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Saeed A, Rafiq Z, Imran M, Saeed Q, Saeed MQ, Ali Z, Iqbal RK, Hussain S, Khaliq B, Mehmood S, Akrem A. In-silico Studies Calculated a New Chitin Oligomer Binding Site Inside Vicilin: A Potent Antifungal and Insecticidal Agent. Dose Response 2022; 20:15593258221108280. [PMID: 35734395 PMCID: PMC9208065 DOI: 10.1177/15593258221108280] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/11/2022] [Accepted: 06/01/2022] [Indexed: 11/20/2022] Open
Abstract
Vicilins are major seed storage proteins and show differential binding affinities toward sugar moieties of fungal cell wall and insect gut epithelium. Hence, purpose of study is the thorough in-silico characterization of interactions between vicilin and chitin oligomer followed by fungal and insecticidal bioassays. This work covers the molecular simulation studies explaining the interactions between Pisum sativum vicilin (PsV) and chitin oligomer followed by protein bioassay against different pathogens. LC-MS/MS of purified PsV (∼50 kDa) generated residual data along high pea vicilin homology (UniProtKB ID; P13918). Predicted model (PsV) indicated the characteristic homotrimer joined through head-to-tail association and each monomer is containing a bicupin domain. PsV site map analysis showed a new site (Site 4) into which molecular docking confirmed the strong binding of chitin oligomer (GlcNAc)4. Molecular dynamics simulation data (50 ns) indicated that chitin-binding site was comprised of 8 residues (DKEDRNEN). However, aspartate and glutamate significantly contributed in the stability of ligand binding. Computational findings were further verified via significant growth inhibition of Aspergillus flavus, A. niger, and Fusarium oxysporum against PsV. Additionally, the substantial adult population of Brevicoryne brassicae was reduced and different life stages of Tribolium castaneum also showed significant mortality.
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Affiliation(s)
- Ahsan Saeed
- Botany Division, Institute of Pure and Applied Biology, Bahauddin Zakariya University, Multan, Pakistan
| | - Zahra Rafiq
- Botany Division, Institute of Pure and Applied Biology, Bahauddin Zakariya University, Multan, Pakistan
| | - Muhammad Imran
- Forman Christian College (A Chartered University), Lahore, Pakistan
| | - Qamar Saeed
- Department of Entomology, Bahauddin Zakariya University, Multan, Pakistan
| | - Muhammad Q Saeed
- Department of Microbiology, Institute of Pure and Applied Biology, Bahauddin Zakariya University, Multan, Pakistan
| | - Zahid Ali
- Department of Biosciences, Plant Biotechnology and Molecular Pharming Lab, COMSATS University, Islamabad, Pakistan
| | - Rana K Iqbal
- Institute of Molecular Biology and Biotechnology, Bahauddin Zakariya University, Multan, Pakistan
| | - Saber Hussain
- Botany Division, Institute of Pure and Applied Biology, Bahauddin Zakariya University, Multan, Pakistan
| | - Binish Khaliq
- Department of Botany, University of Okara, Okara, Pakistan
| | - Sohaib Mehmood
- Botany Division, Institute of Pure and Applied Biology, Bahauddin Zakariya University, Multan, Pakistan
| | - Ahmed Akrem
- Botany Division, Institute of Pure and Applied Biology, Bahauddin Zakariya University, Multan, Pakistan
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Santos J, Ventura S. Functional Amyloids Germinate in Plants. TRENDS IN PLANT SCIENCE 2021; 26:7-10. [PMID: 33097401 DOI: 10.1016/j.tplants.2020.10.001] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/04/2020] [Revised: 10/06/2020] [Accepted: 10/08/2020] [Indexed: 06/11/2023]
Abstract
First identified in human disorders, amyloids serve biological functions in bacteria, archaea, fungi, and animals; however, their role in plants has remained unexplored. Recently, Antonets et al. identified a functional amyloid in plants, with a crucial role in seed longevity, confirming that amyloids are universally exploited for organisms' adaptation.
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Affiliation(s)
- Jaime Santos
- Institut de Biotecnologia i Biomedicina, Universitat Autònoma de Barcelona, 08193-Bellaterra, Spain; Departament de Bioquímica i Biologia Molecular, Universitat Autònoma de Barcelona, 08193-Bellaterra, Spain
| | - Salvador Ventura
- Institut de Biotecnologia i Biomedicina, Universitat Autònoma de Barcelona, 08193-Bellaterra, Spain; Departament de Bioquímica i Biologia Molecular, Universitat Autònoma de Barcelona, 08193-Bellaterra, Spain.
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Antonets KS, Belousov MV, Sulatskaya AI, Belousova ME, Kosolapova AO, Sulatsky MI, Andreeva EA, Zykin PA, Malovichko YV, Shtark OY, Lykholay AN, Volkov KV, Kuznetsova IM, Turoverov KK, Kochetkova EY, Bobylev AG, Usachev KS, Demidov ON, Tikhonovich IA, Nizhnikov AA. Accumulation of storage proteins in plant seeds is mediated by amyloid formation. PLoS Biol 2020; 18:e3000564. [PMID: 32701952 PMCID: PMC7377382 DOI: 10.1371/journal.pbio.3000564] [Citation(s) in RCA: 43] [Impact Index Per Article: 10.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/19/2019] [Accepted: 06/19/2020] [Indexed: 02/04/2023] Open
Abstract
Amyloids are protein aggregates with a highly ordered spatial structure giving them unique physicochemical properties. Different amyloids not only participate in the development of numerous incurable diseases but control vital functions in archaea, bacteria and eukarya. Plants are a poorly studied systematic group in the field of amyloid biology. Amyloid properties have not yet been demonstrated for plant proteins under native conditions in vivo. Here we show that seeds of garden pea Pisum sativum L. contain amyloid-like aggregates of storage proteins, the most abundant one, 7S globulin Vicilin, forms bona fide amyloids in vivo and in vitro. Full-length Vicilin contains 2 evolutionary conserved β-barrel domains, Cupin-1.1 and Cupin-1.2, that self-assemble in vitro into amyloid fibrils with similar physicochemical properties. However, Cupin-1.2 fibrils unlike Cupin-1.1 can seed Vicilin fibrillation. In vivo, Vicilin forms amyloids in the cotyledon cells that bind amyloid-specific dyes and possess resistance to detergents and proteases. The Vicilin amyloid accumulation increases during seed maturation and wanes at germination. Amyloids of Vicilin resist digestion by gastrointestinal enzymes, persist in canned peas, and exhibit toxicity for yeast and mammalian cells. Our finding for the first time reveals involvement of amyloid formation in the accumulation of storage proteins in plant seeds.
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Affiliation(s)
- Kirill S. Antonets
- All-Russia Research Institute for Agricultural Microbiology (ARRIAM), St. Petersburg, Russia
- St. Petersburg State University, St. Petersburg, Russia
| | - Mikhail V. Belousov
- All-Russia Research Institute for Agricultural Microbiology (ARRIAM), St. Petersburg, Russia
- St. Petersburg State University, St. Petersburg, Russia
| | - Anna I. Sulatskaya
- Institute of Cytology, Russian Academy of Sciences, St. Petersburg, Russia
| | - Maria E. Belousova
- All-Russia Research Institute for Agricultural Microbiology (ARRIAM), St. Petersburg, Russia
| | - Anastasiia O. Kosolapova
- All-Russia Research Institute for Agricultural Microbiology (ARRIAM), St. Petersburg, Russia
- St. Petersburg State University, St. Petersburg, Russia
| | - Maksim I. Sulatsky
- Institute of Cytology, Russian Academy of Sciences, St. Petersburg, Russia
| | | | | | - Yury V. Malovichko
- All-Russia Research Institute for Agricultural Microbiology (ARRIAM), St. Petersburg, Russia
- St. Petersburg State University, St. Petersburg, Russia
| | - Oksana Y. Shtark
- All-Russia Research Institute for Agricultural Microbiology (ARRIAM), St. Petersburg, Russia
| | | | | | | | | | | | - Alexander G. Bobylev
- Institute of Theoretical and Experimental Biophysics, Russian Academy of Sciences, Pushchino, Moscow Region, Russia
| | - Konstantin S. Usachev
- Laboratory of Structural Biology, Institute of Fundamental Medicine and Biology, Kazan Federal University, Kazan, Russia
| | - Oleg. N. Demidov
- Institute of Cytology, Russian Academy of Sciences, St. Petersburg, Russia
- INSERM UMR1231, UBFC, Dijon, France
| | - Igor A. Tikhonovich
- All-Russia Research Institute for Agricultural Microbiology (ARRIAM), St. Petersburg, Russia
- St. Petersburg State University, St. Petersburg, Russia
| | - Anton A. Nizhnikov
- All-Russia Research Institute for Agricultural Microbiology (ARRIAM), St. Petersburg, Russia
- St. Petersburg State University, St. Petersburg, Russia
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