IF 1.6

MethodsX Pub Date : 2025-03-01 DOI: 10.1016/j.mex.2025.103251

Antonio Samudio-Oggero , Héctor D. Nakayama N․ , Gloría A. Resquín Romero , Wilson D. Romero Vergara , Oscar J. Vega Alvarenga , Juan V. Benítez Núñez , Benito Ortega Tórres , Pablo C. Caballero Romero , María C. Caridad González

{"title":"Determination of the method of induction of mutations by gamma radiation in soybeans (Glycine max L. Merrill) for tolerance to carbonic rot produced by the fungus Macrophomina phaseolina (Tassi Goid.)","authors":"Antonio Samudio-Oggero , Héctor D. Nakayama N․ , Gloría A. Resquín Romero , Wilson D. Romero Vergara , Oscar J. Vega Alvarenga , Juan V. Benítez Núñez , Benito Ortega Tórres , Pablo C. Caballero Romero , María C. Caridad González","doi":"10.1016/j.mex.2025.103251","DOIUrl":"10.1016/j.mex.2025.103251","url":null,"abstract":"<div><div>In recent years, there has been an increase in the appearance of charcoal root rot disease in soybeans crops (<em>Glycine max</em> L. Merril). Charcoal rot is caused by the soil-borne fungus <em>Macrophomina phaseolina</em>. This disease is typically exacerbated by water deficiency and high temperatures. To evaluate the soybean genotypes' response to this pathogen, novel genotypes developed through gamma irradiation of 150 Gy and 200 Gy were tested under, in field and greenhouse conditions. Additionally, total phenol content was analyzed as a potential indicator of plant tolerance. The results indicate that the incidence of disease in non-irradiated genotypes was 100 %, in genotypes irradiated with a dose of 150 Gy it was 87 %, and those irradiated with a dose of 200 Gy a 100 %. An increase in the level of total phenols was observed in the tolerant genotypes as well as some mutant genotypes with characteristics that show tolerance to the charcoal root rot disease. The results suggest that gamma radiation-induced mutation may be an effective method for breeding disease-resistant soybean varieties.<ul><li><span>•</span><span><div>This variability method can be applied to any plant species.</div></span></li><li><span>•</span><span><div>This method can cause mutations in any part of the genome, this allows its application to be unlimited.</div></span></li><li><span>•</span><span><div>It is a method that can be used in a complementary way to other plant breeding methods.</div></span></li></ul></div></div>","PeriodicalId":18446,"journal":{"name":"MethodsX","volume":"14 ","pages":"Article 103251"},"PeriodicalIF":1.6,"publicationDate":"2025-03-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143548375","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

A new method and information system based on artificial intelligence for black flight identification

IF 1.6

MethodsX Pub Date : 2025-02-28 DOI: 10.1016/j.mex.2025.103250

Arwin Datumaya Wahyudi Sumari , Rosa Andrie Asmara , Ika Noer Syamsiana

{"title":"A new method and information system based on artificial intelligence for black flight identification","authors":"Arwin Datumaya Wahyudi Sumari , Rosa Andrie Asmara , Ika Noer Syamsiana","doi":"10.1016/j.mex.2025.103250","DOIUrl":"10.1016/j.mex.2025.103250","url":null,"abstract":"<div><div>Identification of aircraft entering a country's sovereign airspace if it shuts down its identification system, either the Identification Friend or Foe system and/or the Automatic Dependent Surveillance Broadcast system, has long been a challenge for the National Air Operations Command. Aircraft that do not want their identities to be revealed are called black flights and generally have certain missions that can interfere with the sovereignty of a country's airspace. Military radar units that have the task of monitoring airspace are generally equipped with Primary Surveillance Radar that detects the presence of aircraft in their operating area and Secondary Surveillance Radar which functions to identify the aircraft. In the case of black flight, data from the radar in the form of airspeed, altitude, and position are not able to help identify the identity of the black flight. The contributions of this research are:<ul><li><span>•</span><span><div>a new method of black flight identification that combines air speed data and altitude with Radar Cross Section (RCS) data using machine learning,</div></span></li><li><span>•</span><span><div>a new information system that combines the display of the Plan Position Indicator (PPI) of military radar and ADS-B to accelerate decision-making on black flight,</div></span></li><li><span>•</span><span><div>a new approach to national air defense procedures.</div></span></li></ul></div></div>","PeriodicalId":18446,"journal":{"name":"MethodsX","volume":"14 ","pages":"Article 103250"},"PeriodicalIF":1.6,"publicationDate":"2025-02-28","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143548376","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Simple DNA extraction for museum beetle specimens to unlock genetic data from historical collections 简单提取博物馆甲虫标本的 DNA，从历史藏品中获取基因数据

IF 1.6

MethodsX Pub Date : 2025-02-28 DOI: 10.1016/j.mex.2025.103236

Hathal M. Al-Dhafer , Raju Balaji , Mahmoud S. Abdel-Dayem , Iftekhar Rasool , Amr Mohamed , Senthilkumar Palanisamy

{"title":"Simple DNA extraction for museum beetle specimens to unlock genetic data from historical collections","authors":"Hathal M. Al-Dhafer , Raju Balaji , Mahmoud S. Abdel-Dayem , Iftekhar Rasool , Amr Mohamed , Senthilkumar Palanisamy","doi":"10.1016/j.mex.2025.103236","DOIUrl":"10.1016/j.mex.2025.103236","url":null,"abstract":"<div><div>Museum beetle specimens are valuable resources for genetic analyses; however, obtaining DNA from aged specimens remains challenging due to degradation, desiccation, and contamination. In this study, we present a simple, low-cost protocol for extracting DNA from museum beetles, optimized using cetyltrimethylammonium bromide (CTAB). This method effectively addresses common issues such as DNA fragmentation and contamination, enabling the recovery of DNA suitable for downstream applications such as PCR and next-generation sequencing. It provides a reproducible, non-destructive approach to extracting genetic material from fragile beetle specimens, thereby facilitating molecular investigations in fields such as taxonomy and conservation biology. The protocol is summarized as follows:<ul><li><span>•</span><span><div>A method for DNA extraction is optimized for museum beetle specimens preserved for over 45 years.</div></span></li><li><span>•</span><span><div>The protocol is non-destructive and compatible with PCR and next-generation sequencing.</div></span></li><li><span>•</span><span><div>Multiple extractions can be pooled to increase yields, particularly when DNA concentrations are low.</div></span></li></ul></div><div>This method broadens the possibilities for genetic analysis of historical specimens, offering new insights into long-term ecological and evolutionary processes.</div></div>","PeriodicalId":18446,"journal":{"name":"MethodsX","volume":"14 ","pages":"Article 103236"},"PeriodicalIF":1.6,"publicationDate":"2025-02-28","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143519402","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Multi-criteria evaluation and multi-method analysis for appropriately selecting renewable energy sources in Colombia

IF 1.6

MethodsX Pub Date : 2025-02-27 DOI: 10.1016/j.mex.2025.103248

Christian M. Moreno-Rocha , José R. Nuñez-Alvarez , Juan Rivera-Alvarado , Alfredo Ghisayz Ruiz , Enderson A. Buelvas-Sanchez

{"title":"Multi-criteria evaluation and multi-method analysis for appropriately selecting renewable energy sources in Colombia","authors":"Christian M. Moreno-Rocha , José R. Nuñez-Alvarez , Juan Rivera-Alvarado , Alfredo Ghisayz Ruiz , Enderson A. Buelvas-Sanchez","doi":"10.1016/j.mex.2025.103248","DOIUrl":"10.1016/j.mex.2025.103248","url":null,"abstract":"<div><div>This research explores the implementation of renewable energy technologies for power generation using multi-criteria decision-making (MCDM) methods, including AHP, FAHP, TOPSIS, and FUZZY-TOPSIS. Ten renewable energy alternatives were evaluated across seven geographic regions in Colombia, revealing variability in preferences depending on the method and scenario. Alternatives 6 and 4 frequently stood out, while others showed varied rankings. This study significantly contributes to the energy sector by offering a rigorous framework for selecting renewable generation technologies, supporting sustainable energy planning, and providing a model for replication in global contexts, some key points are:<ul><li><span>•</span><span><div>The study applied systematic MCDM approaches to assess renewable energy sources.</div></span></li><li><span>•</span><span><div>Results demonstrated method-dependent variability and highlighted regional preferences.</div></span></li><li><span>•</span><span><div>It sets a benchmark for integrating sustainable practices into energy planning worldwide.</div></span></li></ul></div></div>","PeriodicalId":18446,"journal":{"name":"MethodsX","volume":"14 ","pages":"Article 103248"},"PeriodicalIF":1.6,"publicationDate":"2025-02-27","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143548377","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Efficient scheduling of multiple software projects for work continuity and identical completion time

IF 1.6

MethodsX Pub Date : 2025-02-21 DOI: 10.1016/j.mex.2025.103215

Abdulrahman Aldhubaiban, Ali AlMatouq

{"title":"Efficient scheduling of multiple software projects for work continuity and identical completion time","authors":"Abdulrahman Aldhubaiban, Ali AlMatouq","doi":"10.1016/j.mex.2025.103215","DOIUrl":"10.1016/j.mex.2025.103215","url":null,"abstract":"<div><div>In software development projects, it is desired to complete multiple projects at minimum cost and time while ensuring that the completion date is the same for all projects to meet certain operational and strategic objectives. Also, full-time employees assigned to projects should be reallocated smoothly to other tasks without any idle time during project execution to minimize costs even further. This study describes a model that enables the use of efficient continuous variable nonlinear solvers for finding the optimal schedule for possibly a large number of multiple software projects that make use of shared resources. The study validates the proposed solution using a random generator of multiple software project instances while interfacing to online optimization solvers to find a solution. Our continuous variable model was solved in the cloud for optimality for large instances of upto 40 different software projects and 100 employees in less than 21 min using nonlinear programming algorithms.<ul><li><span>•</span><span><div>A continuous variable nonlinear model is developed to efficiently schedule large-scale software projects.</div></span></li><li><span>•</span><span><div>The model enables scheduling for multiple projects with identical completion times while ensuring work continuity.</div></span></li><li><span>•</span><span><div>A cloud-based program architecture is designed to facilitate the testing of multiple solvers online.</div></span></li></ul></div></div>","PeriodicalId":18446,"journal":{"name":"MethodsX","volume":"14 ","pages":"Article 103215"},"PeriodicalIF":1.6,"publicationDate":"2025-02-21","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143509558","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Fraction collection of bioactive compounds from ion chromatography: No longer mission impossible

IF 1.6

MethodsX Pub Date : 2025-02-21 DOI: 10.1016/j.mex.2025.103243

Hans S.A. Yates , James F. Carter , Mary T. Fletcher , Viviene S. Santiago , Ondrea Thompson , Natasha L. Hungerford

引用次数: 0

Assessing banana stalk susceptibility to pathogens and their virulence

IF 1.6

MethodsX Pub Date : 2025-02-20 DOI: 10.1016/j.mex.2025.103244

T. Desmarez , P. Brat , L. Lassois , B. Barral , O. Hubert

引用次数: 0

Desing and methodological process for assessing quasi-experiments in virtual reality environments for deepfake recognition in the artificial intelligence era

IF 1.6

MethodsX Pub Date : 2025-02-20 DOI: 10.1016/j.mex.2025.103242

Alberto Sanchez-Acedo, Alejandro Carbonell-Alcocer, Manuel Gertrudix

{"title":"Desing and methodological process for assessing quasi-experiments in virtual reality environments for deepfake recognition in the artificial intelligence era","authors":"Alberto Sanchez-Acedo, Alejandro Carbonell-Alcocer, Manuel Gertrudix","doi":"10.1016/j.mex.2025.103242","DOIUrl":"10.1016/j.mex.2025.103242","url":null,"abstract":"<div><div>Nowadays, the impact of artificial intelligence tools in the professional field must be analyzed, as well as their influence on the field of journalism and information. One of the aspects that has generated most concern in this area is the use of these tools, which can generate audiovisual content, for the creation of deepfakes. This article presents the methodology used to carry out a quasi-experiment designed to study and analyze the behaviour of young people in the face of possible exposure to deepfakes generated with artificial intelligence tools, as well as their ability to identify them. The experiment is conducted in a virtual environment in which participants are immersed in an interact with the environment in which they visualize newspaper front pages that include contextual elements. Participants must review the information included in the virtual environment to determine whether the images displayed correspond to real people or people generated with artificial intelligence tools. In addition, the influence and importance of the contextual elements accompanying an image in determining whether it is fake or real is analyzed. This article aims to detail the methodology used in this experiment to promote its replicability.<ul><li><span>•</span><span><div>This article proposes the method of a detailed guide to be replicated and reproduced in future academic research to understand the media diet of different population groups.</div></span></li><li><span>•</span><span><div>Datasets are provided with results that allow for comparative, longitudinal and replication studies.</div></span></li><li><span>•</span><span><div>The A-Frame framework for the design of virtual environments is introduced and can be used for the design of quasi-experiments.</div></span></li></ul></div></div>","PeriodicalId":18446,"journal":{"name":"MethodsX","volume":"14 ","pages":"Article 103242"},"PeriodicalIF":1.6,"publicationDate":"2025-02-20","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143511492","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Enhanced leukemia prediction using hybrid ant colony and ant lion optimization for gene selection and classification

IF 1.6

MethodsX Pub Date : 2025-02-20 DOI: 10.1016/j.mex.2025.103239

Santhakumar D , Gnanajeyaraman Rajaram , Elankavi R , Viswanath J , Govindharaj I , Raja J

{"title":"Enhanced leukemia prediction using hybrid ant colony and ant lion optimization for gene selection and classification","authors":"Santhakumar D , Gnanajeyaraman Rajaram , Elankavi R , Viswanath J , Govindharaj I , Raja J","doi":"10.1016/j.mex.2025.103239","DOIUrl":"10.1016/j.mex.2025.103239","url":null,"abstract":"<div><div>Gene selection plays a crucial role in the pre-processing of microarray data, aiming to identify a small set of genes that enhances classification accuracy and reduces costs. Traditional methods, such as Genetic Algorithms (GA) and Maximum Relevance Minimum Redundancy (MRMR), have been widely used, but bio-inspired algorithms like Ant Colony Optimization (ACO) and Ant Lion Optimizer (ALO) have shown promising results. These algorithms are based on natural processes: ACO mimics the foraging behavior of ants, while ALO models the hunting strategy of ant-lion larvae. However, both approaches face challenges like premature convergence and inefficient feature space mapping when used individually. To address these issues, this work introduces a hybrid ACO-ALO method, combining the strengths of both algorithms. The proposed hybrid approach enhances feature selection by improving accuracy, reducing computational complexity, and boosting classifier performance. The proposed model, which identifies the optimal feature set for classification using Support Vector Machine (SVM), has achieved an impressive prediction accuracy of 93.94 %. Results on microarray datasets for leukemia prediction show that the hybrid approach outperforms other methods in terms of both effectiveness and efficiency. This work demonstrates the potential of hybrid optimization techniques in bioinformatics for better gene selection and cancer diagnosis.<ul><li><span>•</span><span><div>Hybrid ACO-ALO approach combines strengths of both algorithms for better feature selection.</div></span></li><li><span>•</span><span><div>Enhances classifier performance while reducing computational complexity.</div></span></li><li><span>•</span><span><div>Outperforms traditional methods on leukemia prediction datasets.</div></span></li></ul></div></div>","PeriodicalId":18446,"journal":{"name":"MethodsX","volume":"14 ","pages":"Article 103239"},"PeriodicalIF":1.6,"publicationDate":"2025-02-20","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143519613","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Assessing SPI and SPEI for drought forecasting through the power law process: A case study in South Sulawesi, Indonesia

IF 1.6

MethodsX Pub Date : 2025-02-19 DOI: 10.1016/j.mex.2025.103235

Nurtiti Sunusi, Nur Hikmah Auliana

{"title":"Assessing SPI and SPEI for drought forecasting through the power law process: A case study in South Sulawesi, Indonesia","authors":"Nurtiti Sunusi, Nur Hikmah Auliana","doi":"10.1016/j.mex.2025.103235","DOIUrl":"10.1016/j.mex.2025.103235","url":null,"abstract":"<div><div>This study presents a method for assessing drought events by integrating Standardized Precipitation Index (SPI) and Standardized Precipitation Evapotranspiration Index (SPEI) into the Power Law Process (PLP) model. The method begins with identifying drought events based on SPI and SPEI, followed by the Cramér–von Mises goodness-of-fit test to ensure the drought data meets PLP assumptions. Parameter estimation is performed using Maximum Likelihood Estimation (MLE) with a time-truncated approach, treating drought as a random process within a defined observation period. Model validation is conducted by comparing actual drought events with predictions from the cumulative PLP function, while event probabilities are determined using the Nonhomogeneous Poisson Process. Applied to 24 regencies/cities in South Sulawesi, the method showed that 14 regions fit the PLP based on SPI, and 13 regions based on SPEI. Predictions indicate that over the next 12 months, drought will occur for one month based on SPI and two months based on SPEI. This method contributes to the development of drought monitoring and early warning systems, supporting mitigation and adaptation strategies in South Sulawesi.</div><div>The main contributions of this study include:<ul><li><span>•</span><span><div>The development of a novel methodological framework by integrating SPI and SPEI into the PLP for drought analysis</div></span></li><li><span>•</span><span><div>Practical applications in drought early warning systems and drought risk management in South Sulawesi</div></span></li></ul></div></div>","PeriodicalId":18446,"journal":{"name":"MethodsX","volume":"14 ","pages":"Article 103235"},"PeriodicalIF":1.6,"publicationDate":"2025-02-19","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143474823","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

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