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Dias SADN, Divyasorubini S, Gamage KTJ, Dalath RM, Weerasinghe MSS, Silva GN. Na +/K + carrier ionophore antibiotics valinomycin and monensin enhance the antibacterial activity of fluoride. J Antibiot (Tokyo) 2023:10.1038/s41429-023-00619-w. [PMID: 37069308 DOI: 10.1038/s41429-023-00619-w] [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] [Received: 01/31/2023] [Revised: 03/13/2023] [Accepted: 03/22/2023] [Indexed: 04/19/2023]
Abstract
Fluoride is routinely used as a highly effective antibacterial agent that interferes with bacterial metabolism through fundamentally different mechanisms. One of the major bacterial evasion mechanisms against fluoride is the impermeability of cell envelope to the anion that limits its cellular uptake. Therefore, translating such compounds to clinical settings requires novel mechanisms to facilitate the uptake of membrane-impermeant molecules. Published data have indicated antibiotic synergy between fluoride and membrane destabilizing agents that induce strong fluoride toxicity in bacteria via enhancing the permeability of bacterial membranes to fluoride. Here, we report a similar mechanism of antibiotic synergy between fluoride and potassium ion carriers, valinomycin and monensin against Gram-positive bacteria, B. subtilis and S. aureus. Molecular dynamics simulations were performed to understand the effect of potassium on the binding affinity of fluoride to monensin and valinomycin. The trajectory results strongly indicated that the monensin molecules transport fluoride ions across the cell membrane via formation of ion-pair between the monensin-K+ complex and a fluoride. This study provides new insights to design novel compounds to enhance the uptake of small toxic anions via synergistic interactions and thus exert strong antibacterial activity against a wide variety of pathogens.
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Affiliation(s)
- S A D N Dias
- Department of Chemistry, Faculty of Science, University of Colombo, Colombo, Sri Lanka
- Department of Molecular and Cellular Biochemistry, Indiana University, Bloomington, IN, USA
| | - S Divyasorubini
- Department of Chemistry, Faculty of Science, University of Colombo, Colombo, Sri Lanka
- Department of Biochemistry, Microbiology and Molecular Biology (BMMB), Pennsylvania State University, University Park, PA, USA
| | - K T J Gamage
- Department of Chemistry, Faculty of Science, University of Colombo, Colombo, Sri Lanka
- Department of Chemistry and Biochemistry, Ohio State University, Columbus, OH, USA
| | - R M Dalath
- Department of Chemistry, Faculty of Science, University of Colombo, Colombo, Sri Lanka
- Department of Biological Sciences, Carnegie Mellon University, Pittsburgh, PA, USA
| | - M S S Weerasinghe
- Department of Chemistry, Faculty of Science, University of Colombo, Colombo, Sri Lanka
| | - G N Silva
- Department of Chemistry, Faculty of Science, University of Colombo, Colombo, Sri Lanka.
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2
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Carneiro VQ, Silva GN, Cruz CD, Carneiro PCS, Nascimento M, Carneiro JES. Artificial neural networks as auxiliary tools for the improvement of bean plant architecture. Genet Mol Res 2017; 16:gmr-16-02-gmr.16029500. [PMID: 28671250 DOI: 10.4238/gmr16029500] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/03/2022]
Abstract
Classification using a scale of visual notes is a strategy used to select erect bean plants in order to improve bean plant architectures. Use of morphological traits associated with the phenotypic expression of bean architecture in classification procedures may enhance selection. The objective of this study was to evaluate the potential of artificial neural networks (ANNs) as auxiliary tools in the improvement of bean plant architecture. Data from 19 lines were evaluated for 22 traits, in 2007 and 2009 winter crops. Hypocotyl diameter and plant height were selected for analysis through ANNs. For classification purposes, these lines were separated into two groups, determined by the plant architecture notes. The predictive ability of ANNs was evaluated according to two scenarios to predict the plant architecture - training with 2007 data and validating in 2009 data (scenario 1), and vice versa (scenario 2). For this, ANNs were trained and validated using data from replicates of the evaluated lines for hypocotyl diameter individually, or together with the mean height of plants in the plot. In each scenario, the use of data from replicates or line means was evaluated for prediction through previously trained and validated ANNs. In both scenarios, ANNs based on hypocotyl diameter and mean height of plants were superior, since the error rates obtained were lower than those obtained using hypocotyl diameter only. Lower apparent error rates were verified in both scenarios for prediction when data on the means of the evaluated traits were submitted to better trained and validated ANNs.
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Affiliation(s)
- V Q Carneiro
- Departamento de Biologia Geral, Universidade Federal de Viçosa, Viçosa, MG, Brasil
- Laboratório de Bioinformática (BIOAGRO), Viçosa, MG, Brasil
| | - G N Silva
- Departamento de Estatística, Universidade Federal de Viçosa, Viçosa, MG, Brasil
- Laboratório de Bioinformática (BIOAGRO), Viçosa, MG, Brasil
| | - C D Cruz
- Departamento de Biologia Geral, Universidade Federal de Viçosa, Viçosa, MG, Brasil
- Departamento de Estatística, Universidade Federal de Viçosa, Viçosa, MG, Brasil
- Laboratório de Bioinformática (BIOAGRO), Viçosa, MG, Brasil
| | - P C S Carneiro
- Departamento de Biologia Geral, Universidade Federal de Viçosa, Viçosa, MG, Brasil
- Programa Feijão, Viçosa, MG, Brasil
| | - M Nascimento
- Departamento de Estatística, Universidade Federal de Viçosa, Viçosa, MG, Brasil
- Laboratório de Bioinformática (BIOAGRO), Viçosa, MG, Brasil
| | - J E S Carneiro
- Departamento de Fitotecnia, Universidade Federal de Viçosa, Viçosa, MG, Brasil
- Programa Feijão, Viçosa, MG, Brasil
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3
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Silva LA, Resende RT, Ferreira RADC, Silva GN, Kist V, Barbosa MHP, Nascimento M, Bhering LL. Selection index using the graphical area applied to sugarcane breeding. Genet Mol Res 2016; 15:gmr8711. [PMID: 27706733 DOI: 10.4238/gmr.15038711] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/03/2022]
Abstract
This study aimed to develop a multivariate selection index based on the graphical area of a polygon formed by standardized values, also known as radar chart. This methodology may be used to assist selection of superior genotypes in sugarcane breeding programs. Seven technological traits in 37 sugarcane genotypes were evaluated. An area index (AI) was constructed and the resulting polygon areas were used to rank genotypes under selection. In this study, we propose the use of restricted maximum likelihood to estimate genetic parameters and mixed model equations to predict genotypic and breeding values. The area of each polygon was calculated for phenotypic, genotypic, and estimated breeding values. Thereby, the genotypes with larger area can be selected based on a detailed a posteriori evaluation of the radar charts. The proposed AI can be adjusted based on the breeders' specific interests, it is perfectly useful in other crops, and may also be applied to studies on genotype-environment interactions. Moreover, AI is a powerful tool that can evaluate trait stability of genotypes based on slight differences in the area formed by each genotype. Hence, this method is easy to apply and shows great potential for use in sugarcane breeding programs as well as in other breeding programs.
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Affiliation(s)
- L A Silva
- Departamento de Biologia Geral, Universidade Federal de Viçosa, Viçosa, MG, Brasil
| | - R T Resende
- Departamento de Biologia Geral, Universidade Federal de Viçosa, Viçosa, MG, Brasil
| | - R A D C Ferreira
- Departamento de Biologia Geral, Universidade Federal de Viçosa, Viçosa, MG, Brasil
| | - G N Silva
- Departamento de Estatística, Universidade Federal de Viçosa, Viçosa, MG, Brasil
| | - V Kist
- Instituto Federal Catarinense, Concórdia, SC, Brasil
| | - M H P Barbosa
- Departamento de Fitotecnia, Universidade Federal de Viçosa, Viçosa, MG, Brasil
| | - M Nascimento
- Departamento de Estatística, Universidade Federal de Viçosa, Viçosa, MG, Brasil
| | - L L Bhering
- Departamento de Biologia Geral, Universidade Federal de Viçosa, Viçosa, MG, Brasil
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Silva GN, Tomaz RS, Sant'Anna IC, Carneiro VQ, Cruz CD, Nascimento M. Evaluation of the efficiency of artificial neural networks for genetic value prediction. Genet Mol Res 2016; 15:gmr7676. [PMID: 27051007 DOI: 10.4238/gmr.15017676] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/03/2022]
Abstract
Artificial neural networks have shown great potential when applied to breeding programs. In this study, we propose the use of artificial neural networks as a viable alternative to conventional prediction methods. We conduct a thorough evaluation of the efficiency of these networks with respect to the prediction of breeding values. Therefore, we considered eight simulated scenarios, and for the purpose of genetic value prediction, seven statistical parameters in addition to the phenotypic mean in a network designed as a multilayer perceptron. After an evaluation of different network configurations, the results demonstrated the superiority of neural networks compared to estimation procedures based on linear models, and indicated high predictive accuracy and network efficiency.
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Affiliation(s)
- G N Silva
- Departamento de Estatística, Universidade Federal de Viçosa, Viçosa, MG, Brasil.,Laboratório de Bioinformática, Viçosa, MG, Brasil
| | - R S Tomaz
- Departamento de Engenharia Agronômica, ]Universidade Estadual Paulista "Júlio de Mesquita Filho", Dracena, SP, Brasil
| | - I C Sant'Anna
- Departamento de Biologia Geral Universidade Federal de Viçosa Universidade Federal de Viçosa, Viçosa, MG, Brasil.,Laboratório de Bioinformática, Viçosa, MG, Brasil
| | - V Q Carneiro
- Departamento de Biologia Geral Universidade Federal de Viçosa Universidade Federal de Viçosa, Viçosa, MG, Brasil.,Laboratório de Bioinformática, Viçosa, MG, Brasil
| | - C D Cruz
- Departamento de Biologia Geral Universidade Federal de Viçosa Universidade Federal de Viçosa, Viçosa, MG, Brasil.,Laboratório de Bioinformática, Viçosa, MG, Brasil
| | - M Nascimento
- Departamento de Estatística, Universidade Federal de Viçosa, Viçosa, MG, Brasil.,Laboratório de Bioinformática, Viçosa, MG, Brasil
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Sant'Anna IC, Tomaz RS, Silva GN, Nascimento M, Bhering LL, Cruz CD. Superiority of artificial neural networks for a genetic classification procedure. Genet Mol Res 2015; 14:9898-906. [PMID: 26345924 DOI: 10.4238/2015.august.19.24] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/03/2022]
Abstract
The correct classification of individuals is extremely important for the preservation of genetic variability and for maximization of yield in breeding programs using phenotypic traits and genetic markers. The Fisher and Anderson discriminant functions are commonly used multivariate statistical techniques for these situations, which allow for the allocation of an initially unknown individual to predefined groups. However, for higher levels of similarity, such as those found in backcrossed populations, these methods have proven to be inefficient. Recently, much research has been devoted to developing a new paradigm of computing known as artificial neural networks (ANNs), which can be used to solve many statistical problems, including classification problems. The aim of this study was to evaluate the feasibility of ANNs as an evaluation technique of genetic diversity by comparing their performance with that of traditional methods. The discriminant functions were equally ineffective in discriminating the populations, with error rates of 23-82%, thereby preventing the correct discrimination of individuals between populations. The ANN was effective in classifying populations with low and high differentiation, such as those derived from a genetic design established from backcrosses, even in cases of low differentiation of the data sets. The ANN appears to be a promising technique to solve classification problems, since the number of individuals classified incorrectly by the ANN was always lower than that of the discriminant functions. We envisage the potential relevant application of this improved procedure in the genomic classification of markers to distinguish between breeds and accessions.
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Affiliation(s)
- I C Sant'Anna
- Programa de Pós-Graduação em Genética e Melhoramento, Universidade Federal de Viçosa, Viçosa, MG, Brasil
| | - R S Tomaz
- Universidade Estadual Paulista "Júlio de Mesquita Filho", Dracena, SP, Brasil
| | - G N Silva
- Programa de Pós-Graduação Estatística Aplicada e Biometria, Universidade Federal de Viçosa, Viçosa, MG, Brasil
| | - M Nascimento
- Programa de Pós-Graduação Estatística Aplicada e Biometria, Universidade Federal de Viçosa, Viçosa, MG, Brasil
| | - L L Bhering
- Programa de Pós-Graduação em Genética e Melhoramento, Universidade Federal de Viçosa, Viçosa, MG, Brasil
| | - C D Cruz
- Programa de Pós-Graduação em Genética e Melhoramento, Universidade Federal de Viçosa, Viçosa, MG, Brasil
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Sousa AH, Faroni LRA, Silva GN, Guedes RNC. Ozone toxicity and walking response of populations of Sitophilus zeamais (Coleoptera: Curculionidae). J Econ Entomol 2012; 105:2187-2195. [PMID: 23356086 DOI: 10.1603/ec12218] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/01/2023]
Abstract
Ozone is a recognized alternative to the fumigants methyl bromide and phosphine for the control of stored product insects. However, as with fumigants in general, the potential sublethal effects of ozone on targeted insect species may compromise its efficacy and has yet to be investigated. Here, we determined ozone toxicity of 30 field-collected populations of the maize weevil, Sitophilus zeamais (Coleoptera: Curculionidae), and assessed the walking response of adult insects from these populations to sublethal ozone exposure. Time-mortality toxicity to ozone at 50 ppm concentration in a continuous 2 liter/min flow indicated uniform susceptibility among the populations studied without any indication of ozone resistance (toxicity ratios [at LT50] > two-fold). In contrast, there was significant variation in walking activity among the maize weevil populations, which was not correlated with ozone susceptibility. This was not surprising because of the relatively uniform susceptibility to ozone among the maize weevil populations. Respiration rate affected ozone toxicity but not walking activity, whereas body mass was negatively correlated with walking activity but was not correlated with ozone toxicity. Based on our data, lower respiration rates may potentially lead to reduced ozone uptake whereas larger body mass limits walking activity. Ozone seems a promising alternative fumigant with low short-term risk of resistance development because of the high susceptibility and low variability of response to this compound. Furthermore, ozone reduces walking activity of S. zeamais that implies it likely reduces the chances of insects escaping exposure at the early stages of fumigation.
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Affiliation(s)
- A H Sousa
- Departamento de Entomologia, Universidade Federal de Viçosa, Viçosa, MG 36570-000, Brazil
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Sousa AH, Faroni LRA, Silva GN, Guedes RNC. Ozone toxicity and walking response of populations of Sitophilus zeamais (Coleoptera: Curculionidae). J Econ Entomol 2012; 105:2187-2195. [PMID: 23356086 DOI: 10.1016/j.jspr.2015.11.001] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/24/2023]
Abstract
Ozone is a recognized alternative to the fumigants methyl bromide and phosphine for the control of stored product insects. However, as with fumigants in general, the potential sublethal effects of ozone on targeted insect species may compromise its efficacy and has yet to be investigated. Here, we determined ozone toxicity of 30 field-collected populations of the maize weevil, Sitophilus zeamais (Coleoptera: Curculionidae), and assessed the walking response of adult insects from these populations to sublethal ozone exposure. Time-mortality toxicity to ozone at 50 ppm concentration in a continuous 2 liter/min flow indicated uniform susceptibility among the populations studied without any indication of ozone resistance (toxicity ratios [at LT50] > two-fold). In contrast, there was significant variation in walking activity among the maize weevil populations, which was not correlated with ozone susceptibility. This was not surprising because of the relatively uniform susceptibility to ozone among the maize weevil populations. Respiration rate affected ozone toxicity but not walking activity, whereas body mass was negatively correlated with walking activity but was not correlated with ozone toxicity. Based on our data, lower respiration rates may potentially lead to reduced ozone uptake whereas larger body mass limits walking activity. Ozone seems a promising alternative fumigant with low short-term risk of resistance development because of the high susceptibility and low variability of response to this compound. Furthermore, ozone reduces walking activity of S. zeamais that implies it likely reduces the chances of insects escaping exposure at the early stages of fumigation.
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Affiliation(s)
- A H Sousa
- Departamento de Entomologia, Universidade Federal de Viçosa, Viçosa, MG 36570-000, Brazil
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Silva GN, Morais MF, Raposo J, Silva GE, Saavedra JA. [Hodgkin's disease in a patient with sarcoidosis]. ACTA MEDICA PORT 1996; 9:287-93. [PMID: 9005713] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/03/2023]
Abstract
We present the case of a 37 years old woman with mediastinal lymphadenopathy since the age of 13. At de age of 14, the patient presented a left cervical lymphadenopathy and the onset of episodic nodose erythema. One year later, histological examinations of an enlarged lymph node revealed sarcoidal granulomata. Corticotherapy was prescribed and the patient became asymptomatic. At the age of 31, the patient complained of asthenia and fever with left parotid tumefaction. Corticotherapy was therefore resumed with good response. Three years later, the patient presented left parotid tumefaction, left cervical lymphadenopathy and painful eye congestion. The patient was submitted to parotidectomy and lymphadenectomy. One month later, an ulceration with progressive enlargement developed in the surgical scar, and the patient suffered from asthenia, anorexia, weight loss, fever, nocturnal sweating and cervical and axillary lymphadenopathy. At Santa Maria Hospital, the patient's condition was diagnosed as Hodgkin's disease, mixed cellularity subtype, stage II Bb with local cutaneous involvement. The prescribed treatment was MOPP/ABV-8 cycles- and complete remission was achieved. The patient is still asymptomatic after a follow-up of 6 years. Cutaneous involvement in Hodgkin's disease is rare and generally associated with advanced disease and poor prognosis, facts that did not occur in this case. The differential diagnosis between sarcoidosis and sarcoid reaction in Hodgkin's disease, the accidental coexistence of both entities and the evolution of sarcoidosis into lymphoma are also discussed. The sarcoidosis immune defect may be the result of the same immune disorder. No relationships between sarcoidosis and cutaneous involvement in Hodgkin's disease were found in the literature.
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Affiliation(s)
- G N Silva
- Serviço de Medicina I, Hospital de Santa Maria, Lisboa
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Morais F, Silva GN, Santos RM, Sousa JT, Saavedra JA, Da Costa JN. [Rheumatic fever--exacerbation or decline? Analysis of patients admitted to a medical service within a period of 20 years]. ACTA MEDICA PORT 1989; 2:132-7. [PMID: 2624149] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/01/2023]
Abstract
The authors revised 116 clinical files of patients admitted to a Medicine ward with Rheumatic Fever in the years 1959-63 and 1979-83, in order to detect a possible recrudescence of the disease. The following parameters were analysed: age, sex, length of hospital stay, clinical manifestations, ancillary exams, therapeutics and evolution. It was found an impressive decline in the incidence of the disease (90 cases vs 26) and also a very significant decrease of the period of hospitalization in the recent group of patients (p less than 0.0005); Carditis and relapses of Rheumatic Fever were more frequent in the old group of patients.
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