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Kalebina TS, Rekstina VV, Pogarskaia EE, Kulakovskaya T. Importance of Non-Covalent Interactions in Yeast Cell Wall Molecular Organization. Int J Mol Sci 2024; 25:2496. [PMID: 38473742 DOI: 10.3390/ijms25052496] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/22/2023] [Revised: 02/07/2024] [Accepted: 02/16/2024] [Indexed: 03/14/2024] Open
Abstract
This review covers a group of non-covalently associated molecules, particularly proteins (NCAp), incorporated in the yeast cell wall (CW) with neither disulfide bridges with proteins covalently attached to polysaccharides nor other covalent bonds. Most NCAp, particularly Bgl2, are polysaccharide-remodeling enzymes. Either directly contacting their substrate or appearing as CW lipid-associated molecules, such as in vesicles, they represent the most movable enzymes and may play a central role in CW biogenesis. The absence of the covalent anchoring of NCAp allows them to be there where and when it is necessary. Another group of non-covalently attached to CW molecules are polyphosphates (polyP), the universal regulators of the activity of many enzymes. These anionic polymers are able to form complexes with metal ions and increase the diversity of non-covalent interactions through charged functional groups with both proteins and polysaccharides. The mechanism of regulation of polysaccharide-remodeling enzyme activity in the CW is unknown. We hypothesize that polyP content in the CW is regulated by another NCAp of the CW-acid phosphatase-which, along with post-translational modifications, may thus affect the activity, conformation and compartmentalization of Bgl2 and, possibly, some other polysaccharide-remodeling enzymes.
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Affiliation(s)
- Tatyana S Kalebina
- Department of Molecular Biology, Faculty of Biology, Lomonosov Moscow State University, Moscow 119991, Russia
| | - Valentina V Rekstina
- Department of Molecular Biology, Faculty of Biology, Lomonosov Moscow State University, Moscow 119991, Russia
| | - Elizaveta E Pogarskaia
- Department of Molecular Biology, Faculty of Biology, Lomonosov Moscow State University, Moscow 119991, Russia
| | - Tatiana Kulakovskaya
- Federal Research Center "Pushchino Scientific Center for Biological Research of the Russian Academy of Sciences", Skryabin Institute of Biochemistry and Physiology of Microorganisms, Pushchino 142290, Russia
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Zvonarev AN, Trilisenko LV, Farofonova VV, Kulakovskaya EV, Abashina TN, Dmitriev VV, Kulakovskaya T. The Extracellular Vesicles Containing Inorganic Polyphosphate of Candida Yeast upon Growth on Hexadecane. J Xenobiot 2023; 13:529-543. [PMID: 37873811 PMCID: PMC10594515 DOI: 10.3390/jox13040034] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/31/2023] [Revised: 09/16/2023] [Accepted: 09/21/2023] [Indexed: 10/25/2023] Open
Abstract
The cell wall of Candida yeast grown on presence of hexadecane as a sole carbon source undergoes structural and functional changes including the formation of specific supramolecular complexes-canals. The canals contain specific polysaccharides and enzymes that provide primary oxidization of alkanes. In addition, inorganic polyphosphate (polyP) was identified in Candida maltosa canals. The aim of the work was a comparative study of the features of cell walls and extracellular structures in yeast C. maltosa, C. albicans and C. tropicalis with special attention to inorganic polyphosphates as possible part of these structures when grown on the widely used xenobiotic hexadecane (diesel fuel). Fluorescence microscopy with DAPI has shown an unusual localization of polyP on the cell surface and in the exovesicles in the three yeast species, when growing on hexadecane. Electron-scanning microscopy showed that the exovesicles were associated with the cell wall and also presented in the external environment probably as biofilm components. Treatment of hexadecane-grown cells with purified Ppx1 polyphosphatase led to the release of phosphate into the incubation medium and the disappearance of polyP in vesicles and cell wall observed using microscopic methods. The results indicate the important role of polyP in the formation of extracellular structures in the Candida yeast when consuming hexadecane and are important for the design of xenobiotic destructors based on yeast or mixed cultures.
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Affiliation(s)
- Anton N. Zvonarev
- Federal Research Center “Pushchino Scientific Center for Biological Research of the Russian Academy of Sciences”, Skryabin Institute of Biochemistry and Physiology of Microorganisms, 142290 Pushchino, Russia; (A.N.Z.); (L.V.T.); (E.V.K.); (V.V.D.); (T.K.)
| | - Ludmila V. Trilisenko
- Federal Research Center “Pushchino Scientific Center for Biological Research of the Russian Academy of Sciences”, Skryabin Institute of Biochemistry and Physiology of Microorganisms, 142290 Pushchino, Russia; (A.N.Z.); (L.V.T.); (E.V.K.); (V.V.D.); (T.K.)
| | - Vasilina V. Farofonova
- Federal Research Center “Pushchino Scientific Center for Biological Research of the Russian Academy of Sciences”, Institute for Biological Instrumentation of the Russian Academy of Sciences, 142290 Pushchino, Russia;
| | - Ekaterina V. Kulakovskaya
- Federal Research Center “Pushchino Scientific Center for Biological Research of the Russian Academy of Sciences”, Skryabin Institute of Biochemistry and Physiology of Microorganisms, 142290 Pushchino, Russia; (A.N.Z.); (L.V.T.); (E.V.K.); (V.V.D.); (T.K.)
| | - Tatiana N. Abashina
- Federal Research Center “Pushchino Scientific Center for Biological Research of the Russian Academy of Sciences”, Skryabin Institute of Biochemistry and Physiology of Microorganisms, 142290 Pushchino, Russia; (A.N.Z.); (L.V.T.); (E.V.K.); (V.V.D.); (T.K.)
| | - Vladimir V. Dmitriev
- Federal Research Center “Pushchino Scientific Center for Biological Research of the Russian Academy of Sciences”, Skryabin Institute of Biochemistry and Physiology of Microorganisms, 142290 Pushchino, Russia; (A.N.Z.); (L.V.T.); (E.V.K.); (V.V.D.); (T.K.)
| | - Tatiana Kulakovskaya
- Federal Research Center “Pushchino Scientific Center for Biological Research of the Russian Academy of Sciences”, Skryabin Institute of Biochemistry and Physiology of Microorganisms, 142290 Pushchino, Russia; (A.N.Z.); (L.V.T.); (E.V.K.); (V.V.D.); (T.K.)
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Kalebina TS, Kulakovskaya EV, Rekstina VV, Trilisenko LV, Ziganshin RH, Marmiy NV, Esipov DS, Kulakovskaya TV. Effect of Deletions of the Genes Encoding Pho3p and Bgl2p on Polyphosphate Level, Stress Adaptation, and Attachments of These Proteins to Saccharomyces cerevisiae Cell Wall. BIOCHEMISTRY (MOSCOW) 2023; 88:152-161. [PMID: 37068877 DOI: 10.1134/s0006297923010133] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 02/19/2023]
Abstract
Inorganic polyphosphates (polyP), according to literature data, are involved in the regulatory processes of molecular complex of the Saccharomyces cerevisiae cell wall (CW). The aim of the work was to reveal relationship between polyP, acid phosphatase Pho3p, and the major CW protein, glucanosyltransglycosylase Bgl2p, which is the main glucan-remodelling enzyme with amyloid properties. It has been shown that the yeast cells with deletion of the PHO3 gene contain more high molecular alkali-soluble polyP and are also more resistant to exposure to alkali and manganese ions compared to the wild type strain. This suggests that Pho3p is responsible for hydrolysis of the high molecular polyP on the surface of yeast cells, and these polyP belong to the stress resistance factors. The S. cerevisiae strain with deletion of the BGL2 gene is similar to the Δpho3 strain both in the level of high molecular alkali-soluble polyP and in the increased resistance to alkali and manganese. Comparative analysis of the CW proteins demonstrated correlation between the extractability of the acid phosphatase and Bgl2p, and also revealed a change in the mode of Bgl2p attachment to the CW of the strain lacking Pho3p. It has been suggested that Bgl2p and Pho3p are able to form a metabolon or its parts that connects biogenesis of the main structural polymer of the CW, glucan, and catabolism of an important regulatory polymer, polyphosphates.
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Affiliation(s)
- Tatyana S Kalebina
- Department of Molecular Biology, Faculty of Biology, Lomonosov Moscow State University, Moscow, 119234, Russia.
| | - Ekaterina V Kulakovskaya
- Federal Research Center "Pushchino Scientific Center for Biological Research of the Russian Academy of Sciences", Skryabin Institute of Biochemistry and Physiology of Microorganisms, Pushchino, 142290, Russia
| | - Valentina V Rekstina
- Department of Molecular Biology, Faculty of Biology, Lomonosov Moscow State University, Moscow, 119234, Russia
| | - Ludmila V Trilisenko
- Federal Research Center "Pushchino Scientific Center for Biological Research of the Russian Academy of Sciences", Skryabin Institute of Biochemistry and Physiology of Microorganisms, Pushchino, 142290, Russia
| | - Rustam H Ziganshin
- Shemyakin and Ovchinnikov Institute of Bioorganic Chemistry, Russian Academy of Sciences, Moscow, 117997, Russia
| | - Natalia V Marmiy
- Institute of Mitoengineering, Lomonosov Moscow State University, Moscow, 119992, Russia
| | - Dmitriy S Esipov
- Department of Bioorganic Chemistry, Faculty of Biology, Lomonosov Moscow State University, Moscow, 119234, Russia
| | - Tatiana V Kulakovskaya
- Federal Research Center "Pushchino Scientific Center for Biological Research of the Russian Academy of Sciences", Skryabin Institute of Biochemistry and Physiology of Microorganisms, Pushchino, 142290, Russia
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Kulakovskaya TV, Andreeva NA, Ledova LA, Ryazanova LP, Trilisenko LV, Eldarov MA. Enzymes of Polyphosphate Metabolism in Yeast: Properties, Functions, Practical Significance. BIOCHEMISTRY (MOSCOW) 2021; 86:S96-S108. [PMID: 33827402 DOI: 10.1134/s0006297921140078] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 02/06/2023]
Abstract
Inorganic polyphosphates (polyP) are the linear polymers of orthophosphoric acid varying in the number of phosphate residues linked by the energy-rich phosphoanhydride bonds. PolyP is an essential component in living cells. Knowledge of polyP metabolizing enzymes in eukaryotes is necessary for understanding molecular mechanisms of polyP metabolism in humans and development of new approaches for treating bone and cardiovascular diseases associated with impaired mineral phosphorus metabolism. Yeast cells represent a rational experimental model for this research due to availability of the methods for studying phosphorus metabolism and construction of knockout mutants and strains overexpressing target proteins. Multicomponent system of polyP metabolism in Saccharomyces cerevisiae cells is presented in this review discussing properties, functioning, and practical significance of the enzymes involved in the synthesis and degradation of this important metabolite.
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Affiliation(s)
- Tatiana V Kulakovskaya
- Skryabin Institute of Biochemistry and Physiology of Microorganisms, Pushchino Research Center for Biology, Russian Academy of Sciences, Pushchino, Moscow Region, 142290, Russia.
| | - Nadezhda A Andreeva
- Skryabin Institute of Biochemistry and Physiology of Microorganisms, Pushchino Research Center for Biology, Russian Academy of Sciences, Pushchino, Moscow Region, 142290, Russia
| | - Larisa A Ledova
- Skryabin Institute of Biochemistry and Physiology of Microorganisms, Pushchino Research Center for Biology, Russian Academy of Sciences, Pushchino, Moscow Region, 142290, Russia
| | - Lubov P Ryazanova
- Skryabin Institute of Biochemistry and Physiology of Microorganisms, Pushchino Research Center for Biology, Russian Academy of Sciences, Pushchino, Moscow Region, 142290, Russia
| | - Ludmila V Trilisenko
- Skryabin Institute of Biochemistry and Physiology of Microorganisms, Pushchino Research Center for Biology, Russian Academy of Sciences, Pushchino, Moscow Region, 142290, Russia
| | - Michail A Eldarov
- Institute of Bioengineering, Federal Scientific Center for Biotechnology, Russian Academy of Sciences, Moscow, 117312, Russia
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Changes in cell wall structure and protein set in Candida maltosa grown on hexadecane. Folia Microbiol (Praha) 2020; 66:247-253. [PMID: 33247329 DOI: 10.1007/s12223-020-00840-2] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/24/2020] [Accepted: 11/18/2020] [Indexed: 10/22/2022]
Abstract
The yeast Candida maltosa is a model organism for studying adaptive changes in the structure and function of the cell wall when consuming water-insoluble nutrient sources. The cells of C. maltosa that utilize hydrocarbons contain supramolecular structures, so-called "canals" in the cell wall. Differences in protein profiles of culture liquids and cell wall extracts of C. maltosa grown on glucose and hexadecane were analyzed. Three proteins specific of cells grown on hexadecane were revealed using mass spectrometry: glycosyl hydrolase EPD2 in the culture liquid; a protein belonging to the cytochrome C family in the 0.5 mol/L NaCl extract; and PPIA_CANAL protein known as chaperone, in the 0.1% SDS extract. The possible role of these proteins in cell wall structures responsible for adaptation to hexadecane utilization is discussed.
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Andreeva N, Ledova L, Ryazanova L, Tomashevsky A, Kulakovskaya T, Eldarov M. Ppn2 endopolyphosphatase overexpressed in Saccharomyces cerevisiae: Comparison with Ppn1, Ppx1, and Ddp1 polyphosphatases. Biochimie 2019; 163:101-107. [DOI: 10.1016/j.biochi.2019.06.001] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/24/2019] [Accepted: 06/03/2019] [Indexed: 12/17/2022]
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Andreeva N, Ledova L, Ryasanova L, Kulakovskaya T, Eldarov M. The acid phosphatase Pho5 of Saccharomyces cerevisiae is not involved in polyphosphate breakdown. Folia Microbiol (Praha) 2019; 64:867-873. [PMID: 30937822 DOI: 10.1007/s12223-019-00702-6] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/22/2018] [Accepted: 03/25/2019] [Indexed: 01/05/2023]
Abstract
Inorganic polyphosphate is involved in architecture and functioning of yeast cell wall. The strain of Saccharomyces cerevisiae constitutively overexpressing acid phosphatase Pho5 was constructed for studying the Pho5 properties and its possible participation in polyphosphate metabolism. The parent strain was transformed by the vector carrying the PHO5 gene under a strong constitutive promoter of glyceraldehyde-3-phosphate dehydrogenase of S. cerevisiae. The culture liquid and biomass of transformant strain contained approximately equal total acid phosphatase activity. The levels of acid phosphatase activity associated with the cell wall and culture liquid increased in the transformant strain compared to the parent strain ~ 10- and 20-fold, respectively. The Pho5 preparation (specific activity of 46 U/mg protein and yield of 95 U/L) was obtained from culture liquid of overproducing strain. The overproducing strain had no changes in polyphosphate level. The activity of Pho5 with long-chained polyP was negligible. We concluded that Pho5 is not involved in polyphosphate metabolism. Purified Pho5 showed a similar activity with p-nitrophenylphosphate, ATP, ADP, glycerophosphate, and glucose-6-phosphate. The substrate specificity of Pho5 and its extracellular localization suggest its function: the hydrolysis of organic compounds with phosphoester bonds at phosphate limitation.
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Affiliation(s)
- Nadeshda Andreeva
- FRC Pushchino Center for Biological Research, Skryabin Institute of Biochemistry and Physiology of Microorganisms, Russian Academy of Sciences, pr. Nauki 5, Pushchino, Moscow region, 142290, Russia
| | - Larisa Ledova
- FRC Pushchino Center for Biological Research, Skryabin Institute of Biochemistry and Physiology of Microorganisms, Russian Academy of Sciences, pr. Nauki 5, Pushchino, Moscow region, 142290, Russia
| | - Lubov Ryasanova
- FRC Pushchino Center for Biological Research, Skryabin Institute of Biochemistry and Physiology of Microorganisms, Russian Academy of Sciences, pr. Nauki 5, Pushchino, Moscow region, 142290, Russia
| | - Tatiana Kulakovskaya
- FRC Pushchino Center for Biological Research, Skryabin Institute of Biochemistry and Physiology of Microorganisms, Russian Academy of Sciences, pr. Nauki 5, Pushchino, Moscow region, 142290, Russia.
| | - Michail Eldarov
- Institute of Bioengineering, Research Center of Biotechnology of the Russian Academy of Sciences, Leninsky prosp. 33-2, Moscow, 119071, Russia
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