1
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Shafieenezhad A, Mitra S, Wassall SR, Tristram-Nagle S, Nagle JF, Petrache HI. Location of dopamine in lipid bilayers and its relevance to neuromodulator function. Biophys J 2023; 122:1118-1129. [PMID: 36804668 PMCID: PMC10111280 DOI: 10.1016/j.bpj.2023.02.016] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/24/2022] [Revised: 11/18/2022] [Accepted: 02/13/2023] [Indexed: 02/18/2023] Open
Abstract
Dopamine (DA) is a neurotransmitter that also acts as a neuromodulator, with both functions being essential to brain function. Here, we present the first experimental measurement of DA location in lipid bilayers using x-ray diffuse scattering, solid-state deuterium NMR, and electron paramagnetic resonance. We find that the association of DA with lipid headgroups as seen in electron density profiles leads to an increase of intermembrane repulsion most likely due to electrostatic charging. DA location in the lipid headgroup region also leads to an increase of the cross-sectional area per lipid without affecting the bending rigidity significantly. The order parameters measured by solid-state deuterium NMR decrease in the presence of DA for the acyl chains of PC and PS lipids, consistent with an increase in the area per lipid due to DA. Most importantly, these results support the hypothesis that three-dimensional diffusion of DA to target membranes could be followed by relatively more efficient two-dimensional diffusion to receptors within those membranes.
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Affiliation(s)
- Azam Shafieenezhad
- Department of Physics, Indiana University Purdue University Indianapolis, Indianapolis, Indiana
| | - Saheli Mitra
- Department of Physics, Carnegie Mellon University, Pittsburgh, Pennsylvania
| | - Stephen R Wassall
- Department of Physics, Indiana University Purdue University Indianapolis, Indianapolis, Indiana
| | | | - John F Nagle
- Department of Physics, Carnegie Mellon University, Pittsburgh, Pennsylvania
| | - Horia I Petrache
- Department of Physics, Indiana University Purdue University Indianapolis, Indianapolis, Indiana.
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2
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Cavazos AT, Canner SW, Leng X, Petrache HI, Wassall SR. Cholesterol promotes similar chain packing in n-3 PUFA-containing membranes. Biophys J 2023; 122:82a. [PMID: 36785036 DOI: 10.1016/j.bpj.2022.11.651] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/12/2023] Open
Affiliation(s)
- Andres T Cavazos
- Department of Physics, Indiana University-Purdue University Indianapolis, Indianapolis, IN, USA
| | - Samuel W Canner
- Department of Physics, Indiana University-Purdue University Indianapolis, Indianapolis, IN, USA
| | - Xiaoling Leng
- Department of Physics, Indiana University-Purdue University Indianapolis, Indianapolis, IN, USA
| | - Horia I Petrache
- Department of Physics, Indiana University-Purdue University Indianapolis, Indianapolis, IN, USA
| | - Stephen R Wassall
- Department of Physics, Indiana University-Purdue University Indianapolis, Indianapolis, IN, USA
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3
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Petrache HI, Lybarger RZ, Shafieenezhad A, Haworth-Zermeno C, Ray BD. Association of adenosine triphosphate with lipid headgroups measured by NMR spectroscopy. Biophys J 2023; 122:222a. [PMID: 36783090 DOI: 10.1016/j.bpj.2022.11.1319] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/12/2023] Open
Affiliation(s)
- Horia I Petrache
- Department of Physics, Indiana University-Purdue University Indianapolis, Indianapolis, IN, USA
| | - Ryan Z Lybarger
- Department of Physics, Indiana University-Purdue University Indianapolis, Indianapolis, IN, USA
| | - Azam Shafieenezhad
- Department of Physics, Indiana University-Purdue University Indianapolis, Indianapolis, IN, USA
| | - Carmen Haworth-Zermeno
- Department of Physics, Indiana University-Purdue University Indianapolis, Indianapolis, IN, USA
| | - Bruce D Ray
- Department of Physics, Indiana University-Purdue University Indianapolis, Indianapolis, IN, USA
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4
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Shafieenezhad A, Wassall SR, Tristram-Nagle SA, Nagle JF, Petrache HI. The effect of dopamine on model lipid membrane structure. Biophys J 2022. [DOI: 10.1016/j.bpj.2021.11.918] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022] Open
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5
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Mallikarjunaiah KJ, Kinnun JJ, Petrache HI, Brown MF. Correction: Flexible lipid nanomaterials studied by NMR spectroscopy. Phys Chem Chem Phys 2021; 23:19083. [PMID: 34612445 DOI: 10.1039/d1cp90155a] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Correction for 'Flexible lipid nanomaterials studied by NMR spectroscopy' by K. J. Mallikarjunaiah et al., Phys. Chem. Chem. Phys., 2019, 21, 18422-18457, DOI: .
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Affiliation(s)
- K J Mallikarjunaiah
- Department of Chemistry and Biochemistry, University of Arizona, Tucson, Arizona 85721, USA.
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6
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Ramkumar A, Brown MF, Petrache HI. Lipid Chain Upturns and Orientational Potential in Membrane Liquid Crystals. Biophys J 2021. [DOI: 10.1016/j.bpj.2020.11.2049] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022] Open
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7
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Molugu TR, Mallikarjunaiah K, Kinnun JJ, Petrache HI, Doktorova M, Khelashvili G, Ashkar R, Brown MF. Membrane Deformation Modulated by Hydration and Cholesterol Unveiled by Solid-State 2H NMR Spectroscopy. Biophys J 2021. [DOI: 10.1016/j.bpj.2020.11.495] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/26/2022] Open
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8
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Bustamante DJ, Basile EJ, Hildreth BM, Browning NW, Jensen SA, Moldovan L, Petrache HI, Moldovan NI. Biofabrication of spheroids fusion-based tumor models: computational simulation of glucose effects. Biofabrication 2021; 13. [PMID: 33498017 DOI: 10.1088/1758-5090/abe025] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/30/2020] [Accepted: 01/26/2021] [Indexed: 01/04/2023]
Abstract
In vitro tumor models consisting of cell spheroids are increasingly used for mechanistic studies and pharmacological testing. However, unless vascularized, the availability of nutrients such as glucose to deeper layers of multicellular aggregates is limited. In addition, recent developments in cells-only biofabrication (e.g. 'scaffold-free bioprinting'), allow the creation of more complex spheroid-based structures, further exposing the cells to nutrient deprivation within these constructs. To explore the impact of glucose availability on such tumor-like structures, we used the CompuCell3D (CC3D) platform for modeling of tumor spheroids. By monitoring the types of cells, fusing pairs geometry and the distance between spheroids centers of mass, we made novel heuristic observations on how binary- and multi-spheroid fusions are impacted by glucose availability. At limiting glucose concentrations mimicking hypoglycemia we noted an abrupt collapse of the tumor spheroids, unexpectedly amplified by the contact with normal cell spheroids. At higher glucose concentrations, we found an increased intermixing of cancerous cells, strong anti-phase oscillations between proliferating and quiescent tumor cells and a structural instability of fusing tumor spheroids, leading to their re-fragmentation. In a model of tumor microenvironment composed of normal cell spheroids fusing around a tumoral one, the competition for glucose lead to either the tumor's disappearance, or to its steady expansion. Moreover, the invasion of this microenvironment by individual tumor cells was also strongly depended on the available glucose. In conclusion, we demonstrate the value of computational simulations for anticipating the properties of biofabricated tumor models, and in generating testable hypotheses regarding the relationship between cancer, nutrition and diabetes.
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Affiliation(s)
- David J Bustamante
- IUPUI BME, 799 W. Michigan Street, Indianapolis, Indiana, 46202-5195, UNITED STATES
| | - Elijah J Basile
- IUPUI, 301 University Boulevard, Indianapolis, Indiana, 46202-5146, UNITED STATES
| | - Brady M Hildreth
- IUPUI, 301 University Boulevard, Indianapolis, Indiana, 46202-5146, UNITED STATES
| | - Nathan W Browning
- IUPUI, 301 University Boulevard, Indianapolis, Indiana, 46202-5146, UNITED STATES
| | - S Alexander Jensen
- IUPUI, 301 University Boulevard Suite, Indianapolis, Indiana, 46202-5146, UNITED STATES
| | - Leni Moldovan
- Surgery, Indiana University School of Medicine, 1481 W. 10th St., Room D-2008, Indianapolis, Indiana, 46202-5114, UNITED STATES
| | - Horia I Petrache
- Department of Physics, Indiana University - Purdue University at Indianapolis, 402 N. Blackford Street, LD 154, Indianapolis, Indiana, 46202, UNITED STATES
| | - Nicanor I Moldovan
- VA Medical Center, Indiana University Purdue University at Indianapolis, 1481 W. 10th St., Room C6128, Indianapolis, Indiana, 46202-5143, UNITED STATES
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9
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Harper PE, Cavazos AT, Kinnun JJ, Petrache HI, Wassall SR. Vitamin E Promotes the Inverse Hexagonal Phase via a Novel Mechanism: Implications for Antioxidant Role. Langmuir 2020; 36:4908-4916. [PMID: 32295345 DOI: 10.1021/acs.langmuir.0c00176] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/11/2023]
Abstract
Vitamin E (α-tocopherol) and a range of other biological compounds have long been known to promote the HII (inverted hexagonal) phase in lipids. Now, it has been well established that purely hydrophobic lipids such as dodecane promote the HII phase by relieving extensive packing stress. They do so by residing deep within the hydrocarbon core. However, we argue from X-ray diffraction data obtained with 1-palmitoyl-2-oleoylphosphatidylcholine (POPE) and 1,2-dioleoylphosphatidylcholine (DOPE) that α-tocopherol promotes the HII phase by a different mechanism. The OH group on the chromanol moiety of α-tocopherol anchors it near the aqueous interface. This restriction combined with the relatively short length of α-tocopherol (as compared to DOPE and POPE) means that α-tocopherol promotes the HII phase by relieving compressive packing stress. This observation offers new insight into the nature of packing stress and lipid biophysics. With the deeper understanding of packing stress offered by our results, we also explore the role that molecular structure plays in the primary function of vitamin E, which is to prevent the oxidation of polyunsaturated membrane lipids.
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Affiliation(s)
- Paul E Harper
- Department of Physics and Astronomy, Calvin University, Grand Rapids, Michigan 49546-4403, United States
| | - Andres T Cavazos
- Department of Physics, IUPUI, Indianapolis, Indiana 46202-3273, United States
| | - Jacob J Kinnun
- Department of Physics, IUPUI, Indianapolis, Indiana 46202-3273, United States
| | - Horia I Petrache
- Department of Physics, IUPUI, Indianapolis, Indiana 46202-3273, United States
| | - Stephen R Wassall
- Department of Physics, IUPUI, Indianapolis, Indiana 46202-3273, United States
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10
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Molugu TR, Mallikarjunaiah K, Petrache HI, Chakraborty S, Ashkar R, Brown MF. Elastic Moduli and Collective Dynamics of Phospholipids are Revealed by Solid-State 2H NMR Spectroscopy. Biophys J 2020. [DOI: 10.1016/j.bpj.2019.11.632] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022] Open
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11
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Ramkumar A, Leng X, Brown MF, Petrache HI. Scaling Behavior in Soft Materials Revealed by Lipid ACYL Chain Order. Biophys J 2020. [DOI: 10.1016/j.bpj.2019.11.1352] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/25/2022] Open
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12
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Shafieenezhad A, Cavazos AT, Ramkumar A, Wassall SR, Petrache HI. Order Parameter Analysis of Lipids Organization in the Presence of ATP. Biophys J 2020. [DOI: 10.1016/j.bpj.2019.11.1341] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/26/2022] Open
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13
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Mallikarjunaiah K, Kinnun JJ, Petrache HI, Brown MF. Membrane Deformation Under Isotropic External Stress. Biophys J 2019. [DOI: 10.1016/j.bpj.2018.11.2740] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022] Open
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14
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Cavazos AT, Harper PE, Kinnun JJ, Petrache HI, Wassall SR. Vitamin E Promotes the Inverse Hexagonal Phase Providing Insights on Lipid Packing Stresses: Studies by SAXS and 2H NMR. Biophys J 2019. [DOI: 10.1016/j.bpj.2018.11.1240] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022] Open
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15
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Segally TN, Palacio LA, Kim J, Stanley CB, Seifert S, Petrache HI. Differentiating Structural Changes of Glycoproteins in Solution using Small Angle Scattering Analysis. Biophys J 2019. [DOI: 10.1016/j.bpj.2018.11.2558] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/27/2022] Open
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16
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Mallikarjunaiah K, Molugu TR, Petrache HI, Brown MF. Phospholipid Headgroups Govern Emergent Bending Energy of Membranes with Implications for Lipid-Protein Interactions. Biophys J 2019. [DOI: 10.1016/j.bpj.2018.11.1717] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/26/2022] Open
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17
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Ramkumar A, Leng X, Petrache HI. Statistical Analysis of Acyl Chain Confinement in Lipid Membranes. Biophys J 2019. [DOI: 10.1016/j.bpj.2018.11.2732] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/27/2022] Open
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18
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Anghelina M, Butt O, Moldovan L, Petrache HI, Moldovan NI. Solvent isotope effect on leukocytes disintegration after large mechanical deformations. Biomed Phys Eng Express 2019. [DOI: 10.1088/2057-1976/aafd0f] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022]
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19
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Abstract
Advances in solid-state nuclear magnetic resonance spectroscopy inform the emergence of material properties from atomistic-level interactions in membrane lipid nanostructures.
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Affiliation(s)
- K. J. Mallikarjunaiah
- Department of Chemistry and Biochemistry
- University of Arizona
- Tucson
- USA
- Department of Physics
| | - Jacob J. Kinnun
- Department of Physics
- Indiana University-Purdue University
- Indianapolis
- USA
| | - Horia I. Petrache
- Department of Physics
- Indiana University-Purdue University
- Indianapolis
- USA
| | - Michael F. Brown
- Department of Chemistry and Biochemistry
- University of Arizona
- Tucson
- USA
- Department of Physics
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20
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Kimble-Hill AC, Petrache HI, Seifert S, Firestone MA. Reorganization of Ternary Lipid Mixtures of Nonphosphorylated Phosphatidylinositol Interacting with Angiomotin. J Phys Chem B 2018; 122:8404-8415. [PMID: 29877706 PMCID: PMC6351316 DOI: 10.1021/acs.jpcb.7b12641] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
Abstract
Phosphatidylinositol (PI) lipids are necessary for many cellular signaling pathways of membrane associated proteins, such as angiomotin (Amot). The Amot family regulates cellular polarity, growth, and migration. Given the low concentration of PI lipids in these membranes, it is likely that such protein-membrane interactions are stabilized by lipid domains or small lipid clusters. By small-angle X-ray scattering, we show that nonphosphorylated PI lipids induce lipid demixing in ternary mixtures of phosphatidylcholine (PC) and phosphatidylethanolamine (PE), likely because of preferential interactions between the head groups of PE and PI. These results were obtained in the presence of buffer containing tris(hydroxymethyl)aminomethane, 4-(2-hydroxyethyl)-1-piperazineethanesulfonic acid, NaCl, ethylenediaminetetraacetic acid, dithiothreitol, and benzamidine at pH 8.0 that in previous work showed an ability to cause PC to phase separate but are necessary to stabilize Amot for in vitro experimentation. Collectively, this provided a framework for determining the effect of Amot on lipid organization. Using fluorescence spectroscopy, we were able to show that the association of Amot with this lipid platform causes significant reorganization of the lipid into a more homogenous structure. This reorganization mechanism could be the basis for Amot membrane association and fusogenic activity previously described in the literature and should be taken into consideration in future protein-membrane interaction studies.
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Affiliation(s)
- Ann C. Kimble-Hill
- Department of Biochemistry and Molecular Biology, Indiana University School of Medicine, MS 4053, 635 Barnhill Dr., Indianapolis, Indiana 46202, United States
| | - Horia I. Petrache
- Department of Physics, Indiana University Purdue University Indianapolis, LD 154, 402 N. Blackford Street, Indianapolis, Indiana 46202, United States
| | - Soenke Seifert
- X-Ray Science Division, Advanced Photon Source, Argonne National Laboratory, Argonne, Illinois 60439, United States
| | - Millicent A. Firestone
- Center for Integrated Nanotechnologies, Los Alamos National Laboratory, MPA-CINT, MS K771, Los Alamos, New Mexico 87545, United States
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21
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Lybarger RZ, Costantino M, Ramkumar A, Ray BD, Petrache HI. Interactions of Lipid Multilayers in the Presence of ATP. Biophys J 2018. [DOI: 10.1016/j.bpj.2017.11.2004] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022] Open
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22
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Kinnun JJ, Mallikarjunaiah K, Petrache HI, Brown MF. Emergence of Membrane Material Parameters Revealed by Solid-State 2H NMR Spectroscopy. Biophys J 2018. [DOI: 10.1016/j.bpj.2017.11.3071] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/18/2022] Open
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23
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Gurnev PA, Roark TC, Petrache HI, Sodt AJ, Bezrukov SM. Cation-Selective Channel Regulated by Anions According to Their Hofmeister Ranking. Angew Chem Int Ed Engl 2017; 56:3506-3509. [PMID: 28198582 DOI: 10.1002/anie.201611335] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/18/2016] [Revised: 01/05/2017] [Indexed: 11/08/2022]
Abstract
Specificity of small ions, the Hofmeister ranking, is long-known and has many applications including medicine. Yet it evades consistent theoretical description. Here we study the effect of Hofmeister anions on gramicidin A channels in lipid membranes. Counterintuitively, we find that conductance of this perfectly cation-selective channel increases about two-fold in the H2 PO4- <Cl- ≈Br- ≈NO3- <ClO4- <SCN- series. Channel dissociation kinetics show even stronger dependence, with the dwell time increasing about 20-fold. While the conductance can be quantitatively explained by the changes in membrane surface potential due to exclusion of kosmotropes from (or accumulation of chaotropes at) the surface, the kinetics proved to be more difficult to treat. We estimate the effects of changes in the energetics at the bilayer surfaces on the channel dwell time, concluding that the change would have to be greater than typically observed for the Hofmeister effect outside the context of the lipid bilayer.
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Affiliation(s)
- Philip A Gurnev
- Eunice Kennedy Shriver National Institute of Child Health and Human Development, NIH, Bldg. 9, Rm 1 N-124B, Bethesda, MD, 20892, USA
| | - Torri C Roark
- Eunice Kennedy Shriver National Institute of Child Health and Human Development, NIH, Bldg. 9, Rm 1 N-124B, Bethesda, MD, 20892, USA.,Department of Physics, Indiana University Purdue University Indianapolis, Indianapolis, IN, 46202, USA
| | - Horia I Petrache
- Department of Physics, Indiana University Purdue University Indianapolis, Indianapolis, IN, 46202, USA
| | - Alexander J Sodt
- Eunice Kennedy Shriver National Institute of Child Health and Human Development, NIH, Bldg. 9, Rm 1 N-124B, Bethesda, MD, 20892, USA
| | - Sergey M Bezrukov
- Eunice Kennedy Shriver National Institute of Child Health and Human Development, NIH, Bldg. 9, Rm 1 N-124B, Bethesda, MD, 20892, USA
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Gurnev PA, Roark TC, Petrache HI, Sodt AJ, Bezrukov SM. Cation‐Selective Channel Regulated by Anions According to Their Hofmeister Ranking. Angew Chem Int Ed Engl 2017. [DOI: 10.1002/ange.201611335] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/24/2023]
Affiliation(s)
- Philip A. Gurnev
- Eunice Kennedy Shriver National Institute of Child Health and Human Development NIH Bldg. 9, Rm 1 N-124B Bethesda MD 20892 USA
| | - Torri C. Roark
- Eunice Kennedy Shriver National Institute of Child Health and Human Development NIH Bldg. 9, Rm 1 N-124B Bethesda MD 20892 USA
- Department of Physics Indiana University Purdue University Indianapolis Indianapolis IN 46202 USA
| | - Horia I. Petrache
- Department of Physics Indiana University Purdue University Indianapolis Indianapolis IN 46202 USA
| | - Alexander J. Sodt
- Eunice Kennedy Shriver National Institute of Child Health and Human Development NIH Bldg. 9, Rm 1 N-124B Bethesda MD 20892 USA
| | - Sergey M. Bezrukov
- Eunice Kennedy Shriver National Institute of Child Health and Human Development NIH Bldg. 9, Rm 1 N-124B Bethesda MD 20892 USA
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25
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Ramkumar A, Leng X, Lybarger RZ, Petrache HI. Molecular Dynamics of Adenosine Triphosphate Interacting with Lipid Membranes. Biophys J 2017. [DOI: 10.1016/j.bpj.2016.11.1650] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/20/2022] Open
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26
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Matam Y, Ray BD, Petrache HI. Direct affinity of dopamine to lipid membranes investigated by Nuclear Magnetic Resonance spectroscopy. Neurosci Lett 2016; 618:104-109. [DOI: 10.1016/j.neulet.2016.02.052] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/10/2016] [Revised: 02/25/2016] [Accepted: 02/26/2016] [Indexed: 11/16/2022]
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27
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Matam Y, Johnson MA, Ray BD, Petrache HI. 1H NMR Spectroscopy of Dopamine Interacting with Lipid Vesicles. Biophys J 2016. [DOI: 10.1016/j.bpj.2015.11.532] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022] Open
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28
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Ramkumar A, Leng X, Lybarger RZ, Petrache HI. Interaction of Adenosine Triphosphate with Phosphatidylcholine Lipid Bilayers. Biophys J 2016. [DOI: 10.1016/j.bpj.2015.11.2224] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/22/2022] Open
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29
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Palacio LA, Stanley CB, Burke L, Lybarger R, Petrache HI. Small Angle Neutron Scattering of Fibrinogen Polymerization Kinetics. Biophys J 2016. [DOI: 10.1016/j.bpj.2015.11.2081] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/22/2022] Open
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30
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Johnson MA, Tial SH, Ray BD, Seifert S, Petrache HI. The Partitioning Behavior of Free Amino Acids into Lipid Membranes. Biophys J 2016. [DOI: 10.1016/j.bpj.2015.11.2225] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/22/2022] Open
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31
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Lybarger RZ, Petrache HI. Multipole Moments of Lipid Headgroups. Biophys J 2016. [DOI: 10.1016/j.bpj.2015.11.456] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/26/2022] Open
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32
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Cavazos AT, Kinnun JJ, Lybarger RZ, Williams JA, Ray BD, Harper PE, Petrache HI, Wassall SR. Vitamin E Differentially Destabilizes Bilayer Structure of Docosahexaenoic and Oleic-Acid Containing Model Membranes. Biophys J 2016. [DOI: 10.1016/j.bpj.2015.11.525] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/22/2022] Open
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33
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Harper PE, Cavazos AT, Kinnun JJ, Petrache HI, Wassall SR. Vitamin E Promotes the Inverse Hexagonal Phase via a Novel Mechanism: Implications for Antioxidant Role. Biophys J 2016. [DOI: 10.1016/j.bpj.2015.11.506] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022] Open
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34
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Abstract
Experiments have shown that bacteria can be sensitive to small variations in chemoattractant (CA) concentrations. Motivated by these findings, our focus here is on a regime rarely studied in experiments: bacteria tracking point CA sources (such as food patches or even prey). In tracking point sources, the CA detected by bacteria may show very large spatiotemporal fluctuations which vary with distance from the source. We present a general statistical model to describe how bacteria locate point sources of food on the basis of stochastic event detection, rather than CA gradient information. We show how all model parameters can be directly inferred from single cell tracking data even in the limit of high detection noise. Once parameterized, our model recapitulates bacterial behavior around point sources such as the “volcano effect”. In addition, while the search by bacteria for point sources such as prey may appear random, our model identifies key statistical signatures of a targeted search for a point source given any arbitrary source configuration.
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Affiliation(s)
- Hossein Jashnsaz
- Physics Dept., Indiana Univ. - Purdue Univ. Indianapolis, Indianapolis, IN, 46202, United States of America
| | - Tyler Nguyen
- Stark Neuroscience Institute, Indiana Univ. School of Medicine, Indianapolis, IN 46202, United States of America
| | - Horia I. Petrache
- Physics Dept., Indiana Univ. - Purdue Univ. Indianapolis, Indianapolis, IN, 46202, United States of America
| | - Steve Pressé
- Physics Dept., Indiana Univ. - Purdue Univ. Indianapolis, Indianapolis, IN, 46202, United States of America
- Dept. of Cell and Integrative Physiology, Indiana Univ. School of Medicine, Indianapolis, IN 46202, United States of America
- * E-mail:
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35
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Johnson MA, Ray BD, Wassall SR, Petrache HI. Equivalent Isopropanol Concentrations of Aromatic Amino Acids Interactions with Lipid Vesicles. J Membr Biol 2015; 248:695-703. [PMID: 25691267 DOI: 10.1007/s00232-015-9781-1] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/02/2014] [Accepted: 01/30/2015] [Indexed: 11/26/2022]
Abstract
We show that the interaction of aromatic amino acids with lipid bilayers can be characterized by conventional 1D [Formula: see text]H NMR spectroscopy using reference spectra obtained in isopropanol-d8/D[Formula: see text]O solutions. We demonstrate the utility of this method with three different peptides containing tyrosine, tryptophan, or phenylalanine amino acids in the presence of 1,2-dioleoyl-sn-glycero-3-phosphocholine or 1,2-dioleoyl-sn-glycero-3-phosphoserine lipid membranes. In each case, we determine an equivalent isopropanol concentration (EIC) for each hydrogen site of aromatic groups, in essence constructing a map of the chemical environment. These EIC maps provide information on relative affinities of aromatic side chains for either PC or PS bilayers and also inform on amino acid orientation preference when bound to membranes.
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Affiliation(s)
- Merrell A Johnson
- Department of Physics, Indiana University Purdue University Indianapolis, 402 N Blackford St., Indianapolis, IN, 46202, USA,
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36
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Palacio LA, Stanley CB, Seifert S, Lybarger R, Petrache HI. Small Angle Neutron and X-Ray Scattering of Plasma Glycoprotein Interactions with Lipid Membranes. Biophys J 2015. [DOI: 10.1016/j.bpj.2014.11.2829] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/24/2022] Open
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37
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Figueroa G, Palacio LA, Ray BD, Petrache HI, Lopez-Yunez A. Detecting Counterfeit Pharmaceuticals through UV Spectrophotometry. Biophys J 2015. [DOI: 10.1016/j.bpj.2014.11.3383] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/24/2022] Open
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38
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Weisman M, Johnson MA, Ray BD, Petrache HI. Chelating Agent Induction of Multiphase Coexistence in Lipid Multilayers. Biophys J 2015. [DOI: 10.1016/j.bpj.2014.11.500] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/24/2022] Open
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39
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Johnson MA, Seifert S, Petrache HI. Cation Effects on Zwitterionic Lipid Multilayers. Biophys J 2015. [DOI: 10.1016/j.bpj.2014.11.497] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/24/2022] Open
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40
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Lybarger RZ, Petrache HI. Van Der Waals Interactions of Lipid Membranes in Highly Polarizable Solutions. Biophys J 2015. [DOI: 10.1016/j.bpj.2014.11.499] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/24/2022] Open
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41
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Justice MJ, Petrusca DN, Rogozea AL, Williams JA, Schweitzer KS, Petrache I, Wassall SR, Petrache HI. Effects of lipid interactions on model vesicle engulfment by alveolar macrophages. Biophys J 2014; 106:598-609. [PMID: 24507600 DOI: 10.1016/j.bpj.2013.12.036] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/16/2013] [Revised: 11/11/2013] [Accepted: 12/23/2013] [Indexed: 01/18/2023] Open
Abstract
The engulfment function of macrophages relies on complex molecular interactions involving both lipids and proteins. In particular, the clearance of apoptotic bodies (efferocytosis) is enabled by externalization on the cell target of phosphatidylserine lipids, which activate receptors on macrophages, suggesting that (local) specific lipid-protein interactions are required at least for the initiation of efferocytosis. However, in addition to apoptotic cells, macrophages can engulf foreign bodies that vary substantially in size from a few nanometers to microns, suggesting that nonspecific interactions over a wide range of length scales could be relevant. Here, we use model lipid membranes (made of phosphatidylcholine, phosphatidylserine, and ceramide) and rat alveolar macrophages to show how lipid bilayer properties probed by small-angle x-ray scattering and solid-state (2)H NMR correlate with engulfment rates measured by flow cytometry. We find that engulfment of protein-free model lipid vesicles is promoted by the presence of phosphatidylserine lipids but inhibited by ceramide, in accord with a previous study of apoptotic cells. We conclude that the roles of phosphatidylserine and ceramide in phagocytosis is based, at least in part, on lipid-mediated modification of membrane physical properties, including interactions at large length scales as well as local lipid ordering and possible domain formation.
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Affiliation(s)
- Matthew J Justice
- Department of Physics, Indiana University Purdue University Indianapolis, Indianapolis, Indiana; Department of Medicine, Indiana University School of Medicine, Indianapolis, Indiana
| | - Daniela N Petrusca
- Department of Medicine, Indiana University School of Medicine, Indianapolis, Indiana
| | - Adriana L Rogozea
- Department of Physics, Indiana University Purdue University Indianapolis, Indianapolis, Indiana; Department of Medicine, Indiana University School of Medicine, Indianapolis, Indiana
| | - Justin A Williams
- Department of Physics, Indiana University Purdue University Indianapolis, Indianapolis, Indiana
| | - Kelly S Schweitzer
- Department of Medicine, Indiana University School of Medicine, Indianapolis, Indiana
| | - Irina Petrache
- Department of Medicine, Indiana University School of Medicine, Indianapolis, Indiana; Department of Medicine, Richard L. Roudebush Veterans' Affairs Medical Center, Indianapolis, Indiana
| | - Stephen R Wassall
- Department of Physics, Indiana University Purdue University Indianapolis, Indianapolis, Indiana
| | - Horia I Petrache
- Department of Physics, Indiana University Purdue University Indianapolis, Indianapolis, Indiana.
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42
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Johnson M, Seifert S, Petrache HI, Kimble-Hill AC. Phase coexistence in single-lipid membranes induced by buffering agents. Langmuir 2014; 30:9880-9885. [PMID: 25102340 PMCID: PMC4148158 DOI: 10.1021/la5018938] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/16/2014] [Revised: 07/29/2014] [Indexed: 05/28/2023]
Abstract
Recent literature has shown that buffers affect the interaction between lipid bilayers through a mechanism that involves van der Waals forces, electrostatics, hydration forces and membrane bending rigidity. This letter shows an additional peculiar effect of buffers on the mixed chain 1-palmitoyl-2-oleoyl-sn-glycero-3-phosphocholine (POPC) lipid bilayers, namely phase coexistence similar to what was reported by Rappolt et al. for alkali chlorides. The data presented suggest that one phase appears to dehydrate below the value in pure water, while the other phase swells as the concentration of buffer is increased. However, since the two phases must be in osmotic equilibrium with one another, this behavior challenges theoretical models of lipid interactions.
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Affiliation(s)
- Merrell
A. Johnson
- Department
of Physics, Indiana University−Purdue
University Indianapolis, LD 154, 402 North Blackford Street, Indianapolis, Indiana 46202, United States
| | - Soenke Seifert
- X-ray
Science Division, Advanced Photon Source, Argonne National Laboratory, Argonne, Illinois 60439, United States
| | - Horia I. Petrache
- Department
of Physics, Indiana University−Purdue
University Indianapolis, LD 154, 402 North Blackford Street, Indianapolis, Indiana 46202, United States
| | - Ann C. Kimble-Hill
- Department
of Biochemistry and Molecular Biology, Indiana
University School of Medicine, MS 4053, 635 Barnhill Drive, Indianapolis, Indiana 46202, United States
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43
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Kinnun JJ, Mallikarjunaiah KJ, Petrache HI, Brown MF. Elastic deformation and area per lipid of membranes: atomistic view from solid-state deuterium NMR spectroscopy. Biochim Biophys Acta 2014; 1848:246-59. [PMID: 24946141 DOI: 10.1016/j.bbamem.2014.06.004] [Citation(s) in RCA: 40] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/19/2014] [Accepted: 06/06/2014] [Indexed: 12/17/2022]
Abstract
This article reviews the application of solid-state ²H nuclear magnetic resonance (NMR) spectroscopy for investigating the deformation of lipid bilayers at the atomistic level. For liquid-crystalline membranes, the average structure is manifested by the segmental order parameters (SCD) of the lipids. Solid-state ²H NMR yields observables directly related to the stress field of the lipid bilayer. The extent to which lipid bilayers are deformed by osmotic pressure is integral to how lipid-protein interactions affect membrane functions. Calculations of the average area per lipid and related structural properties are pertinent to bilayer remodeling and molecular dynamics (MD) simulations of membranes. To establish structural quantities, such as area per lipid and volumetric bilayer thickness, a mean-torque analysis of ²H NMR order parameters is applied. Osmotic stress is introduced by adding polymer solutions or by gravimetric dehydration, which are thermodynamically equivalent. Solid-state NMR studies of lipids under osmotic stress probe membrane interactions involving collective bilayer undulations, order-director fluctuations, and lipid molecular protrusions. Removal of water yields a reduction of the mean area per lipid, with a corresponding increase in volumetric bilayer thickness, by up to 20% in the liquid-crystalline state. Hydrophobic mismatch can shift protein states involving mechanosensation, transport, and molecular recognition by G-protein-coupled receptors. Measurements of the order parameters versus osmotic pressure yield the elastic area compressibility modulus and the corresponding bilayer thickness at an atomistic level. Solid-state ²H NMR thus reveals how membrane deformation can affect protein conformational changes within the stress field of the lipid bilayer.
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Affiliation(s)
- Jacob J Kinnun
- Department of Physics, Indiana University-Purdue University Indianapolis, Indianapolis, IN 46202, USA; Department of Chemistry and Biochemistry, University of Arizona, Tucson, AZ 85721, USA
| | | | - Horia I Petrache
- Department of Chemistry and Biochemistry, University of Arizona, Tucson, AZ 85721, USA
| | - Michael F Brown
- Department of Physics, Indiana University-Purdue University Indianapolis, Indianapolis, IN 46202, USA; Department of Physics, University of Arizona, Tucson, AZ 85721, USA.
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44
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Maasa RK, Justice MJ, Petrusca DN, Petrache HI. Interaction of Model Lipid Vesicles with Alveolar Macrophages. Biophys J 2014. [DOI: 10.1016/j.bpj.2013.11.2928] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022] Open
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45
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Walls AS, Johnson MA, Petrache HI. Ion Transport and Electrochemical Gradients under DC and AC Signals. Biophys J 2014. [DOI: 10.1016/j.bpj.2013.11.1733] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/25/2022] Open
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46
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Khelifi S, Johnson MA, Ray BD, Petrache HI. Fluorescence Measurements of Aromatic Amino Acids in the Presence of Lipid Membranes. Biophys J 2014. [DOI: 10.1016/j.bpj.2013.11.2866] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/23/2022] Open
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47
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Lybarger RZ, Szymanski K, Ray BD, Petrache HI. Measurements of Solute Polarizabilites Affecting Lipid Membrane Interactions. Biophys J 2014. [DOI: 10.1016/j.bpj.2013.11.524] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/23/2022] Open
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48
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Johnson MA, Slaton J, Rosen ED, Petrache HI. Porosity of Fibrin Networks Measured by Macroion Flow. Biophys J 2014. [DOI: 10.1016/j.bpj.2013.11.407] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/23/2022] Open
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49
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Walsman JM, Stout HD, Ray BD, Petrache HI. Adaptation Rates of E. Coli in Monovalent Salt Solutions. Biophys J 2013. [DOI: 10.1016/j.bpj.2012.11.2718] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/27/2022] Open
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50
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Roark TC, Gurnev PA, Bezrukov SM, Petrache HI. Conductance of Ideally Cation-Selective Ion Channel Depends on Anion Type. Biophys J 2013. [DOI: 10.1016/j.bpj.2012.11.1407] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/27/2022] Open
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