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Anahid M, Mahnam K, Saffar B. Improving the antimicrobial activity of RP9 peptide through theoretical and experimental investigation. Biochem Biophys Rep 2025; 41:101953. [PMID: 40034258 PMCID: PMC11872504 DOI: 10.1016/j.bbrep.2025.101953] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/12/2024] [Revised: 01/30/2025] [Accepted: 02/09/2025] [Indexed: 03/05/2025] Open
Abstract
Future threats to humanity may stem from the rise of antimicrobial resistance, which has compromised the effectiveness of existing antibiotics. Antimicrobial peptides possess the ability to directly eliminate pathogens and cancer cells, generally without the development of resistance. Among these peptides is RP9 (RGSALTHLP), derived from the white blood cells of crocodiles. In this research, three mutations were initially designed: LR-mut (RGSALTHLR), KR-mut (RGSAKTHLR), and WP-mut (RGSAWTHLP). The physicochemical characteristics of these peptides were assessed, revealing that KR-mut exhibited the most favorable biophysical properties. Subsequently, twenty molecular dynamics simulations were conducted for all peptides in pure water and at four different octanol concentrations (30 %, 50 %, 70 %, and 100 %) to evaluate their biophysical attributes. The findings from the 4000 ns molecular dynamics simulations revealed that the KR-mut exhibited reduced values of RMSD, the radius of gyration, solvent accessible surface area, and RMSF, while simultaneously showing an increased number of hydrogen bonds and interactions with water molecules. This peptide also showed the lowest free energy of solvation and the highest solubility across various octanol concentrations compared to the other peptides. The results obtained from the biophysical assessments and molecular dynamics simulations were consistent, resulting in the conclusion that KR-mut is expected to exhibit superior antibacterial activity compared to both the other mutated peptides and the wild type peptides. These theoretical findings were validated through experimental minimum inhibitory concentration (MIC) tests on gram-negative Escherichia coli and gram-positive Staphylococcus aureus. The outcomes of this study suggest that molecular dynamics simulations can effectively predict changes in the bactericidal efficacy of peptides at varying octanol concentrations, potentially enhancing the speed and efficiency of antimicrobial peptide design while reducing associated costs.
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Affiliation(s)
- Mahya Anahid
- Department of Genetics, Faculty of Science, Shahrekord University, Shahrekord, Iran
| | - Karim Mahnam
- Department of Biology, Faculty of Science, Shahrekord University, Shahrekord, Iran
- Biotechnology Research Institute, Shahrekord University, Shahrekord, Iran
| | - Behnaz Saffar
- Department of Genetics, Faculty of Science, Shahrekord University, Shahrekord, Iran
- Biotechnology Research Institute, Shahrekord University, Shahrekord, Iran
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Thongdee M, Chaiwattanarungruengpaisan S, Ketchim N, Sangkachai N, Arya N, Sirimanapong W, Wiriyarat W, Puthavathana P, Paungpin W. Evidence of avian and human influenza A virus infection in farmed Siamese crocodiles (Crocodylus siamensis) in Thailand. PLoS One 2025; 20:e0317035. [PMID: 39774465 PMCID: PMC11706503 DOI: 10.1371/journal.pone.0317035] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/13/2024] [Accepted: 12/19/2024] [Indexed: 01/11/2025] Open
Abstract
Crocodilians are susceptible to a range of virus infection including influenza A virus (IAV). However, little is known about the ecology and epidemiology of IAV in crocodile species. This study aimed to investigate IAV infection in farmed Siamese crocodiles in central Thailand. We collected plasma samples and pharyngeal swab samples from Siamese crocodiles residing in 13 crocodile farms in 9 provinces of central Thailand during 2019. Additional archival plasma samples of Siamese crocodiles collected in 2012 and 2018 were also included in the study. Plasma samples were screened for influenza A antibodies by a hemagglutination inhibition (HI) assay and positive were evaluated by a cytopathic effect/hemagglutination based-microneutralization (MN) assay. Swab samples were tested for influenza viral RNA by a real-time RT-PCR assay targeting the influenza matrix (M) gene. Among 246 tested plasma samples, the overall seroprevalence of antibodies against IAV in farmed Siamese crocodiles was 17.5% (43/246). The most common hemagglutinin (HA) subtype was H2 (46.5%, 20/43) followed by H9 (39.5%, 17/43), human H1 (14%, 6/43) and H1 (7%, 3/43). Multiple HA subtypes were also detected in 7% (3/43) of infected crocodiles with combination of H1 and H2 subtypes. All 126 tested swab samples were negative for influenza viral RNA. In addition, we demonstrated the ability of wild-type IAV subtypes (H1, H2, H9 and human H1) to infect primary Siamese crocodile fibroblast cells. To our knowledge, this is the first report of serological evidences of avian and human IAV infection in Siamese crocodiles. Our findings highlighted the role of crocodile species in the ecology of IAV particularly the potential to serve as the reservoir or mixing vessel for the viruses that significantly threaten both human and animal health.
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Affiliation(s)
- Metawee Thongdee
- Faculty of Veterinary Science, The Monitoring and Surveillance Center for Zoonotic Diseases in Wildlife and Exotic Animals, Mahidol University, Nakhon Pathom, Thailand
| | - Somjit Chaiwattanarungruengpaisan
- Faculty of Veterinary Science, The Monitoring and Surveillance Center for Zoonotic Diseases in Wildlife and Exotic Animals, Mahidol University, Nakhon Pathom, Thailand
| | - Natthaphat Ketchim
- Faculty of Veterinary Science, The Monitoring and Surveillance Center for Zoonotic Diseases in Wildlife and Exotic Animals, Mahidol University, Nakhon Pathom, Thailand
| | - Nareerat Sangkachai
- Faculty of Veterinary Science, The Monitoring and Surveillance Center for Zoonotic Diseases in Wildlife and Exotic Animals, Mahidol University, Nakhon Pathom, Thailand
| | - Nlin Arya
- Faculty of Veterinary Science, Department of Pre-clinic and Applied Animal Science, Mahidol University, Nakhon Pathom, Thailand
| | - Wanna Sirimanapong
- Faculty of Veterinary Science, Department of Clinical Sciences and Public Health, The Veterinary Aquatic Animal Research Health Care Unit, Mahidol University, Nakhon Pathom, Thailand
| | - Witthawat Wiriyarat
- Faculty of Veterinary Science, The Monitoring and Surveillance Center for Zoonotic Diseases in Wildlife and Exotic Animals, Mahidol University, Nakhon Pathom, Thailand
- Faculty of Veterinary Science, Department of Pre-clinic and Applied Animal Science, Mahidol University, Nakhon Pathom, Thailand
| | - Pilaipan Puthavathana
- Faculty of Medical Technology, Center for Research and Innovation, Mahidol University, Nakhon Pathom, Thailand
| | - Weena Paungpin
- Faculty of Veterinary Science, The Monitoring and Surveillance Center for Zoonotic Diseases in Wildlife and Exotic Animals, Mahidol University, Nakhon Pathom, Thailand
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Griffith P, Lang JW, Turvey ST, Gumbs R. Using functional traits to identify conservation priorities for the world's crocodylians. Funct Ecol 2022. [DOI: 10.1111/1365-2435.14140] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/26/2022]
Affiliation(s)
- Phoebe Griffith
- Institute of Zoology Zoological Society of London London UK
- Wildlife Conservation Research Unit The Recanati‐Kaplan Centre, Department of Zoology, University of Oxford Oxford UK
| | - Jeffrey W. Lang
- Gharial Ecology Project Madras Crocodile Bank Trust Mamallapuram Tamil Nadu India
| | | | - Rikki Gumbs
- EDGE of Existence Programme Conservation and Policy, Zoological Society of London London UK
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Crocodile Oil Modulates Inflammation and Immune Responses in LPS-Stimulated RAW 264.7 Macrophages. MOLECULES (BASEL, SWITZERLAND) 2022; 27:molecules27123784. [PMID: 35744910 PMCID: PMC9229527 DOI: 10.3390/molecules27123784] [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: 05/01/2022] [Revised: 06/10/2022] [Accepted: 06/10/2022] [Indexed: 11/25/2022]
Abstract
Crocodile oil (CO) is generated from the fatty tissues of crocodiles as a by-product of commercial aquaculture. CO is extensively applied in the treatment of illnesses including asthma, emphysema, skin ulcers, and cancer, as well as wound healing. Whether CO has anti-inflammatory properties and encourages an immune response remains uncertain. The impact of CO on inflammatory conditions in lipopolysaccharide (LPS)-stimulated RAW 264.7 cells and the mechanisms behind it were examined in this work. Cells were treated with 0.125–2% CO dissolved in 0.5% propylene glycol with or without LPS. The production and expression of inflammatory cytokines and mediators were also examined in this research. CO reduced the synthesis and gene expression of interleukin-6 (IL-6). Consistently, CO inhibited the expression and synthesis of inflammatory markers including cyclooxygenase-2 (COX-2), prostaglandin E2 (PGE2), nitric oxide (NO), and nuclear factor kappa B (NF-κB). Furthermore, CO reduced the effects of DNA damage. CO also increased the cell-cycle regulators, cyclins D2 and E2, which improved the immunological response. CO might thus be produced as a nutraceutical supplement to help avoid inflammatory diseases.
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Chook CYB, Chen FM, Tse G, Leung FP, Wong WT. Crocodile blood supplementation protects vascular function in diabetic mice. FOOD PRODUCTION, PROCESSING AND NUTRITION 2021. [PMCID: PMC8328534 DOI: 10.1186/s43014-021-00066-w] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Indexed: 11/10/2022]
Abstract
Abstract
Cardiovascular disease is a major cause of mortality in diabetic patients due to the heightened oxidative stress and pro-inflammatory state in vascular tissues. Effective approaches targeting cardiovascular health for diabetic patients are urgently needed. Crocodile blood, an emerging dietary supplement, was suggested to have anti-oxidative and anti-inflammatory effects in vitro, which have yet to be proven in animal models. This study thereby aimed to evaluate whether crocodile blood can protect vascular function in diabetic mice against oxidation and inflammation. Diabetic db/db mice and their counterparts db/m+ mice were treated daily with crocodile blood soluble fraction (CBSF) or vehicle via oral gavage for 4 weeks before their aortae were harvested for endothelium-dependent relaxation (EDR) quantification using wire myograph, which is a well-established functional study for vascular function indication. Organ culture experiments culturing mouse aortae from C57BL/6 J mice with or without IL-1β and CBSF were done to evaluate the direct effect of CBSF on endothelial function. Reactive oxygen species (ROS) levels in mouse aortae were assessed by dihydroethidium (DHE) staining with inflammatory markers in endothelial cells quantified by quantitative polymerase chain reaction (qPCR). CBSF significantly improved deteriorated EDR in db/db diabetic mice through both diet supplementation and direct culture, with suppression of ROS level in mouse aortae. CBSF also maintained EDR and reduced ROS levels in mouse aortae against the presence of pro-inflammatory IL-1β. Under the pro-inflammatory state induced by IL-1β, gene expressions of inflammatory cytokines were downregulated, while the protective transcripts UCP2 and SIRT6 were upregulated in endothelial cells. Our study suggests a novel beneficial effect of crocodile blood on vascular function in diabetic mice and that supplementation of diet with crocodile blood may act as a complementary approach to protect against vascular diseases through anti-oxidation and anti-inflammation in diabetic patients.
Graphical abstract
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Paratthakonkun C, Vimuttipong V, Nana A, Chaijenkij K, Soonthornworasiri N, Arthan D. The Effects of Crocodile Blood Supplementation on Delayed-Onset Muscle Soreness. Nutrients 2021; 13:2312. [PMID: 34371824 PMCID: PMC8308554 DOI: 10.3390/nu13072312] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/30/2021] [Revised: 06/30/2021] [Accepted: 07/02/2021] [Indexed: 12/15/2022] Open
Abstract
Delayed-onset muscle soreness (DOMS) is associated with increases in acute inflammatory and biochemical markers, muscle swelling, pain, and reduced functional performance. This study aimed to investigate the preventative effects of crocodile blood supplementation on DOMS induced by eccentric exercise. Sixteen healthy males were randomly allocated to either a crocodile blood (CB, n = 8) or a placebo (PL, n = 8) treatment. Participants receiving the CB treatment consumed four capsules of freeze-dried CB powder (1 g day-1) over 18 days. Participants receiving the other treatment were administered a placebo over the same period. An eccentric exercise protocol was performed, and functional performance, visual analogue scale (VAS)-measured pain, knee range of movement (ROM), thigh circumference (swelling), and cytokines, enzymes, and biochemical parameters were assessed immediately after exercise as well as after 24 h, 48 h, and 72 h. CB supplementation could significantly maintain maximum voluntary isometric contraction (MVIC) at 24 h (p = 0.001) and 48 h after exercise (p = 0.001) when comparing values at different times for the CB group. In the CB group, thigh circumference decreased only immediately after eccentric exercise (p = 0.031) in comparison with pre-eccentric exercise values. An 18-day supplementation (1 g day-1) of crocodile blood does aid in the maintenance of functional performance and muscle swelling after eccentric exercise. Our data indicate that 1 g day-1 of crocodile blood supplementation should be safe for human consumption.
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Affiliation(s)
- Chirawat Paratthakonkun
- College of Sports Science and Technology, Mahidol University, Nakhon Pathom 73170, Thailand; (V.V.); (A.N.); (K.C.)
| | - Vipu Vimuttipong
- College of Sports Science and Technology, Mahidol University, Nakhon Pathom 73170, Thailand; (V.V.); (A.N.); (K.C.)
| | - Alisa Nana
- College of Sports Science and Technology, Mahidol University, Nakhon Pathom 73170, Thailand; (V.V.); (A.N.); (K.C.)
| | - Kornkit Chaijenkij
- College of Sports Science and Technology, Mahidol University, Nakhon Pathom 73170, Thailand; (V.V.); (A.N.); (K.C.)
| | - Ngamphol Soonthornworasiri
- Department of Tropical Hygiene, Faculty of Tropical Medicine, Mahidol University, Bangkok 10400, Thailand;
| | - Dumrongkiet Arthan
- Department of Tropical Nutrition and Food Science, Faculty of Tropical Medicine, Mahidol University, Bangkok 10400, Thailand
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