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Karal MAS, Billah MM, Nasrin T, Moniruzzaman M. Interaction of anionic Fe 3O 4 nanoparticles with lipid vesicles: a review on deformation and poration under various conditions. RSC Adv 2024; 14:25986-26001. [PMID: 39161454 PMCID: PMC11331399 DOI: 10.1039/d4ra05686h] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/05/2024] [Accepted: 08/10/2024] [Indexed: 08/21/2024] Open
Abstract
This review focuses on the deformation and poration of lipid vesicles caused by the interaction of anionic magnetite nanoparticles (MNPs). Effects of various factors, such as surface charge density, salt and sugar concentrations in buffer, membrane cholesterol content, polymer-grafted phospholipid, and membrane potential have been discussed for the interaction of MNPs with lipid vesicles. To quantify these effects on the vesicles, compactness, fraction of deformation and poration, dynamics of membrane permeation, and kinetics of membrane permeation have been critically evaluated. The review explores the potential advancements as well as future directions of the research field in the biomedical application of MNPs.
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Affiliation(s)
- Mohammad Abu Sayem Karal
- Department of Physics, Bangladesh University of Engineering and Technology Dhaka 1000 Bangladesh +880-2-58613046 +880-2-9665613
| | - Md Masum Billah
- Department of Physics, Jashore University of Science and Technology Jashore 7408 Bangladesh +880-2-42142012 +880-242142046
| | - Tawfika Nasrin
- Department of Physics, Bangladesh University of Engineering and Technology Dhaka 1000 Bangladesh +880-2-58613046 +880-2-9665613
| | - Md Moniruzzaman
- Department of Physics, Bangladesh University of Engineering and Technology Dhaka 1000 Bangladesh +880-2-58613046 +880-2-9665613
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Karal MAS, Billah MM, Ahamed MK. Determination of pore edge tension from the kinetics of rupture of giant unilamellar vesicles using the Arrhenius equation: effects of sugar concentration, surface charge and cholesterol. Phys Chem Chem Phys 2024; 26:6107-6117. [PMID: 38299672 DOI: 10.1039/d3cp04451c] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/02/2024]
Abstract
The pore edge tension (Γ) of a membrane closely intertwines with membrane stability and plays a vital role in the mechanisms that facilitate membrane resealing following pore formation caused by electrical and mechanical tensions. We have explored a straightforward procedure to determine Γ by fitting the inverse of the tension-dependent logarithm of the rate constant of rupture of giant unilamellar vesicles (GUVs) using the Arrhenius equation. The GUVs were prepared using a combination of 1,2-dioleoyl-sn-glycero-3-phospho-(1'-rac-glycerol) (DOPG) and 1, 2-dioleoyl-sn-glycero-3-phosphocholine (DOPC) in a physiological environment. The effects of sugar concentration, membrane surface charge density, and membrane cholesterol concentration on Γ have been investigated. The values of Γ increase with sugar concentration in the physiological buffer, measuring 9.6 ± 0.3, 10.4 ± 0.1, and 16.2 ± 0.1 pN for 40, 100, and 300 mM, respectively. A higher concentration of anionic lipids (70 mol% of DOPG) significantly reduces Γ. An increasing trend of Γ with cholesterol content was observed; specifically, the values of Γ were 11.9 ± 0.9, 13.9 ± 0.7, and 16.2 ± 0.4 pN for 15, 29, and 40 mol% cholesterol, respectively. Thus, the presence of higher anionic lipids in the bilayer led to a decrease in membrane stability. In contrast, the presence of higher sugar concentrations in the buffer and increased cholesterol concentration in the membranes enhanced membrane stability.
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Affiliation(s)
- Mohammad Abu Sayem Karal
- Department of Physics, Bangladesh University of Engineering and Technology, Dhaka 1000, Bangladesh.
| | - Md Masum Billah
- Department of Physics, Jashore University of Science and Technology, Jashore 7408, Bangladesh
| | - Md Kabir Ahamed
- Radiation, Transport and Waste Safety Division, Bangladesh Atomic Energy Regulatory Authority, Agargaon, Dhaka 1207, Bangladesh
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Kobayashi M, Noguchi H, Sato G, Watanabe C, Fujiwara K, Yanagisawa M. Phase-Separated Giant Liposomes for Stable Elevation of α-Hemolysin Concentration in Lipid Membranes. LANGMUIR : THE ACS JOURNAL OF SURFACES AND COLLOIDS 2023; 39:11481-11489. [PMID: 37531551 DOI: 10.1021/acs.langmuir.3c02019] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 08/04/2023]
Abstract
Staphylococcus aureus α-hemolysin (αHL) is one of the most popular proteins in nanopore experiments within lipid membranes. Higher concentrations of αHL within the lipid membrane are desirable to enhance the mass transport capacity through nanopores. However, the reconstitution of αHL at high concentrations is associated with the problem of membrane lytic disruption. In this study, we present a method that effectively increases αHL concentration while maintaining membrane stability. This method is achieved by using phase-separated giant liposomes, where coexisting liquid-disordered (Ld) and liquid-ordered phases (Lo) are enriched in unsaturated lipids and saturated lipids with cholesterol (Chol), respectively. Fluorescence observation of αHL in liposomes revealed that the presence of Chol facilitates αHL insertion into the membrane. Despite the preferential localization of αHL in the Ld phase rather than the Lo phase, the coexistence of both Lo and Ld phases prevents membrane disruption in the presence of concentrated αHL. We have explained this stabilization mechanism considering the lower membrane tension exhibited by phase-separated liposomes compared to homogeneous liposomes. Under hypertonic conditions, we have successfully increased the local concentration of αHL by invagination of the lipid-only region in the Ld phase, leaving αHL behind. This method exhibits potential for the reconstitution of various nanochannels and membrane proteins that prefer the Ld phase over the Lo phase, thus enabling the production of giant liposomes at high concentrations and the replication of the membrane-crowding condition observed in cells.
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Affiliation(s)
- Mizuki Kobayashi
- Department of Applied Physics, Tokyo University of Agriculture and Technology, Koganei, Tokyo 184-8588, Japan
- Graduate School of Arts and Sciences, Komaba Institute for Science, The University of Tokyo, Komaba, Meguro, Tokyo 153-8902, Japan
| | - Hiroshi Noguchi
- Institute for Solid State Physics, The University of Tokyo, Kashiwa, Chiba 277-8581, Japan
- Graduate School of Science, The University of Tokyo, Hongo, Bunkyo, Tokyo 113-0033, Japan
| | - Gaku Sato
- Department of Biosciences and Informatics, Keio University, Kohoku-ku, Yokohama 223-8522, Japan
| | - Chiho Watanabe
- Graduate School of Arts and Sciences, Komaba Institute for Science, The University of Tokyo, Komaba, Meguro, Tokyo 153-8902, Japan
- School of Integrated Arts and Sciences, Graduate School of Integrated Sciences for Life, Hiroshima University, Kagamiyama, Higashi, Hiroshima 739-8521, Japan
| | - Kei Fujiwara
- Department of Biosciences and Informatics, Keio University, Kohoku-ku, Yokohama 223-8522, Japan
| | - Miho Yanagisawa
- Graduate School of Arts and Sciences, Komaba Institute for Science, The University of Tokyo, Komaba, Meguro, Tokyo 153-8902, Japan
- Graduate School of Science, The University of Tokyo, Hongo, Bunkyo, Tokyo 113-0033, Japan
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Investigation of the effects of N-Acetylglucosamine on the stability of the spike protein in SARS-CoV-2 by molecular dynamics simulations. COMPUT THEOR CHEM 2023; 1222:114049. [PMID: 36743995 PMCID: PMC9890939 DOI: 10.1016/j.comptc.2023.114049] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/02/2022] [Revised: 01/22/2023] [Accepted: 01/25/2023] [Indexed: 02/04/2023]
Abstract
A lot of effort has been made in developing vaccine and therapeutic agents against the SARS-CoV-2, concentrating on the Spike protein that binds angiotensin-converting enzyme 2 on human cells. Nowadays, some researches study the role of the N-linked glycans as potential targets for vaccines and new agents. Due to the flexibility and diversity of the N-linked glycans, in this work, we focus on the N-Acetylglucosamine moiety, which is the precursor of nearly all eukaryotic glycans. We performed molecular dynamics simulations to study the effects of the N-Acetylglucosamine on the stability of the spike glycoprotein in SARS-CoV-2. After a 100 ns of simulation on the spike proteins without and with the N-Acetylglucosamine molecules, we found that the presence of N-Acetylglucosamine increases the local stability in their vicinity; even though their effect on the full structure is negligible. Thus; it can be inferred that the N-Acetylglucosamine moieties can potentially affect the interaction of the S protein with the ACE2 receptor. We also found that the S1 domain is more flexible than the S2 domain. We propose which of the experimentally observed glycans found on the spike may be more functional than the others. Detailed understanding of glycans is key for the development of new therapeutic strategies.
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Ferreira TH, Maximiano P, Ureta M, Gomez-Zavaglia A, Simões PN. Molecular Simulation: a remarkable tool to study mechanisms of cell membrane preservation in probiotic bacteria. Curr Opin Food Sci 2023. [DOI: 10.1016/j.cofs.2022.100985] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/06/2023]
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6
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Structural details on the interaction of fenamates with lipid membranes. J Mol Liq 2022. [DOI: 10.1016/j.molliq.2022.120502] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
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Hasan S, Karal MAS, Akter S, Ahmed M, Ahamed MK, Ahammed S. Influence of sugar concentration on the vesicle compactness, deformation and membrane poration induced by anionic nanoparticles. PLoS One 2022; 17:e0275478. [PMID: 36174090 PMCID: PMC9521927 DOI: 10.1371/journal.pone.0275478] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/25/2022] [Accepted: 09/16/2022] [Indexed: 11/19/2022] Open
Abstract
Sugar plays a vital role in the structural and functional characteristics of cells. Hence, the interaction of NPs with cell membranes in the presence of sugar concentrations is important for medicinal and pharmacological innovations. This study integrated three tools: giant unilamellar vesicles (GUVs), anionic magnetite nanoparticles (NPs), and sugar concentrations, to understand a simplified mechanism for interactions between the vesicle membranes and NPs under various sugar concentrations. We focused on changing the sugar concentration in aqueous solution; more precisely, sucrose inside the GUVs and glucose outside with equal osmolarity. 1,2-dioleoyl-sn-glycero-3-phospho-(1′-rac-glycerol) (sodium salt) (DOPG) and 1,2-dioleoyl-sn-glycero-3-phosphocholine (DOPC) were used to prepare the charged membranes of 40mole%DOPG/60mole%DOPC-GUVs, whereas only DOPC was used to prepare the neutral membranes. Phase contrast fluorescence microscopy shows that the adherence of 18 nm magnetite NPs with anionic charge depends on the sugar concentration. The alterations of GUVs induced by the NPs are characterized in terms of i) vesicle compactness, ii) deformation, and iii) membrane poration. The presence of sugar provides additional structural stability to the GUVs and reduces the effects of the NPs with respect to these parameters; more precisely, the higher the sugar concentration, the smaller the alteration induced by the NPs. The differences in NPs effects are explained by the change in the type of interaction between sugar molecules and lipid membranes, namely enthalpy and entropy-driven interaction, respectively. In addition, such alterations are influenced by the surface charge density of the lipid bilayer. The surface pressure of membranes due to the adsorption of NPs is responsible for inducing the poration in membranes. The differences in deformation and poration in charged and neutral GUVs under various sugar concentrations are discussed based on the structure of the head of lipid molecules.
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Affiliation(s)
- Sharif Hasan
- Department of Physics, Bangladesh University of Engineering and Technology, Dhaka, Bangladesh
| | - Mohammad Abu Sayem Karal
- Department of Physics, Bangladesh University of Engineering and Technology, Dhaka, Bangladesh
- * E-mail:
| | - Salma Akter
- Department of Physics, Bangladesh University of Engineering and Technology, Dhaka, Bangladesh
| | - Marzuk Ahmed
- Department of Physics, Bangladesh University of Engineering and Technology, Dhaka, Bangladesh
| | - Md. Kabir Ahamed
- Department of Physics, Bangladesh University of Engineering and Technology, Dhaka, Bangladesh
- Radiation, Transport and Waste Safety Division, Bangladesh Atomic Energy Regulatory Authority, Dhaka, Bangladesh
| | - Shareef Ahammed
- Department of Physics, Bangladesh University of Engineering and Technology, Dhaka, Bangladesh
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8
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Sarkar MK, Karal MAS, Levadny V, Belaya M, Ahmed M, Ahamed MK, Ahammed S. Effects of sugar concentration on the electroporation, size distribution and average size of charged giant unilamellar vesicles. EUROPEAN BIOPHYSICS JOURNAL : EBJ 2022; 51:401-412. [PMID: 35716178 DOI: 10.1007/s00249-022-01607-y] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/18/2022] [Accepted: 06/04/2022] [Indexed: 06/15/2023]
Abstract
We investigated the effects of sugar concentration on the electroporation, size distribution and average size of giant unilamellar vesicles (GUVs). GUVs were prepared from 40 mol% of 1,2-dioleoyl-sn-glycero-3-phospho-(1'-rac-glycerol) (DOPG) and 60 mol% of 1, 2-dioleoyl-sn-glycero-3-phosphocholine (DOPC) lipids. Pulsed electric field was applied to the 40%DOPG/60%DOPC-GUVs and it induced lateral electric tension (σc) in the membranes of vesicles. The σc-induced probability of rupture (Ppore) and the rate constant of rupture (kp) of GUVs under the sugar concentration, c = 40, 100 and 300 mM, were determined. Both the Ppore and kp increased with the increase of σc, but higher tension was required to generate the same values of Ppore and kp with increasing c. We also investigated average sizes of GUVs from the size distribution of vesicles under various sugar concentrations. With the increase of c, the peak of the size distribution histograms shifted to the region of smaller vesicles. The average size decreased 1.6-fold when c increased from 10 to 300 mM. These investigations help to understand various biomedical, biophysical, and biochemical processes in vesicles and cells. Electroporation, size distribution and average size of charged GUVs were investigated under various sugar concentrations. The sugar concentration influences the electroporation of vesicles and the average size of GUVs.
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Affiliation(s)
- Malay Kumar Sarkar
- Department of Physics, Bangladesh University of Engineering and Technology, Dhaka, 1000, Bangladesh
- Department of Arts and Sciences, Ahsanullah University of Science and Technology, Dhaka, 1208, Bangladesh
| | - Mohammad Abu Sayem Karal
- Department of Physics, Bangladesh University of Engineering and Technology, Dhaka, 1000, Bangladesh.
| | - Victor Levadny
- Theoretical Problem Center of Physico-Chemical Pharmacology, Russian Academy of Sciences, Moscow, 117977, Russia
| | - Marina Belaya
- Department of Mathematics, Russian State University for the Humanities, GSP-3, Moscow, 125993, Russia
| | - Marzuk Ahmed
- Department of Physics, Bangladesh University of Engineering and Technology, Dhaka, 1000, Bangladesh
| | - Md Kabir Ahamed
- Department of Physics, Bangladesh University of Engineering and Technology, Dhaka, 1000, Bangladesh
| | - Shareef Ahammed
- Department of Physics, Bangladesh University of Engineering and Technology, Dhaka, 1000, Bangladesh
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9
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Maiti A, Daschakraborty S. How Do Urea and Trimethylamine N-Oxide Influence the Dehydration-Induced Phase Transition of a Lipid Membrane? J Phys Chem B 2021; 125:10149-10165. [PMID: 34486370 DOI: 10.1021/acs.jpcb.1c05852] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/16/2023]
Abstract
Living organisms are often exposed to extreme dehydration, which is detrimental to the structure and function of the cell membrane. The lipid membrane undergoes fluid-to-gel phase transition due to dehydration and thus loses fluidity and functionality. To protect the fluid phase of the bilayer these organisms adopt several strategies. Enhanced production of small polar organic solutes (also called osmolytes) is one such strategy. Urea and trimethylamine N-oxide (TMAO) are two osmolytes found in different organisms combating osmotic stress. Previous experiments have found that both these osmolytes have strong effects on lipid membrane under different hydration conditions. Urea prevents the dehydration-induced phase transition of the lipid membrane by directly interacting with the lipids, while TMAO does not inhibit the phase transition. To provide atomistic insights, we have carried out all-atom molecular dynamics (MD) simulation of a lipid membrane under varying hydration levels and studied the effect of these osmolytes on different structural and dynamic properties of the membrane. This study suggests that urea significantly inhibits the dehydration-induced fluid-to-gel phase transition by strongly interacting with the lipid membrane via hydrogen bonds, which balances the reduced lipid hydration due to the decreasing water content. In contrast, TMAO is excluded from the membrane surface due to unfavorable interaction with the lipids. This induces further dehydration of the lipids which reinforces the fluid-to-gel phase transition. We have also studied the counteractive role of TMAO on the effect of urea on lipid membrane when both the osmolytes are present. TMAO draws some urea molecules out of the membrane and thereby reduces the effect of urea on the lipid membrane at lower hydration levels. This is similar to the counteraction of urea's deleterious effects on protein by TMAO. All these observations are consistent with the experimental results and thus provide deep molecular insights into the role of these osmolytes in protecting the fluid phase of the membrane, the key survival strategy against osmotic-stress-induced dehydration.
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Affiliation(s)
- Archita Maiti
- Department of Chemistry, Indian Institute of Technology Patna, Bihar 801106, India
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10
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Alhadrami HA, Orfali R, Hamed AA, Ghoneim MM, Hassan HM, Hassane ASI, Rateb ME, Sayed AM, Gamaleldin NM. Flavonoid-Coated Gold Nanoparticles as Efficient Antibiotics against Gram-Negative Bacteria-Evidence from In Silico-Supported In Vitro Studies. Antibiotics (Basel) 2021; 10:968. [PMID: 34439019 PMCID: PMC8389009 DOI: 10.3390/antibiotics10080968] [Citation(s) in RCA: 16] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/02/2021] [Revised: 08/07/2021] [Accepted: 08/09/2021] [Indexed: 11/18/2022] Open
Abstract
Flavonoids are a class of bioactive plant-derived natural products that exhibit a broad range of biological activities, including antibacterial ones. Their inhibitory activity toward Gram-positive bacterial was found to be superior to that against Gram-negative ones. In the present study, a number of flavonoid-coated gold nanoparticles (GNPs) were designed to enhance the antibacterial effects of chrysin, kaempferol, and quercetin against a number of Gram-negative bacteria. The prepared GNPs were able to conjugate to these three flavonoids with conjugation efficiency ranging from 41% to 80%. Additionally, they were able to exert an enhanced antibacterial activity in comparison with the free flavonoids and the unconjugated GNPs. Quercetin-coated GNPs were the most active nano-conjugates and were able to penetrate the cell wall of E. coli. A number of in silico experiments were carried out to explain the conjugation efficiency and the antibacterial mechanisms of these flavonoids as follows: (i) these flavonoids can efficiently bind to the glutathione linker on the surface of GNPs via H-bonding; (ii) these flavonoids, particularly quercetin, were able to increase the bacterial membrane rigidity, and hence decrease its functionality; (iii) these flavonoids can inhibit E. coli's DNA gyrase (Gyr-B) with IC50 values ranging from 0.9 to 3.9 µM. In conclusion, these bioactive flavonoid-based GNPs are considered to be very promising antibiotic candidates for further development and evaluation.
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Affiliation(s)
- Hani A. Alhadrami
- Department of Medical Laboratory Technology, Faculty of Applied Medical Sciences, King Abdulaziz University, Jeddah 21589, Saudi Arabia;
- Molecular Diagnostic Lab, King Abdulaziz University Hospital, King Abdulaziz University, Jeddah 21589, Saudi Arabia
- Special Infectious Agent Unit, King Fahd Medical Research Centre, King Abdulaziz University, Jeddah 21589, Saudi Arabia
| | - Raha Orfali
- Department of Pharmacognosy, College of Pharmacy, King Saud University, Riyadh 11495, Saudi Arabia;
| | - Ahmed A. Hamed
- National Research Centre, Microbial Chemistry Department, 33 El-Buhouth Street, Dokki, Giza P.O. Box 12622, Egypt;
| | - Mohammed M Ghoneim
- Department of Pharmacy Practice, College of Pharmacy, AlMaarefa University, Riyadh 13713, Saudi Arabia;
| | - Hossam M. Hassan
- Department of Pharmacognosy, Faculty of Pharmacy, Nahda University, Beni-Suef 62513, Egypt;
- Department of Pharmacognosy, Faculty of Pharmacy, Beni-Suef University, Beni-Suef 62513, Egypt
| | - Ahmed S. I. Hassane
- School of Computing, Engineering & Physical Sciences, University of the West of Scotland, Paisley PA1 2BE, UK; (A.S.I.H.); (M.E.R.)
- Aberdeen Royal Infirmary, Foresterhill Health Campus, Foresterhill Road, Aberdeen AB25 2NZ, UK
| | - Mostafa E. Rateb
- School of Computing, Engineering & Physical Sciences, University of the West of Scotland, Paisley PA1 2BE, UK; (A.S.I.H.); (M.E.R.)
| | - Ahmed M. Sayed
- Department of Pharmacognosy, Faculty of Pharmacy, Nahda University, Beni-Suef 62513, Egypt;
| | - Noha M. Gamaleldin
- Department of Microbiology, Faculty of Pharmacy, The British University in Egypt (BUE), Cairo 11837, Egypt
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Kozuch DJ, Stillinger FH, Debenedetti PG. Effects of Trehalose on Lipid Membranes under Rapid Cooling using All-Atom and Coarse-Grained Molecular Simulations. J Phys Chem B 2021; 125:5346-5357. [PMID: 33978410 DOI: 10.1021/acs.jpcb.1c02575] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
We investigate the effect of the cryopreservative α-α-trehalose on a model 1,2-dimyristoyl-sn-glycero-3-phosphocholine (DMPC) lipid membrane undergoing cooling from 350 to 250 K using all-atom (AA) and coarse-grained (CG) molecular dynamics simulation. In the AA simulations, we find that the addition of trehalose alters the Lα (liquid crystalline) to Pβ (ripple) phase transition, suppressing the major domain of the Pβ phase and increasing the degree of leaflet interdigitation (the minor domain) which yields a thinner membrane with a higher area per lipid. Calculation of dihedral angle distributions for the lipid tails shows a greater fraction of gauche angles in the Pβ phase as trehalose concentration is increased, indicating that trehalose increases lipid disorder in the membrane. In contrast, the CG simulations transition directly from the Lα to the Lβ (gel) phase upon cooling without exhibiting the Pβ phase (likely due to increased lipid mobility in the CG system). Even so, the CG simulations show that the addition of trehalose clearly suppresses the Lα to Lβ phase transition, demonstrating that trehalose increases lipid disorder at low temperatures for the CG system, similar to the AA. Analysis using a two-state binding model provides net affinity coefficients between trehalose and the membrane as well as trehalose partition coefficients between the membrane interface and the bulk solution for both the AA and CG systems.
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Affiliation(s)
- Daniel J Kozuch
- Department of Chemical and Biological Engineering, Princeton University, Princeton, New Jersey 08544, United States
| | - Frank H Stillinger
- Department of Chemistry, Princeton University, Princeton, New Jersey 08544, United States
| | - Pablo G Debenedetti
- Department of Chemical and Biological Engineering, Princeton University, Princeton, New Jersey 08544, United States
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12
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Ghosh R, Satarifard V, Grafmüller A, Lipowsky R. Budding and Fission of Nanovesicles Induced by Membrane Adsorption of Small Solutes. ACS NANO 2021; 15:7237-7248. [PMID: 33819031 PMCID: PMC8155335 DOI: 10.1021/acsnano.1c00525] [Citation(s) in RCA: 17] [Impact Index Per Article: 5.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/15/2023]
Abstract
Membrane budding and fission are essential cellular processes that produce new membrane compartments during cell and organelle division, for intracellular vesicle trafficking as well as during endo- and exocytosis. Such morphological transformations have also been observed for giant lipid vesicles with a size of many micrometers. Here, we report budding and fission processes of lipid nanovesicles with a size below 50 nm. We use coarse-grained molecular dynamics simulations, by which we can visualize the morphological transformations of individual vesicles. The budding and fission processes are induced by low concentrations of small solutes that absorb onto the outer leaflets of the vesicle membranes. In addition to the solute concentration, we identify the solvent conditions as a second key parameter for these processes. For good solvent conditions, the budding of a nanovesicle can be controlled by reducing the vesicle volume for constant solute concentration or by increasing the solute concentration for constant vesicle volume. After the budding process is completed, the budded vesicle consists of two membrane subcompartments which are connected by a closed membrane neck. The budding process is reversible as we demonstrate explicitly by reopening the closed neck. For poor solvent conditions, on the other hand, we observe two unexpected morphological transformations of nanovesicles. Close to the binodal line, at which the aqueous solution undergoes phase separation, the vesicle exhibits recurrent shape changes with closed and open membrane necks, reminiscent of flickering fusion pores (kiss-and-run) as observed for synaptic vesicles. As we approach the binodal line even closer, the recurrent shape changes are truncated by the fission of the membrane neck which leads to the division of the nanovesicle into two daughter vesicles. In this way, our simulations reveal a nanoscale mechanism for the budding and fission of nanovesicles, a mechanism that arises from the interplay between membrane elasticity and solute-mediated membrane adhesion.
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Leonov DV, Dzuba SA, Surovtsev NV. Membrane-Sugar Interactions Probed by Low-Frequency Raman Spectroscopy: The Monolayer Adsorption Model. LANGMUIR : THE ACS JOURNAL OF SURFACES AND COLLOIDS 2020; 36:11655-11660. [PMID: 32975956 DOI: 10.1021/acs.langmuir.0c02458] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/11/2023]
Abstract
Small sugars are known to stabilize biological membranes under extreme conditions of freezing and desiccation. The proposed mechanisms of stabilization suggest membrane-sugar interactions to be either attractive or repulsive. To obtain new insight into the problem, we use a recently developed low-frequency Raman scattering approach which allows detecting membrane mechanical vibrations. For model membranes of palmitoyl-oleoyl-glycero-phosphocholine (POPC) hydrated in aqueous sucrose and trehalose solutions, we studied the Raman peak between 12 and 15 cm-1 that is attributed to an eigenmode of the normal mechanical vibrations of a lipid monolayer. For both sugars, similar results were obtained. With an increase in sugar concentration in solution, the frequency position of the peak was found to decrease by ∼13% which was interpreted as a consequence of the membrane thickening due sugar monolayer adsorption on the membrane surface. The concentration dependence of the peak frequency position was satisfactorily described by a Langmuir monolayer adsorption model. It is concluded that, at small sugar concentrations (less than 0.2 M), the membrane-sugar interactions are attractive, while at higher concentrations (more than 0.4 M) the attraction disappears. The data obtained show that one sugar molecule on the surface interacts with approximately 3-4 polar lipid heads.
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Affiliation(s)
- Dmitry V Leonov
- Department of Physics, Novosibirsk State University, Novosibirsk 630090, Russia
| | - Sergei A Dzuba
- Department of Physics, Novosibirsk State University, Novosibirsk 630090, Russia
- Institute of Chemical Kinetics and Combustion, Russian Academy of Sciences, Novosibirsk 630090, Russia
| | - Nikolay V Surovtsev
- Department of Physics, Novosibirsk State University, Novosibirsk 630090, Russia
- Institute of Automation and Electrometry, Russian Academy of Sciences, Novosibirsk 630090, Russia
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14
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Liu X, Chen L, Shi W, Xu X, Li Z, Liu T, He Q, Xie C, Nie B, Song B. Comparative transcriptome reveals distinct starch-sugar interconversion patterns in potato genotypes contrasting for cold-induced sweetening capacity. Food Chem 2020; 334:127550. [PMID: 32693335 DOI: 10.1016/j.foodchem.2020.127550] [Citation(s) in RCA: 12] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/20/2019] [Revised: 07/06/2020] [Accepted: 07/08/2020] [Indexed: 12/18/2022]
Abstract
Potato accumulates large amounts of soluble sugar during cold storage periods. However, a system based understanding of this process is still largely unknown. Here, we compared the dynamic cold-responded transcriptome of genotypes between cold-induced sweetening resistant (CIS-R) and cold-induced sweetening sensitive (CIS-S) in tubers. Comparative transcriptome revealed that activating the pathways of starch degradation, sucrose synthesis and hydrolysis could be common strategies in response to cold in both genotypes. Moreover, the variation in sugar accumulation between genotypes may be due to genetic differences in cold response, which could be mainly explained: CIS-R genotype was active in starch synthesis and attenuated in sucrose hydrolysis by promoting the coordinate expression of aseries ofgenes involved in starch-sugar interconversion. Additionally, transcription factors, the candidate master regulators of starch-sugar interconversion, were discussed. Taken together, this work has provided an avenue for studying the mechanism involved in the regulation of the CIS resistance.
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Affiliation(s)
- Xun Liu
- Key Laboratory of Horticultural Plant Biology (HZAU), Ministry of Education, Key Laboratory of Potato Biology and Biotechnology, Ministry of Agriculture and Rural Affairs, Huazhong Agricultural University, Wuhan 430070, PR China; College of Agronomy and Biotechnology, Southwest University, Key Laboratory of Biology and Genetic Improvement for Tuber and Root Crops in Chongqing, Chongqing 400715, PR China.
| | - Lin Chen
- Key Laboratory of Horticultural Plant Biology (HZAU), Ministry of Education, Key Laboratory of Potato Biology and Biotechnology, Ministry of Agriculture and Rural Affairs, Huazhong Agricultural University, Wuhan 430070, PR China; Key Laboratory of Biology and Genetic Improvement of Horticultural Crops (South China), Ministry of Agriculture and Rural Affairs, College of Horticulture, South China Agricultural University, Guangzhou 510642, PR China
| | - Weiling Shi
- College of Agronomy and Biotechnology, Southwest University, Key Laboratory of Biology and Genetic Improvement for Tuber and Root Crops in Chongqing, Chongqing 400715, PR China
| | - Xuan Xu
- Key Laboratory of Horticultural Plant Biology (HZAU), Ministry of Education, Key Laboratory of Potato Biology and Biotechnology, Ministry of Agriculture and Rural Affairs, Huazhong Agricultural University, Wuhan 430070, PR China
| | - Zhijing Li
- College of Agronomy and Biotechnology, Southwest University, Key Laboratory of Biology and Genetic Improvement for Tuber and Root Crops in Chongqing, Chongqing 400715, PR China
| | - Tengfei Liu
- Key Laboratory of Horticultural Plant Biology (HZAU), Ministry of Education, Key Laboratory of Potato Biology and Biotechnology, Ministry of Agriculture and Rural Affairs, Huazhong Agricultural University, Wuhan 430070, PR China
| | - Qin He
- Key Laboratory of Horticultural Plant Biology (HZAU), Ministry of Education, Key Laboratory of Potato Biology and Biotechnology, Ministry of Agriculture and Rural Affairs, Huazhong Agricultural University, Wuhan 430070, PR China
| | - Conghua Xie
- Key Laboratory of Horticultural Plant Biology (HZAU), Ministry of Education, Key Laboratory of Potato Biology and Biotechnology, Ministry of Agriculture and Rural Affairs, Huazhong Agricultural University, Wuhan 430070, PR China.
| | - Bihua Nie
- Key Laboratory of Horticultural Plant Biology (HZAU), Ministry of Education, Key Laboratory of Potato Biology and Biotechnology, Ministry of Agriculture and Rural Affairs, Huazhong Agricultural University, Wuhan 430070, PR China.
| | - Botao Song
- Key Laboratory of Horticultural Plant Biology (HZAU), Ministry of Education, Key Laboratory of Potato Biology and Biotechnology, Ministry of Agriculture and Rural Affairs, Huazhong Agricultural University, Wuhan 430070, PR China.
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15
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Bhatia T, Christ S, Steinkühler J, Dimova R, Lipowsky R. Simple sugars shape giant vesicles into multispheres with many membrane necks. SOFT MATTER 2020; 16:1246-1258. [PMID: 31912078 DOI: 10.1039/c9sm01890e] [Citation(s) in RCA: 37] [Impact Index Per Article: 9.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/28/2023]
Abstract
Simple sugars such as glucose and sucrose are ubiquitous in all organisms. One remarkable property of these small solutes is their ability to protect biomembranes against dehydration damage. This property, which reflects the underlying sugar-lipid interactions, has been intensely studied for lipid bilayers interacting with a single sugar at low hydration. Here, we use giant vesicles to investigate fully hydrated lipid membranes in contact with two sugars, glucose and sucrose. The vesicles were osmotically balanced, with the same total sugar concentration in the interior and exterior aqueous solutions. However, the two solutions differed in their composition: the interior solution contained only sucrose whereas the exterior one contained primarily glucose. This sugar asymmetry generated a striking variety of multispherical or "multi-balloon" vesicle shapes. Each multisphere involved only a single membrane that formed several spherical segments, which were connected by narrow, hourglass-shaped membrane necks. These morphologies revealed that the sugar-lipid interactions generated a significant spontaneous curvature with a magnitude of about 1 μm-1. Such a spontaneous curvature can be generated both by depletion and by adsorption layers of the sugar molecules arising from effectively repulsive and attractive sugar-lipid interactions. All multispherical shapes are stable over a wide range of parameters, with a substantial overlap between the different stability regimes, reflecting the rugged free energy landscape in shape space. One challenge for future studies is to identify pathways within this landscape that allow us to open and close the membrane necks of these shapes in a controlled and reliable manner. We will then be able to apply these multispheres as metamorphic chambers for chemical reactions and nanoparticle growth.
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Affiliation(s)
- Tripta Bhatia
- Theory and Bio-Systems, Max Planck Institute of Colloids and Interfaces, 14424 Potsdam, Germany.
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16
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Tai HH, Lagüe M, Thomson S, Aurousseau F, Neilson J, Murphy A, Bizimungu B, Davidson C, Deveaux V, Bègue Y, Wang HY, Xiong X, Jacobs JME. Tuber transcriptome profiling of eight potato cultivars with different cold-induced sweetening responses to cold storage. PLANT PHYSIOLOGY AND BIOCHEMISTRY : PPB 2020; 146:163-176. [PMID: 31756603 DOI: 10.1016/j.plaphy.2019.11.001] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/04/2019] [Revised: 11/01/2019] [Accepted: 11/02/2019] [Indexed: 05/19/2023]
Abstract
Tubers are vegetative reproduction organs formed from underground extensions of the plant stem. Potato tubers are harvested and stored for months. Storage under cold temperatures of 2-4 °C is advantageous for supressing sprouting and diseases. However, development of reducing sugars can occur with cold storage through a process called cold-induced sweetening (CIS). CIS is undesirable as it leads to darkened color with fry processing. The purpose of the current study was to find differences in biological responses in eight cultivars with variation in CIS resistance. Transcriptome sequencing was done on tubers before and after cold storage and three approaches were taken for gene expression analysis: 1. Gene expression correlated with end-point glucose after cold storage, 2. Gene expression correlated with increased glucose after cold storage (after-before), and 3. Differential gene expression before and after cold storage. Cultivars with high CIS resistance (low glucose after cold) were found to increase expression of an invertase inhibitor gene and genes involved in DNA replication and repair after cold storage. The cultivars with low CIS resistance (high glucose after cold) showed increased expression of genes involved in abiotic stress response, gene expression, protein turnover and the mitochondria. There was a small number of genes with similar expression patterns for all cultivars including genes involved in cell wall strengthening and phospholipases. It is proposed that the pattern of gene expression is related to chilling-induced DNA damage repair and cold acclimation and that genetic variation in these processes are related to CIS.
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Affiliation(s)
- Helen H Tai
- Agriculture and Agri-Food Canada Fredericton Research and Development Centre, P. O. Box 20280, 850 Lincoln Rd, Fredericton, N. B, E3B 4Z7, Canada.
| | - Martin Lagüe
- Agriculture and Agri-Food Canada Fredericton Research and Development Centre, P. O. Box 20280, 850 Lincoln Rd, Fredericton, N. B, E3B 4Z7, Canada
| | - Susan Thomson
- The New Zealand Institute for Plant and Food Research Limited, Private Bag 4704, Christchurch, New Zealand
| | - Frédérique Aurousseau
- Sipre-Responsable Scientifique Création Variétale, Station de Recherche du Comité Nord, 76110, Bretteville du Grand Caux, France
| | - Jonathan Neilson
- Agriculture and Agri-Food Canada Fredericton Research and Development Centre, P. O. Box 20280, 850 Lincoln Rd, Fredericton, N. B, E3B 4Z7, Canada
| | - Agnes Murphy
- Agriculture and Agri-Food Canada Fredericton Research and Development Centre, P. O. Box 20280, 850 Lincoln Rd, Fredericton, N. B, E3B 4Z7, Canada
| | - Benoit Bizimungu
- Agriculture and Agri-Food Canada Fredericton Research and Development Centre, P. O. Box 20280, 850 Lincoln Rd, Fredericton, N. B, E3B 4Z7, Canada
| | - Charlotte Davidson
- Agriculture and Agri-Food Canada Fredericton Research and Development Centre, P. O. Box 20280, 850 Lincoln Rd, Fredericton, N. B, E3B 4Z7, Canada
| | - Virginie Deveaux
- Sipre-Responsable Scientifique Création Variétale, Station de Recherche du Comité Nord, 76110, Bretteville du Grand Caux, France
| | - Yves Bègue
- Sipre-Responsable Scientifique Création Variétale, Station de Recherche du Comité Nord, 76110, Bretteville du Grand Caux, France
| | - Hui Ying Wang
- College of Horticulture and Landscape, Hunan Agriculture Univ, Hunan, Changsha, 410128, China
| | - Xingyao Xiong
- College of Horticulture and Landscape, Hunan Agriculture Univ, Hunan, Changsha, 410128, China
| | - Jeanne M E Jacobs
- The New Zealand Institute for Plant and Food Research Limited, Private Bag 4704, Christchurch, New Zealand
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