1
|
Kamaruzzaman M, Zheng L, Zhou S, Ye W, Yuan Y, Qi Q, Gao Y, Tan J, Wang Y, Chen B, Li Z, Liu S, Mi R, Zhang K, Zhao C, Ahmed W, Wang X. Evaluation of the novel endophytic fungus Chaetomium ascotrichoides 1-24-2 from Pinus massoniana as a biocontrol agent against pine wilt disease caused by Bursaphelenchus xylophilus. PEST MANAGEMENT SCIENCE 2024. [PMID: 38860543 DOI: 10.1002/ps.8205] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/07/2024] [Revised: 05/11/2024] [Accepted: 05/15/2024] [Indexed: 06/12/2024]
Abstract
BACKGROUND Bursaphelenchus xylophilus, the causative agent of pine wilt disease (PWD), is an ever-increasing threat to Pinus forests worldwide. This study aimed to develop biological control of PWD by the application of endophytic fungi isolated from healthy pine trees. RESULTS We successfully isolated a novel endophytic fungal strain 1-24-2 from branches of healthy Pinus massoniana. The culture filtrates (CFs) of strain 1-24-2 exhibited strong nematicidal activity against Bursaphelenchus xylophilus, with a corrected mortality rate of 99.00%. Based on the morphological and molecular characteristics, the isolated strain 1-24-2 was identified as Chaetomium ascotrichoides. In the in-planta assay, pine seedlings (2-years-old) treated with 1-24-2 CFs + pine wood nematode (T2) showed a significant control effect of 80%. A total of 24 toxic compounds were first identified from 1-24-2 CFs through gas chromatography-mass spectrometry (GC-MS) analysis, from which O-methylisourea, 2-chlorobenzothiazole, and 4,5,6-trihydroxy-7-methylphthalide showed robust binding sites at Tyr119 against phosphoethanolamine methyltransferase (PMT) protein of Bursaphelenchus xylophilus by molecular docking approach and could be used as potential compounds for developing effective nematicides. Interestingly, strain 1-24-2 produces toxic volatile organic compounds (VOCs), which disturb the natural development process of B. xylophilus, whose total number decreased by up to 83.32% in the treatment group as compared to control and also reduced Botrytis cinerea growth by up to 71.01%. CONCLUSION Our results highlight the potential of C. ascotrichoides 1-24-2 as a promising biocontrol agent with solid nematicidal activity against B. xylophilus. This is the first report of C. ascotrichoides isolated from P. massoniana exhibiting strong biocontrol potential against B. xylophilus in the world. © 2024 Society of Chemical Industry.
Collapse
Affiliation(s)
- Md Kamaruzzaman
- Guangdong Province Key Laboratory of Microbial Signals and Disease Control, College of Plant Protection, South China Agricultural University, Guangzhou, China
| | - Lijun Zheng
- Guangdong Province Key Laboratory of Microbial Signals and Disease Control, College of Plant Protection, South China Agricultural University, Guangzhou, China
| | - Shun Zhou
- Guangdong Province Key Laboratory of Microbial Signals and Disease Control, College of Plant Protection, South China Agricultural University, Guangzhou, China
| | - Wenhua Ye
- Guangdong Province Key Laboratory of Microbial Signals and Disease Control, College of Plant Protection, South China Agricultural University, Guangzhou, China
| | - Yongqiang Yuan
- Guangdong Province Key Laboratory of Microbial Signals and Disease Control, College of Plant Protection, South China Agricultural University, Guangzhou, China
| | - Qiu Qi
- Guangdong Province Key Laboratory of Microbial Signals and Disease Control, College of Plant Protection, South China Agricultural University, Guangzhou, China
| | - Yongfeng Gao
- Key Laboratory for Biobased Materials and Energy of Ministry of Education, College of Materials and Energy, South China Agricultural University, Guangzhou, China
| | - Jiajin Tan
- College of Forestry and Grassland, Collaborative Innovation Center of Modern Forestry in South China, Nanjing Forestry University, Nanjing, China
| | - Yan Wang
- Guangdong Province Key Laboratory of Microbial Signals and Disease Control, College of Plant Protection, South China Agricultural University, Guangzhou, China
| | - Bingjia Chen
- Guangdong Province Key Laboratory of Microbial Signals and Disease Control, College of Plant Protection, South China Agricultural University, Guangzhou, China
| | - Zhiguang Li
- Guangdong Province Key Laboratory of Microbial Signals and Disease Control, College of Plant Protection, South China Agricultural University, Guangzhou, China
| | - Songsong Liu
- Guangdong Province Key Laboratory of Microbial Signals and Disease Control, College of Plant Protection, South China Agricultural University, Guangzhou, China
| | - Renjun Mi
- Forestry Bureau of Chenxi County, Huaihua, China
| | - Ke Zhang
- Guangdong Province Key Laboratory of Microbial Signals and Disease Control, College of Plant Protection, South China Agricultural University, Guangzhou, China
| | - Chen Zhao
- Guangdong Province Key Laboratory of Microbial Signals and Disease Control, College of Plant Protection, South China Agricultural University, Guangzhou, China
| | - Waqar Ahmed
- Guangdong Province Key Laboratory of Microbial Signals and Disease Control, College of Plant Protection, South China Agricultural University, Guangzhou, China
| | - Xinrong Wang
- Guangdong Province Key Laboratory of Microbial Signals and Disease Control, College of Plant Protection, South China Agricultural University, Guangzhou, China
| |
Collapse
|
2
|
Cardoso JMS, Manadas B, Abrantes I, Robertson L, Arcos SC, Troya MT, Navas A, Fonseca L. Pine wilt disease: what do we know from proteomics? BMC PLANT BIOLOGY 2024; 24:98. [PMID: 38331735 PMCID: PMC10854151 DOI: 10.1186/s12870-024-04771-9] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/10/2023] [Accepted: 01/26/2024] [Indexed: 02/10/2024]
Abstract
Pine wilt disease (PWD) is a devastating forest disease caused by the pinewood nematode (PWN), Bursaphelenchus xylophilus, a migratory endoparasite that infects several coniferous species. During the last 20 years, advances have been made for understanding the molecular bases of PWN-host trees interactions. Major advances emerged from transcriptomic and genomic studies, which revealed some unique features related to PWN pathogenicity and constituted fundamental data that allowed the development of postgenomic studies. Here we review the proteomic approaches that were applied to study PWD and integrated the current knowledge on the molecular basis of the PWN pathogenicity. Proteomics has been useful for understanding cellular activities and protein functions involved in PWN-host trees interactions, shedding light into the mechanisms associated with PWN pathogenicity and being promising tools to better clarify host trees PWN resistance/susceptibility.
Collapse
Affiliation(s)
- Joana M S Cardoso
- Centre for Functional Ecology, Associate Laboratory TERRA, Department of Life Sciences, University of Coimbra, Calçada Martins de Freitas, Coimbra, 3000-456, Portugal.
| | - Bruno Manadas
- CNC-Center for Neuroscience and Cell Biology, University of Coimbra, Rua Larga, Polo I, Coimbra, 3004-504, Portugal
- CIBB - Centre for Innovative Biomedicine and Biotechnology, University of Coimbra, Rua Larga - Faculdade de Medicina, 1ºandar - POLO I, Coimbra, 3004-504, Portugal
| | - Isabel Abrantes
- Centre for Functional Ecology, Associate Laboratory TERRA, Department of Life Sciences, University of Coimbra, Calçada Martins de Freitas, Coimbra, 3000-456, Portugal
| | - Lee Robertson
- Instituto Nacional de Investigación y Tecnología Agraria y Alimentaria, CSIC. Instituto de Ciencias Forestales (ICIFOR), Ctra. de La Coruña Km 7.5, Madrid, 28040, Spain
| | - Susana C Arcos
- Museo Nacional de Ciencias Naturales, CSIC. Dpto Biodiversidad y Biología Evolutiva, C/ José Gutiérrez Abascal 2, Madrid, 28006, Spain
| | - Maria Teresa Troya
- Instituto Nacional de Investigación y Tecnología Agraria y Alimentaria, CSIC. Instituto de Ciencias Forestales (ICIFOR), Ctra. de La Coruña Km 7.5, Madrid, 28040, Spain
| | - Alfonso Navas
- Museo Nacional de Ciencias Naturales, CSIC. Dpto Biodiversidad y Biología Evolutiva, C/ José Gutiérrez Abascal 2, Madrid, 28006, Spain
| | - Luís Fonseca
- Centre for Functional Ecology, Associate Laboratory TERRA, Department of Life Sciences, University of Coimbra, Calçada Martins de Freitas, Coimbra, 3000-456, Portugal
| |
Collapse
|
3
|
H. El-Demerdash S, F. Gad S, M. El-Mehasseb I, E. El-Kelany K. Isosterism in pyrrole via azaboroles substitution, a theoretical investigation for electronic structural, stability and aromaticity. Heliyon 2023; 9:e20542. [PMID: 37810871 PMCID: PMC10551570 DOI: 10.1016/j.heliyon.2023.e20542] [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: 05/04/2023] [Revised: 08/26/2023] [Accepted: 09/28/2023] [Indexed: 10/10/2023] Open
Abstract
This work uses ab-initio CBS-QB3 and density functional theory (B3LYP) to analyze the structure, stability, and aromaticity of all isosteric nitrogen-boron pyrroles. The mono-NB unit substituted group of the isosteric NB pyrrole has four isosteres, whereas the multi-NB unit substituted group has two isosteres. These two groups make up all isosteric NB pyrrole. For structural, energetic, magnetic, and electron delocalization criteria, the results highlight the predominance of the PN3B2 isostere and its greater stability over other conformers. In addition, the global reactivity indices, ESP, HOMO-LUMO, and NBO charges have all been estimated to forecast the active side's electron donation and acceptance. These isosteres are categorized as weak electrophiles and marginal nucleophiles. NB-isosteres have poorer stability, HOMO-LUMO gap, and aromaticity than the parent (pyrrole). In general, NB compounds with more ring sharing are less aromatic than NB molecules with less ring sharing. The current study is anticipated to help in understanding of the chemistry of NB substituted molecules and their experimental identification and characterization.
Collapse
Affiliation(s)
| | - Shaimaa F. Gad
- Chemistry Department, Faculty of Science, Kafrelsheikh University, 33516, Kafr el-Sheikh, Egypt
| | - Ibrahim M. El-Mehasseb
- Chemistry Department, Faculty of Science, Kafrelsheikh University, 33516, Kafr el-Sheikh, Egypt
| | - Khaled E. El-Kelany
- Institute of Nanoscience and Nanotechnology, Kafrelsheikh University, 33516, Kafr el-skiekh, Egypt
| |
Collapse
|
4
|
Rani S, Kumar P, Dahiya P, Maheshwari R, Dang AS, Suneja P. Endophytism: A Multidimensional Approach to Plant-Prokaryotic Microbe Interaction. Front Microbiol 2022; 13:861235. [PMID: 35633681 PMCID: PMC9135327 DOI: 10.3389/fmicb.2022.861235] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/24/2022] [Accepted: 03/11/2022] [Indexed: 11/20/2022] Open
Abstract
Plant growth and development are positively regulated by the endophytic microbiome via both direct and indirect perspectives. Endophytes use phytohormone production to promote plant health along with other added benefits such as nutrient acquisition, nitrogen fixation, and survival under abiotic and biotic stress conditions. The ability of endophytes to penetrate the plant tissues, reside and interact with the host in multiple ways makes them unique. The common assumption that these endophytes interact with plants in a similar manner as the rhizospheric bacteria is a deterring factor to go deeper into their study, and more focus was on symbiotic associations and plant–pathogen reactions. The current focus has shifted on the complexity of relationships between host plants and their endophytic counterparts. It would be gripping to inspect how endophytes influence host gene expression and can be utilized to climb the ladder of “Sustainable agriculture.” Advancements in various molecular techniques have provided an impetus to elucidate the complexity of endophytic microbiome. The present review is focused on canvassing different aspects concerned with the multidimensional interaction of endophytes with plants along with their application.
Collapse
Affiliation(s)
- Simran Rani
- Plant Microbe Interaction Laboratory, Department of Microbiology, Maharshi Dayanand University, Rohtak, India
| | - Pradeep Kumar
- Plant Microbe Interaction Laboratory, Department of Microbiology, Maharshi Dayanand University, Rohtak, India
| | - Priyanka Dahiya
- Plant Microbe Interaction Laboratory, Department of Microbiology, Maharshi Dayanand University, Rohtak, India
| | - Rajat Maheshwari
- Plant Microbe Interaction Laboratory, Department of Microbiology, Maharshi Dayanand University, Rohtak, India
| | - Amita Suneja Dang
- Centre for Medical Biotechnology, Maharshi Dayanand University, Rohtak, India
| | - Pooja Suneja
- Plant Microbe Interaction Laboratory, Department of Microbiology, Maharshi Dayanand University, Rohtak, India
| |
Collapse
|
5
|
Samsonowicz M, Gołębiewska E, Wołejko E, Wydro U, Świderski G, Zwolińska J, Kalinowska M, Lewandowski W. Spectroscopic, Thermal, Microbiological, and Antioxidant Study of Alkali Metal 2-Hydroxyphenylacetates. MATERIALS 2021; 14:ma14247824. [PMID: 34947419 PMCID: PMC8708765 DOI: 10.3390/ma14247824] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 10/04/2021] [Revised: 12/10/2021] [Accepted: 12/15/2021] [Indexed: 11/29/2022]
Abstract
The structural, spectral, thermal, and biological properties of hydroxyphenylacetic acid and lithium, sodium, potassium, rubidium, and cesium 2-hydroxyphenylacetates were analyzed by means of infrared spectroscopy FT-IR, electronic absorption spectroscopy UV-VIS, nuclear magnetic resonance 1H and 13C NMR, thermogravimetric analysis (TG/DSC), and quantum-chemical calculations at B3LYP/6-311++G** level. Moreover, the antioxidant (ABTS, FRAP, and CUPRAC assays), antibacterial (against E. coli, K. aerogenes, P. fluorescens, and B. subtilis) and antifungal (against C. albicans) properties of studied compounds were measured. The effect of alkali metal ions on the structure, thermal, and biological properties of 2-hydroxyphenylacetates was discussed.
Collapse
Affiliation(s)
- Mariola Samsonowicz
- Department of Chemistry, Biology and Biotechnology, Institute of Civil Engineering and Energetics, Faculty of Civil Engineering and Environmental Science, Bialystok University of Technology, Wiejska 45E Street, 15-351 Bialystok, Poland; (E.G.); (E.W.); (U.W.); (G.Ś.); (M.K.); (W.L.)
- Correspondence:
| | - Ewelina Gołębiewska
- Department of Chemistry, Biology and Biotechnology, Institute of Civil Engineering and Energetics, Faculty of Civil Engineering and Environmental Science, Bialystok University of Technology, Wiejska 45E Street, 15-351 Bialystok, Poland; (E.G.); (E.W.); (U.W.); (G.Ś.); (M.K.); (W.L.)
| | - Elżbieta Wołejko
- Department of Chemistry, Biology and Biotechnology, Institute of Civil Engineering and Energetics, Faculty of Civil Engineering and Environmental Science, Bialystok University of Technology, Wiejska 45E Street, 15-351 Bialystok, Poland; (E.G.); (E.W.); (U.W.); (G.Ś.); (M.K.); (W.L.)
| | - Urszula Wydro
- Department of Chemistry, Biology and Biotechnology, Institute of Civil Engineering and Energetics, Faculty of Civil Engineering and Environmental Science, Bialystok University of Technology, Wiejska 45E Street, 15-351 Bialystok, Poland; (E.G.); (E.W.); (U.W.); (G.Ś.); (M.K.); (W.L.)
| | - Grzegorz Świderski
- Department of Chemistry, Biology and Biotechnology, Institute of Civil Engineering and Energetics, Faculty of Civil Engineering and Environmental Science, Bialystok University of Technology, Wiejska 45E Street, 15-351 Bialystok, Poland; (E.G.); (E.W.); (U.W.); (G.Ś.); (M.K.); (W.L.)
| | - Joanna Zwolińska
- Centre for Advanced Technologies, Adam Mickiewicz University, Uniwersytetu Poznańskiego 10 Street, 61-614 Poznan, Poland;
| | - Monika Kalinowska
- Department of Chemistry, Biology and Biotechnology, Institute of Civil Engineering and Energetics, Faculty of Civil Engineering and Environmental Science, Bialystok University of Technology, Wiejska 45E Street, 15-351 Bialystok, Poland; (E.G.); (E.W.); (U.W.); (G.Ś.); (M.K.); (W.L.)
| | - Włodzimierz Lewandowski
- Department of Chemistry, Biology and Biotechnology, Institute of Civil Engineering and Energetics, Faculty of Civil Engineering and Environmental Science, Bialystok University of Technology, Wiejska 45E Street, 15-351 Bialystok, Poland; (E.G.); (E.W.); (U.W.); (G.Ś.); (M.K.); (W.L.)
| |
Collapse
|
6
|
Preliminary investigation of drug impurities associated with the anti-influenza drug Favipiravir - An insilico approach. COMPUT THEOR CHEM 2021; 1204:113375. [PMID: 34306990 PMCID: PMC8285362 DOI: 10.1016/j.comptc.2021.113375] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/13/2021] [Revised: 07/05/2021] [Accepted: 07/07/2021] [Indexed: 01/08/2023]
Abstract
The role of repurposed or modified antiviral drugs has become more significant during the current global pandemic of SARS Covid-19. In the present study, four structurally analogous impurity molecules of antiviral drug Favipiravir are selected for preliminary computational investigation for assessing the structure-activity relationship. The optimized geometry and the electronic structures of the compounds are computed using Density Functional Theory as a precursor to evaluating their physical, chemical and spectral properties. The frontier orbitals analysis is performed to obtain global reactivity parameters namely, the chemical potential, absolute electronegativity, global softness, global hardness, electrophilicity, etc. The natural Bond Orbital (NBO) analysis and Mulliken analysis provided an understanding of the charge-transfer interactions of molecules. The possibilities of intermolecular interactions of the drug systems with the receptors are also visualized using the electrostatic potential maps (MEP) derived from the DFT computations. The physiochemical properties are assessed computationally using SwissADME webtool to correlate the structural aspects of the compounds with their biological responses. Useful parameters namely flexibility, lipophilicity, size, polarity, solubility and saturation were also computed to evaluate the therapeutic activity or drug-likeness.
Collapse
|
7
|
Sharma PP, Kumar S, Kaushik K, Singh A, Singh IK, Grishina M, Pandey KC, Singh P, Potemkin V, Poonam, Singh G, Rathi B. In silico validation of novel inhibitors of malarial aspartyl protease, plasmepsin V and antimalarial efficacy prediction. J Biomol Struct Dyn 2021; 40:8352-8364. [PMID: 33870856 DOI: 10.1080/07391102.2021.1911855] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/21/2022]
Abstract
Plasmepsin V (Plm V) is an essential aspartic protease required for survival of the malaria parasite, Plasmodium falciparum (Pf). Plm V is required for cleaving the PEXEL motifs of many Pf proteins and its inhibition leads to a knockout effect, indicating its suitability as potential drug target. To decipher new inhibitors of PfPlm V, molecular docking of four HIV-1 protease inhibitors active against PfPlmV was performed on Glide module of Schrödinger suite that supported saquinavir as a lead drug, and therefore, selected as a control. Saquinavir contains an important hydroxyethylamine (HEA) pharmacophore, which was utilized as backbone coupled with piperazine scaffold to build new library of compounds. Newly designed HEA compounds were screened virtually against Plm V. Molecular docking led to a few hits (1 and 3) with higher docking score over the control drug. Notably, compound 1 showed the highest docking score (-11.90 kcal/mol) and XP Gscore (-11.948 kcal/mol). The Prime MMGBSA binding free energy for compound 1 (-60.88 kcal/mol) and 3 (-50.96 kcal/mol) was higher than saquinavir (-37.51 kcal/mol). The binding free energy for the last frame of molecular dynamic simulation supported compound 1 (-92.88 kcal/mol) as potent inhibitor of PfPlm V over saquinavir (-72.77 kcal/mol), and thus, deserves experimental validations in culture and subsequently in animal models.Communicated by Ramaswamy H. Sarma.
Collapse
Affiliation(s)
- Prem Prakash Sharma
- Department of Biomedical Engineering, Deenbandhu Chhotu Ram, University of Science & Technology, Murthal, Sonepat, Haryana, India.,Laboratory for Translational Chemistry and Drug Discovery, Department of Chemistry, Hansraj College, University of Delhi, Delhi, India
| | - Sumit Kumar
- Department of Chemistry, Miranda House, University of Delhi, Delhi, India
| | - Kumar Kaushik
- Centre for Fire, Explosives & Environment Safety, Fire Chemistry Group, Delhi, India
| | - Archana Singh
- Department of Botany, Hansraj College, University of Delhi, Delhi, India
| | - Indrakant K Singh
- Molecular Biology Research Lab., Department of Zoology, Deshbandhu College, University of Delhi, Delhi, India
| | - Maria Grishina
- Laboratory of Computational Modelling of Drugs, South Ural State University, Russia
| | - Kailash C Pandey
- Host-Parasite Interaction Biology Group, National Institute of Malaria Research, New Delhi, India
| | | | - Vladimir Potemkin
- Laboratory of Computational Modelling of Drugs, South Ural State University, Russia
| | - Poonam
- Department of Chemistry, Miranda House, University of Delhi, Delhi, India
| | - Geeta Singh
- Department of Biomedical Engineering, Deenbandhu Chhotu Ram, University of Science & Technology, Murthal, Sonepat, Haryana, India
| | - Brijesh Rathi
- Laboratory for Translational Chemistry and Drug Discovery, Department of Chemistry, Hansraj College, University of Delhi, Delhi, India.,Laboratory of Computational Modelling of Drugs, South Ural State University, Russia
| |
Collapse
|
8
|
Aromaticity indices, electronic structural properties, and fuzzy atomic space investigations of naphthalene and its aza-derivatives. Heliyon 2021; 7:e06138. [PMID: 33553781 PMCID: PMC7856479 DOI: 10.1016/j.heliyon.2021.e06138] [Citation(s) in RCA: 18] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/13/2020] [Revised: 12/21/2020] [Accepted: 01/26/2021] [Indexed: 11/23/2022] Open
Abstract
The aromaticity and CDFT properties of naphthalene and its aza-derivatives were theoretically investigated using density functional theory (DFT) electronic structure method. The reactivity and chemistry of Azanaphthalene (1-AN), 1, 2-diazanaphthalene (1, 2-DAN), 1, 3-diazanaphthalene (1, 3-DAN), 1, 4-diazanaphthalene (1,4-DAN), 1, 5-diazanaphthalene (1, 5-DAN), 1, 6-diazanaphthalene (1, 6-DAN), 1, 7-diazanaphthalene (1,7-DAN) and 1, 8-diazanaphthalene (1, 8-DAN) were thoroughly explored and predicted focusing more on the fuzzy atomic space analysis, quantum chemical descriptors (CDFT), natural bond orbital (NBO), and structural electronic properties. The CDFT is focused on predicting the condensed Fukui function and dual descriptors along with condensed local electrophilicity and nucleophilicity investigation. From the aromaticity computational study, 1,7-DAN gave PDI, FLU, FLU- π , PLR, HOMA, BIRD and LOLIPOP values of approximately one (1) was found to be the most aromatic in the group, and strongest π -stacking ability. The aromaticity follows the trend: 1, 7-DAN > 1, 8-DAN > 1, 5-DAN > 1, 6-DAN > 1, 4-DAN > 1, 2-DAN > 1-AN > naphthalene. The second order perturbation energy NBO analysis revealed that the 3 highest stabilization energies in the molecules are C6-Na to C3-C4 ( π ∗ - π ∗ 236.90 kcal/mol) of 1, 6-DAN, C3-C4 to C1-C2 ( π ∗ - π ∗ 236.37 kcal/mol) of 1-AN and C7-N10 to C2-C4 ( π ∗ - π ∗ 235 kcal/mol) of 1, 3-DAN.
Collapse
|
9
|
|
10
|
Lesson from Ecotoxicity: Revisiting the Microbial Lipopeptides for the Management of Emerging Diseases for Crop Protection. INTERNATIONAL JOURNAL OF ENVIRONMENTAL RESEARCH AND PUBLIC HEALTH 2020; 17:ijerph17041434. [PMID: 32102264 PMCID: PMC7068399 DOI: 10.3390/ijerph17041434] [Citation(s) in RCA: 23] [Impact Index Per Article: 5.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 12/30/2019] [Revised: 02/18/2020] [Accepted: 02/19/2020] [Indexed: 11/17/2022]
Abstract
Microorganisms area treasure in terms of theproduction of various bioactive compounds which are being explored in different arenas of applied sciences. In agriculture, microbes and their bioactive compounds are being utilized in growth promotion and health promotion withnutrient fortification and its acquisition. Exhaustive explorations are unraveling the vast diversity of microbialcompounds with their potential usage in solving multiferous problems incrop production. Lipopeptides are one of such microbial compounds which havestrong antimicrobial properties against different plant pathogens. These compounds are reported to be produced by bacteria, cyanobacteria, fungi, and few other microorganisms; however, genus Bacillus alone produces a majority of diverse lipopeptides. Lipopeptides are low molecular weight compounds which havemultiple industrial roles apart from being usedas biosurfactants and antimicrobials. In plant protection, lipopeptides have wide prospects owing totheirpore-forming ability in pathogens, siderophore activity, biofilm inhibition, and dislodging activity, preventing colonization bypathogens, antiviral activity, etc. Microbes with lipopeptides that haveall these actions are good biocontrol agents. Exploring these antimicrobial compounds could widen the vistasof biological pest control for existing and emerging plant pathogens. The broader diversity and strong antimicrobial behavior of lipopeptides could be a boon for dealing withcomplex pathosystems and controlling diseases of greater economic importance. Understanding which and how these compounds modulate the synthesis and production of defense-related biomolecules in the plants is a key question—the answer of whichneeds in-depth investigation. The present reviewprovides a comprehensive picture of important lipopeptides produced by plant microbiome, their isolation, characterization, mechanisms of disease control, behavior against phytopathogens to understand different aspects of antagonism, and potential prospects for future explorations as antimicrobial agents. Understanding and exploring the antimicrobial lipopeptides from bacteria and fungi could also open upan entire new arena of biopesticides for effective control of devastating plant diseases.
Collapse
|
11
|
Zhao F, Wang P, Lucardi RD, Su Z, Li S. Natural Sources and Bioactivities of 2,4-Di-Tert-Butylphenol and Its Analogs. Toxins (Basel) 2020; 12:E35. [PMID: 31935944 PMCID: PMC7020479 DOI: 10.3390/toxins12010035] [Citation(s) in RCA: 105] [Impact Index Per Article: 26.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/08/2019] [Revised: 12/14/2019] [Accepted: 12/16/2019] [Indexed: 11/16/2022] Open
Abstract
2,4-Di-tert-butylphenol or 2,4-bis(1,1-dimethylethyl)-phenol (2,4-DTBP) is a common toxic secondary metabolite produced by various groups of organisms. The biosources and bioactivities of 2,4-DTBP have been well investigated, but the phenol has not been systematically reviewed. This article provides a comprehensive review of 2,4-DTBP and its analogs with emphasis on natural sources and bioactivities. 2,4-DTBP has been found in at least 169 species of bacteria (16 species, 10 families), fungi (11 species, eight families), diatom (one species, one family), liverwort (one species, one family), pteridiphyta (two species, two families), gymnosperms (four species, one family), dicots (107 species, 58 families), monocots (22 species, eight families), and animals (five species, five families). 2,4-DTBP is often a major component of violate or essential oils and it exhibits potent toxicity against almost all testing organisms, including the producers; however, it is not clear why organisms produce autotoxic 2,4-DTBP and its analogs. The accumulating evidence indicates that the endocidal regulation seems to be the primary function of the phenols in the producing organisms.
Collapse
Affiliation(s)
- Fuqiang Zhao
- College of Life Science and Bioengineering, Shenyang University, Shenyang 110044, Liaoning, China;
- CAS Key Laboratory of Forest Ecology and Management, Institute of Applied Ecology, Chinese Academy of Sciences, Shenyang 110016, Liaoning, China
| | - Ping Wang
- National Center for Pharmaceutical Crops, Arthur Temple College of Forestry and Agriculture, Stephen F. Austin State University, Nacogdoches, TX 75962, USA (Z.S.)
| | - Rima D. Lucardi
- Southern Research Station, USDA Forest Service, 320 Green Street, Athens, GA 30602, USA;
| | - Zushang Su
- National Center for Pharmaceutical Crops, Arthur Temple College of Forestry and Agriculture, Stephen F. Austin State University, Nacogdoches, TX 75962, USA (Z.S.)
| | - Shiyou Li
- National Center for Pharmaceutical Crops, Arthur Temple College of Forestry and Agriculture, Stephen F. Austin State University, Nacogdoches, TX 75962, USA (Z.S.)
| |
Collapse
|
12
|
Anitha D, Suganthi M, Gnanendra S, Govarthanan M. Identification of Potential Carbonic Anhydrase Inhibitors for Glaucoma Treatment Through an In-Silico Approach. Int J Pept Res Ther 2020. [DOI: 10.1007/s10989-019-10011-8] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/25/2022]
|
13
|
Cob-Calan NN, Chi-Uluac LA, Ortiz-Chi F, Cerqueda-García D, Navarrete-Vázquez G, Ruiz-Sánchez E, Hernández-Núñez E. Molecular Docking and Dynamics Simulation of Protein β-Tubulin and Antifungal Cyclic Lipopeptides. Molecules 2019; 24:molecules24183387. [PMID: 31540347 PMCID: PMC6767525 DOI: 10.3390/molecules24183387] [Citation(s) in RCA: 22] [Impact Index Per Article: 4.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/13/2019] [Revised: 09/08/2019] [Accepted: 09/15/2019] [Indexed: 02/06/2023] Open
Abstract
To elucidate interactions between the antifungal cyclic lipopeptides iturin A, fengycin, and surfactin produced by Bacillus bacteria and the microtubular protein β-tubulin in plant pathogenic fungi (Fusarium oxysporum, Colletrotrichum gloeosporioides, Alternaria alternata, and Fusarium solani) in molecular docking and molecular dynamics simulations, we retrieved the structure of tubulin co-crystallized with taxol from the Protein Data Bank (PDB) (ID: 1JFF) and the structure of the cyclic lipopeptides from PubChem (Compound CID: 102287549, 100977820, 10129764). Similarity and homology analyses of the retrieved β-tubulin structure with those of the fungi showed that the conserved domains shared 84% similarity, and the root mean square deviation (RMSD) was less than 2 Å. In the molecular docking studies, within the binding pocket, residues Pro274, Thr276, and Glu27 of β-tubulin were responsible for the interaction with the cyclic lipopeptides. In the molecular dynamics analysis, two groups of ligands were formed based on the number of poses analyzed with respect to the RMSD. Group 1 was made up of 10, 100, and 500 poses with distances 0.080 to 0.092 nm and RMSDs of 0.10 to 0.15 nm. For group 2, consisting of 1000 poses, the initial and final distance was 0.1 nm and the RMSDs were in the range of 0.10 to 0.30 nm. These results suggest that iturin A and fengycin bind with higher affinity than surfactin to β-tubulin. These two lipopeptides may be used as lead compounds to develop new antifungal agents or employed directly as biorational products to control plant pathogenic fungi.
Collapse
Affiliation(s)
- Nubia Noemi Cob-Calan
- Tecnológico Nacional de Mexico, Instituto Tecnológico de Conkal, Conkal C.P.97345, Yucatán, Mexico.
| | - Luz America Chi-Uluac
- Departamento de Física Aplicada, CINVESTAV-IPN Unidad Mérida, Mérida C.P. 97310, Yucatán, Mexico.
| | - Filiberto Ortiz-Chi
- CONACYT-Universidad Juárez Autónoma de Tabasco, Centro de Investigación de Ciencia y Tecnología Aplicada de Tabasco, Cunduacán C.P.86690, Tabasco, Mexico.
| | - Daniel Cerqueda-García
- CONACYT-Departamento de Recursos del Mar, CINVESTAV-IPN Unidad Mérida, Mérida C.P.97310, Yucatán, Mexico.
| | - Gabriel Navarrete-Vázquez
- Facultad de Farmacia, Universidad Autónoma del Estado de Morelos, Cuernavaca C.P.62209, Morelos, Mexico.
| | - Esaú Ruiz-Sánchez
- Tecnológico Nacional de Mexico, Instituto Tecnológico de Conkal, Conkal C.P.97345, Yucatán, Mexico.
| | - Emanuel Hernández-Núñez
- CONACYT-Departamento de Recursos del Mar, CINVESTAV-IPN Unidad Mérida, Mérida C.P.97310, Yucatán, Mexico.
| |
Collapse
|
14
|
In Silico Identification of Potential Inhibitor Against a Fungal Histone Deacetylase, RPD3 from Magnaporthe Oryzae. Molecules 2019; 24:molecules24112075. [PMID: 31151320 PMCID: PMC6600661 DOI: 10.3390/molecules24112075] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/01/2019] [Revised: 05/26/2019] [Accepted: 05/30/2019] [Indexed: 11/28/2022] Open
Abstract
Histone acetylation and deacetylation play an essential role in the epigenetic regulation of gene expression. Histone deacetylases (HDAC) are a group of zinc-binding metalloenzymes that catalyze the removal of acetyl moieties from lysine residues from histone tails. These enzymes are well known for their wide spread biological effects in eukaryotes. In rice blast fungus, Magnaporthe oryzae, MoRPD3 (an ortholog of Saccharomyces cerevisiae Rpd3) was shown to be required for growth and development. Thus in this study, the class I HDAC, MoRpd3 is considered as a potential drug target, and its 3D structure was modelled and validated. Based on the model, a total of 1880 compounds were virtually screened (molecular docking) against MoRpd3 and the activities of the compounds were assessed by docking scores. The in silico screening suggested that [2-[[4-(2-methoxyethyl) phenoxy] methyl] phenyl] boronic acid (−8.7 kcal/mol) and [4-[[4-(2-methoxyethyl) phenoxy] methyl] phenyl] boronic acid (−8.5 kcal/mol) are effective in comparison to trichostatin A (−7.9 kcal/mol), a well-known general HDAC inhibitor. The in vitro studies for inhibition of appressorium formation by [2-[[4-(2-methoxyethyl) phenoxy] methyl] phenyl] boronic acid has resulted in the maximum inhibition at lower concentrations (1 μM), while the trichostatin A exhibited similar levels of inhibition at 1.5 μM. These findings thus suggest that 3D quantitative structure activity relationship studies on [2-[[4-(2-methoxyethyl) phenoxy] methyl] phenyl] boronic acid compound can further guide the design of more potential and specific HDAC inhibitors.
Collapse
|