new information about the relative importance of these two trafficking pathways in cholesterol transport. Although still poorly characterized in many trafficking routes, several potential sterol transport proteins have been described in detail; as a result, molecular mechanisms for sterol transport among membranes start to be appreciated.
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