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Aljedaie MM, Alam P. In silico identification of human microRNAs pointing centrin genes in Leishmania donovani: Considering the RNAi-mediated gene control. Front Genet 2024; 14:1329339. [PMID: 38390455 PMCID: PMC10883313 DOI: 10.3389/fgene.2023.1329339] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/28/2023] [Accepted: 12/12/2023] [Indexed: 02/24/2024] Open
Abstract
Leishmaniasis, a parasitic disease caused by different species of the protozoa parasite Leishmania, is a neglected tropical human disease that is endemic in about a hundred countries worldwide. According to the World Health Organization (WHO), the annual incidence of cutaneous leishmaniasis (CL) is estimated to be 0.7-1.2 million cases globally, whereas the annual incidence of visceral leishmaniasis is estimated to be 0.2-0.4 million cases. In many eukaryotic organisms, including human beings and protozoan parasites, centrin genes encode proteins that play essential roles within the centrosome or basal body. Human microRNAs (miRNAs) have been linked to several infectious and non-infectious diseases associated with pathogen-host interactions, and they play the emphatic roles as gene expression regulators. In this study, we used the MirTarget bioinformatics tool, which is a machine learning-based approach implemented in miRDB, to predict the target of human miRNAs in Leishmania donovani centrin genes. For cross-validation, we utilized additional prediction algorithms, namely, RNA22 and RNAhybrid, targeting all five centrin isotypes. The centrin-3 (LDBPK_342160) and putative centrin-5 (NC_018236.1) genes in L. donovani were targeted by eight and twelve human miRNAs, respectively, among 2,635 known miRNAs (miRBase). hsa-miR-5193 consistently targeted both genes. Using TargetScan, TarBase, miRecords, and miRTarBase, we identified miRNA targets and off-targets in human homologs of centrin, inflammation, and immune-responsive genes. Significant targets were screened based on GO terminologies and KEGG pathway-enrichment analysis (Log10 p-value >0.0001). In silico tools that predict the biological roles of human miRNAs as primary gene regulators in pathogen-host interactions help unravel the regulatory patterns of these miRNAs, particularly in the early stages of inflammatory responses. It is also noted that these miRNAs played an important role in the late phase of adaptive immune response, inclusively their impacts on the immune system's response to L. donovani.
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Affiliation(s)
- Manei M Aljedaie
- Department of Biology, College of Sciences and Humanities, Prince Sattam Bin Abdulaziz University, Al-Kharj, Saudi Arabia
| | - Pravej Alam
- Department of Biology, College of Sciences and Humanities, Prince Sattam Bin Abdulaziz University, Al-Kharj, Saudi Arabia
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da Silva F, Rizk YS, das Neves AR, Lourenço EMG, Ferreira AMT, Monteiro MM, de Lima DP, Perdomo RT, Bonfá IS, Toffoli-Kadri MC, Duarte AP, Nunes DM, Martines MAU, Piranda EM, de Arruda CCP. Antileishmanial Activity, Toxicity and Mechanism of Action of Complexes of Sodium Usnate with Lanthanide Ions: Eu(III), Sm(III), Gd(III), Nd(III), La(III) and Tb(III). Int J Mol Sci 2023; 25:413. [PMID: 38203584 PMCID: PMC10779311 DOI: 10.3390/ijms25010413] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/09/2023] [Revised: 09/09/2023] [Accepted: 09/12/2023] [Indexed: 01/12/2024] Open
Abstract
Leishmaniases are neglected diseases with limited therapeutic options. Diffuse cutaneous leishmaniasis can occur in Brazil due to Leishmania amazonensis. This study details the antileishmanial activity and cytotoxicity of complexes of sodium usnate (SAU) with lanthanide ions ([LnL3 (H2O)x] (Ln = La(III), Nd(III), Gd(III), Tb(III), Eu(III) and Sm(III); L = SAU). All lanthanide complexes were highly active and more potent than SAU against L. amazonensis promastigotes and intracellular amastigotes (Pro: IC50 < 1.50 μM; Ama: IC50 < 7.52 μM). EuL3·3H2O and NdL3·3H2O were the most selective and effective on intracellular amastigotes, with a selectivity index of approximately 7.0. In silico predictions showed no evidence of mutagenicity, tumorigenicity or irritation for all complexes. Treatment with EuL3·3H2O triggered NO release even at the lowest concentration, indicating NO production as a mechanism of action against the parasite. Incubating promastigotes with the lanthanide complexes, particularly with SmL3·4H2O and GdL3·3H2O, led to a change in the mitochondrial membrane potential, indicating the ability of these complexes to target this essential organelle. The same complexes caused cell death through cell membrane disruption, but their relationship with early or late apoptotic processes remains unclear. Thus, the inclusion of lanthanide ions in SAU improves selectivity with a promising mechanism of action targeting the mitochondria.
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Affiliation(s)
- Fernanda da Silva
- Laboratório de Parasitologia Humana, Instituto de Biociências, Universidade Federal de Mato Grosso do Sul (UFMS), Campo Grande 79070-900, Brazil; (F.d.S.); (Y.S.R.); (A.R.d.N.); (E.M.P.)
| | - Yasmin Silva Rizk
- Laboratório de Parasitologia Humana, Instituto de Biociências, Universidade Federal de Mato Grosso do Sul (UFMS), Campo Grande 79070-900, Brazil; (F.d.S.); (Y.S.R.); (A.R.d.N.); (E.M.P.)
| | - Amarith Rodrigues das Neves
- Laboratório de Parasitologia Humana, Instituto de Biociências, Universidade Federal de Mato Grosso do Sul (UFMS), Campo Grande 79070-900, Brazil; (F.d.S.); (Y.S.R.); (A.R.d.N.); (E.M.P.)
| | - Estela Mariana Guimarães Lourenço
- Laboratório de Síntese e Transformação de Moléculas Orgânicas-SINTMOL, Instituto de Química, Universidade Federal de Mato Grosso do Sul (UFMS), Campo Grande 79074-460, Brazil; (E.M.G.L.); (D.P.d.L.)
| | - Alda Maria Teixeira Ferreira
- Laboratório de Imunologia, Biologia Molecular e Bioensaios, Instituto de Biociências, Universidade Federal de Mato Grosso do Sul (UFMS), Campo Grande 79070-900, Brazil;
| | - Melquisedeque Mateus Monteiro
- Laboratório de Biologia Molecular e Culturas Celulares, Instituto de Biociências, Universidade Federal de Mato Grosso do Sul (UFMS), Campo Grande 79070-900, Brazil; (M.M.M.); (R.T.P.)
| | - Dênis Pires de Lima
- Laboratório de Síntese e Transformação de Moléculas Orgânicas-SINTMOL, Instituto de Química, Universidade Federal de Mato Grosso do Sul (UFMS), Campo Grande 79074-460, Brazil; (E.M.G.L.); (D.P.d.L.)
| | - Renata Trentin Perdomo
- Laboratório de Biologia Molecular e Culturas Celulares, Instituto de Biociências, Universidade Federal de Mato Grosso do Sul (UFMS), Campo Grande 79070-900, Brazil; (M.M.M.); (R.T.P.)
| | - Iluska Senna Bonfá
- Laboratório de Farmacologia e Inflamação, Faculdade de Ciências Farmacêuticas, Alimentos e Nutrição, Universidade Federal de Mato Grosso do Sul (UFMS), Campo Grande 79074-460, Brazil; (I.S.B.); (M.C.T.-K.)
| | - Mônica Cristina Toffoli-Kadri
- Laboratório de Farmacologia e Inflamação, Faculdade de Ciências Farmacêuticas, Alimentos e Nutrição, Universidade Federal de Mato Grosso do Sul (UFMS), Campo Grande 79074-460, Brazil; (I.S.B.); (M.C.T.-K.)
| | - Adriana Pereira Duarte
- Instituto de Química, Universidade Federal de Mato Grosso do Sul (UFMS), Campo Grande 79074-460, Brazil; (A.P.D.); (M.A.U.M.)
| | - Daniel Mendes Nunes
- Faculdade de Química, Universidade Estadual de Mato Grosso do Sul (UEMS), Campo Grande 79804-970, Brazil;
| | - Marco Antonio Utrera Martines
- Instituto de Química, Universidade Federal de Mato Grosso do Sul (UFMS), Campo Grande 79074-460, Brazil; (A.P.D.); (M.A.U.M.)
| | - Eliane Mattos Piranda
- Laboratório de Parasitologia Humana, Instituto de Biociências, Universidade Federal de Mato Grosso do Sul (UFMS), Campo Grande 79070-900, Brazil; (F.d.S.); (Y.S.R.); (A.R.d.N.); (E.M.P.)
| | - Carla Cardozo Pinto de Arruda
- Laboratório de Parasitologia Humana, Instituto de Biociências, Universidade Federal de Mato Grosso do Sul (UFMS), Campo Grande 79070-900, Brazil; (F.d.S.); (Y.S.R.); (A.R.d.N.); (E.M.P.)
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Shcherbakova A, Strömstedt AA, Göransson U, Gnezdilov O, Turanov A, Boldbaatar D, Kochkin D, Ulrich-Merzenich G, Koptina A. Antimicrobial and antioxidant activity of Evernia prunastri extracts and their isolates. World J Microbiol Biotechnol 2021; 37:129. [PMID: 34232401 PMCID: PMC8263414 DOI: 10.1007/s11274-021-03099-y] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/15/2021] [Accepted: 06/23/2021] [Indexed: 11/26/2022]
Abstract
Lichens are symbiotic organisms formed by a fungus and one or more photosynthetic partners which are usually alga or cyanobacterium. Their diverse and scarcely studied metabolites facilitate adaptability to extreme living conditions. We investigated Evernia prunastri (L.) Ach., a widely distributed lichen, for its antimicrobial and antioxidant potential. E. prunastri was sequentially extracted by hexane (Hex), dichloromethane (DCM) and acetonitrile (ACN) that were screened for their antioxidant and antimicrobial (against Staphylococcus aureus, Pseudomonas aeruginosa, Escherichia coli and Candida albicans) activities. The Hex extract possessed the highest antioxidant capacity (87 mg ascorbic acid/g extract) corresponding to the highest content of phenols (73 mg gallic acid/g extract). The DCM and Hex extracts were both active against S. aureus (MICs of 4 and 21 µg/ml, respectively) but were less active against Gram-negative bacteria and yeast. The ACN extract exhibited activity on both S. aureus (MIC 14 µg/ml) and C. albicans (MIC 38 µg/ml) and was therefore further fractionated by silica gel column chromatography. The active compound of the most potent fraction was subsequently characterized by 1H and 13C-NMR spectroscopy and identified as evernic acid. Structural similarity analyses were performed between compounds from E. prunastri and known antibiotics from different classes. The structural similarity was not present. Antioxidant and antimicrobial activities of E. prunastri extracts originate from multiple chemical compounds; besides usnic acid, most notably evernic acid and derivatives thereof. Evernic acid and its derivatives represent possible candidates for a new class of antibiotics.
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Affiliation(s)
- A Shcherbakova
- Volga State University of Technology, Lenin Sq., 3, Yoshkar-Ola, Russia, 424000
- Pharmacognosy, Department of Pharmaceutical Biosciences, Uppsala University, 751 24, Uppsala, Sweden
- Medical Clinic III, AG Synergy Research and Experimental Medicine, University Hospital Bonn, Venusberg-Campus 1, 53127, Bonn, Germany
| | - A A Strömstedt
- Pharmacognosy, Department of Pharmaceutical Biosciences, Uppsala University, 751 24, Uppsala, Sweden
| | - U Göransson
- Pharmacognosy, Department of Pharmaceutical Biosciences, Uppsala University, 751 24, Uppsala, Sweden
| | - O Gnezdilov
- FRC Kazan Scientific Center, Zavoisky Physical-Technical Institute, Russian Academy of Sciences, Sibirsky Tract, 10/7, Kazan, Russia, 420029
| | - A Turanov
- FRC Kazan Scientific Center, Zavoisky Physical-Technical Institute, Russian Academy of Sciences, Sibirsky Tract, 10/7, Kazan, Russia, 420029
| | - D Boldbaatar
- Pharmacognosy, Department of Pharmaceutical Biosciences, Uppsala University, 751 24, Uppsala, Sweden
- The Liver Center, Dalai Tower, Unesco Street 31, Sukhbaatar District, Ulaanbaatar, 14230, Mongolia
| | - D Kochkin
- Faculty of Biology, Lomonosov Moscow State University, GSP-1, 1-12 Leninskiye Gory, Moscow, Russia, 119234
| | - G Ulrich-Merzenich
- Medical Clinic III, AG Synergy Research and Experimental Medicine, University Hospital Bonn, Venusberg-Campus 1, 53127, Bonn, Germany
| | - A Koptina
- Pharmacognosy, Department of Pharmaceutical Biosciences, Uppsala University, 751 24, Uppsala, Sweden.
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Paul S, Ruiz-Manriquez LM, Serrano-Cano FI, Estrada-Meza C, Solorio-Diaz KA, Srivastava A. Human microRNAs in host-parasite interaction: a review. 3 Biotech 2020; 10:510. [PMID: 33178551 PMCID: PMC7644590 DOI: 10.1007/s13205-020-02498-6] [Citation(s) in RCA: 21] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/10/2020] [Accepted: 10/19/2020] [Indexed: 02/06/2023] Open
Abstract
MicroRNAs (miRNAs) are a group of small noncoding RNA molecules with significant capacity to regulate the gene expression at the post-transcriptional level in a sequence-specific manner either through translation repression or mRNA degradation triggering a fine-tuning biological impact. They have been implicated in several processes, including cell growth and development, signal transduction, cell proliferation and differentiation, metabolism, apoptosis, inflammation, and immune response modulation. However, over the last few years, extensive studies have shown the relevance of miRNAs in human pathophysiology. Common human parasitic diseases, such as Malaria, Leishmaniasis, Amoebiasis, Chagas disease, Schistosomiasis, Toxoplasmosis, Cryptosporidiosis, Clonorchiasis, and Echinococcosis are the leading cause of death worldwide. Thus, identifying and characterizing parasite-specific miRNAs and their host targets, as well as host-related miRNAs, are important for a deeper understanding of the pathophysiology of parasite-specific diseases at the molecular level. In this review, we have demonstrated the impact of human microRNAs during host-parasite interaction as well as their potential to be used for diagnosis and prognosis purposes.
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Affiliation(s)
- Sujay Paul
- Tecnologico de Monterrey, School of Engineering and Sciences, Campus Queretaro, Av. Epigmenio Gonzalez, No. 500 Fracc. San Pablo, 76130 Querétaro, Mexico
| | - Luis M. Ruiz-Manriquez
- Tecnologico de Monterrey, School of Engineering and Sciences, Campus Queretaro, Av. Epigmenio Gonzalez, No. 500 Fracc. San Pablo, 76130 Querétaro, Mexico
| | - Francisco I. Serrano-Cano
- Tecnologico de Monterrey, School of Engineering and Sciences, Campus Queretaro, Av. Epigmenio Gonzalez, No. 500 Fracc. San Pablo, 76130 Querétaro, Mexico
| | - Carolina Estrada-Meza
- Tecnologico de Monterrey, School of Engineering and Sciences, Campus Queretaro, Av. Epigmenio Gonzalez, No. 500 Fracc. San Pablo, 76130 Querétaro, Mexico
| | - Karla A. Solorio-Diaz
- Tecnologico de Monterrey, School of Engineering and Sciences, Campus Queretaro, Av. Epigmenio Gonzalez, No. 500 Fracc. San Pablo, 76130 Querétaro, Mexico
| | - Aashish Srivastava
- Section of Bioinformatics, Clinical Laboratory, Haukeland University Hospital, 5021 Bergen, Norway
- Department of Clinical Science, University of Bergen, 5021 Bergen, Norway
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Cytotoxicity of Potassium Salts of (+)- and (-) Usnic Acid for Paramecium caudatum. Bull Exp Biol Med 2020; 169:110-113. [DOI: 10.1007/s10517-020-04835-4] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/15/2019] [Indexed: 11/27/2022]
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Değerli E, Yangın S, Cansaran-Duman D. Determination of the effect of RBBR on laccase activity and gene expression level of fungi in lichen structure. 3 Biotech 2019; 9:297. [PMID: 31328079 DOI: 10.1007/s13205-019-1832-3] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/12/2018] [Accepted: 05/08/2019] [Indexed: 01/31/2023] Open
Abstract
This study provides information about the differential transcription regulation of laccase genes in response to RBBR dye. To this purpose, we determined the laccase gene expression, laccase activity, and protein profile of lichen-forming fungi supported to RBBR dye. For those obtained from optimal laccase genes expression profiles, we modified different RNA extraction protocols to obtain high quality and quantity RNA to be used in downstream applications in lichen-forming fungus. We also determined the expression of ten laccase genes in response to RBBR dye by qRT-PCR and validated protein profile. As a result of our study, a high laccase activity of 522 U mL-1 was obtained after submerged fermentation for 17 days. The maximal laccase activity to RBBR dye was obtained at 408 h. The expression profiles of laccase gene expression on ten laccase genes showed up- or down-regulation in course of eight fermentation times. The most up-regulated gene during the process was lac8. However, poxa1b gene expression was lowest in lichen-forming fungi biomass supplemented with RBBR dye. This study has revealed the influence of RBBR dye on laccase activity levels and the determination of gene expression levels in lichen-forming fungi.
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Affiliation(s)
- Elif Değerli
- System Biotechnology Advance Research Unit, Biotechnology Institute, Ankara University, Tandogan, Ankara, Turkey
| | - Sevcan Yangın
- System Biotechnology Advance Research Unit, Biotechnology Institute, Ankara University, Tandogan, Ankara, Turkey
| | - Demet Cansaran-Duman
- System Biotechnology Advance Research Unit, Biotechnology Institute, Ankara University, Tandogan, Ankara, Turkey
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