Article
Health Care Sciences & Services
Yusuke Saigusa, Shinto Eguchi, Osamu Komori
Summary: The generalized linear mixed model (GLMM) is a common method for analyzing longitudinal and clustered data in biological sciences. However, issues of model complexity and misspecification can arise. This paper extends the standard GLMM to a nonlinear mixed-effects model based on quasi-linear modeling, providing an estimation algorithm and a conditional AIC for the proposed model. Performance under model misspecification is evaluated in simulation studies, and the proposed model is shown to capture heterogeneity in respiratory illness data.
STATISTICAL METHODS IN MEDICAL RESEARCH
(2022)
Article
Food Science & Technology
Cheng Peng, Rui Li, Hui Ni, Li Jun Li, Qing Biao Li
Summary: The study shows that the combined treatment with alpha-L-rhamnosidase and beta-D-glucosidase is more effective in removing the bitter taste of citrus juice and significantly improving antioxidant activity and aroma quality compared to using either enzyme alone.
JOURNAL OF FOOD PROCESSING AND PRESERVATION
(2021)
Article
Mathematics, Applied
Nesrin Guler, Melek Eris Buyukkaya
Summary: This article compares a predictor with the best linear unbiased predictor (BLUP) for a unified form of all unknown parameters under a stochastically restricted linear mixed model (SRLMM) in terms of the mean squared error matrix (MSEM) criterion. The methodology of block matrix inertias and ranks is employed to compare the MSEMs of these predictors. The comparison results are also demonstrated for a linear mixed model with and without an exact restriction, as well as special cases of the unified form of all unknown parameters in the SRLMM.
Article
Mathematics
Meng Yuan, Biao Zeng, Jiayu Chen, Chenxu Wang
Summary: This paper focuses on the theoretical preparations for classical Z-numbers and derives the maximum expected linear programming model of Z-numbers based on reliability conversion factors. By transforming Z-numbers into LR fuzzy intervals, the credibility distribution and inverse distribution of converted Z-numbers are precisely described. The maximum expected Z-number linear programming model is determined and its application is demonstrated using realistic examples.
Article
Mathematical & Computational Biology
Hongqian Wu, Michael P. Jones
Summary: The study proposes an extension of the generalized linear model for analyzing longitudinal data by incorporating random effects and using maximum likelihood for estimation and inference. Simulation studies are conducted to assess its properties and compare it to the generalized linear mixed model, with an illustration using data from a longitudinal study of Huntington's disease.
STATISTICS IN MEDICINE
(2021)
Article
Multidisciplinary Sciences
Shiva Farashahi, Alireza Soltani
Summary: Real-world learning is challenging due to the association of reward with multiple features of choice options. The study demonstrates that humans can learn complex learning strategies and reveals the underlying computational and neural mechanisms.
NATURE COMMUNICATIONS
(2021)
Article
Engineering, Multidisciplinary
Wenlong He, Zhihao Ge
Summary: This paper proposes a new mixed finite element method for a swelling clay model with secondary consolidation. The original model is reformulated to better describe the multi-physics processes by introducing a new variable. The existence and uniqueness of the weak solution are proved through PDE analysis. A fully discrete time-stepping scheme is designed using mixed finite element method with P-2-P-1-P-1 element pairs for the space variables and backward Euler method for the time variable. Stability analysis and optimal convergence order error estimates are provided. Numerical examples are presented to verify the theoretical results and illustrate the significant effect of the secondary consolidation term on displacement.
APPLIED MATHEMATICAL MODELLING
(2022)
Article
Environmental Sciences
Paraskevi Georgakaki, Georgia Sotiropoulou, Etienne Vignon, Anne-Claire Billault-Roux, Alexis Berne, Athanasios Nenes
Summary: Simulations and observations show that ice crystal formation in orographic mixed-phase clouds is influenced by seeder-feeder events from higher precipitating cloud layers and snowflake aggregation. Blowing snow and secondary ice fragment generation can enhance ice crystal number concentrations, which can be counteracted by increases in orographic precipitation.
ATMOSPHERIC CHEMISTRY AND PHYSICS
(2022)
Article
Automation & Control Systems
Ying Qian
Summary: This paper investigates the Z-type control method to stabilize species populations and make them converge to desired values in a two-species predator-prey model with time delay. Direct and indirect controllers are constructed, assuming the ability to alter both species' growth rates and only one species' growth rate, respectively. The effectiveness of the Z-type method is theoretically justified and the potential of non-linear activation functions to speed up the control process is highlighted. The discrete versions of the controlled systems are provided, and the validity of all Z-type controllers is confirmed through numerical simulations. (c) 2022 ISA. Published by Elsevier Ltd. All rights reserved.
Article
Mathematics
Calogero Vetro, Francesca Vetro
Summary: In this paper, we demonstrate the existence of at least three weak solutions to a mixed Dirichlet-Neumann boundary value problem for equations driven by the p(z)-Laplace operator. Our approach is variational and relies on three critical points theorems.
MATHEMATISCHE NACHRICHTEN
(2021)
Article
Computer Science, Theory & Methods
Thomas Maullin-Sapey, Thomas E. Nichols
Summary: The analysis of longitudinal, heterogeneous or unbalanced clustered data is crucial for various applications, with the linear mixed model being a popular and flexible extension designed for such purposes. Recent focus in LMM literature has shifted towards developing methods for estimation and inference in complex, multi-factored designs.
STATISTICS AND COMPUTING
(2021)
Article
Statistics & Probability
J. Sunil Rao, Mengying Li, Jiming Jiang
Summary: In practical problems, it is important to estimate mixed effect projections for new data outside the range of training data. The proposed framework called PURE can provide more accurate model projections.
JOURNAL OF THE AMERICAN STATISTICAL ASSOCIATION
(2023)
Article
Automation & Control Systems
Rubens J. M. Afonso, Roberto K. H. Galvao
Summary: This note addresses the problem of crossing a target set between sample instants under the influence of bounded unknown disturbances. The proposed solution utilizes mixed-integer linear programming and is less conservative compared to the standard approach of imposing pointwise-in-time constraints at the sample instants.
INTERNATIONAL JOURNAL OF ROBUST AND NONLINEAR CONTROL
(2021)
Article
Chemistry, Multidisciplinary
Mulugeta Tesfa, Temesgen Zewotir, Solomon Assefa Derese, Denekew Bitew Belay, Hussein Shimelis
Summary: This study compared the BLUP and BLUE methods, as well as the linear mixed model and general linear model, to select high-performing genotypes. The results showed that the linear mixed model was more accurate in selecting high-yielding genotypes. Therefore, it is recommended to use the linear mixed model for selecting genotypes with high grain yield.
APPLIED SCIENCES-BASEL
(2023)
Article
Computer Science, Interdisciplinary Applications
Boris Forthmann
Summary: This study presents a method to estimate the Q model using generalized linear mixed models, which is a prominent approach for assessing researcher capacity. By using statistical software packages, estimates of researcher capacity and other Q model parameters can be obtained easily. In a large dataset, the Poisson Q model was found to have slightly better predictive accuracy than the original normal Q model. The reliability of Q parameter estimates depended heavily on the number of publications, with reliability increasing as the number of papers increased. The future and limitations of the Q model in estimating researcher capacity are thoroughly discussed.
Article
Biotechnology & Applied Microbiology
Edilane Cristina do Nascimento, Melissa Correa Sabino, Lucas da Roza Corguinha, Brenda Neres Targino, Carla Cristine Lange, Claudia Lucia de Oliveira Pinto, Priscila de Faria Pinto, Pedro Marcus Pereira Vidigal, Anderson S. Sant'Ana, Humberto Moreira Hungaro
Summary: The study isolated and characterized P. fluorescens-infecting phages, which showed high specificity and effectiveness in reducing bacterial counts and delaying protein degradation during cold storage.
Article
Food Science & Technology
Hugo Scudino, Jonas T. Guimaraes, Lucelia Cabral, Victor Borin Centurion, Andresa Gomes, Arthur S. Orsi, Rosiane L. Cunha, Anderson S. Sant'Ana, Adriano G. Cruz
Summary: This study demonstrated that high-intensity ultrasound (HIUS) processing can reduce the fat droplet size in whole milk, improving its physical stability. After HIUS treatment, Acinetobacter, Kluyvera and Serratia became the dominant bacterial genera in the milk samples.
INTERNATIONAL JOURNAL OF DAIRY TECHNOLOGY
(2022)
Editorial Material
Food Science & Technology
Anderson S. Sant'Ana
CURRENT OPINION IN FOOD SCIENCE
(2022)
Review
Food Science & Technology
Celso F. Balthazar, Jonas F. Guimaraes, Nathalia M. Coutinho, Tatiana C. Pimentel, C. Senaka Ranadheera, Antonella Santillo, Marzia Albenzio, Adriano G. Cruz, Anderson S. Sant'Ana
Summary: This article is the first review to gather literature on the effect of emerging technologies on probiotic, prebiotic, and postbiotic products. The findings suggest that applying emerging technologies can enhance the efficiency and improve the properties of these products. In addition, it can optimize the fermentation process, increase the concentration of bioactive compounds, and produce postbiotic products with improved health effects. The information provided is important for the food industry to choose suitable technologies and parameters for product processing.
COMPREHENSIVE REVIEWS IN FOOD SCIENCE AND FOOD SAFETY
(2022)
Article
Food Science & Technology
Carine N. Almada-Erix, Caroline N. Almada, Geany T. Souza Pedrosa, Joao Paulo Biachi, Mariane S. Bonatto, Marcio Schmiele, Elizabeth H. Nabeshima, Maria Teresa P. S. Clerici, Marciane Magnani, Anderson S. Sant'Ana
Summary: This study evaluated the resistance of Bacillus coagulans spores in bread processing and storage, and characterized the physicochemical parameters of probiotic bread. Results showed that baking had the highest impact on the survival of Bacillus coagulans, and both white and whole wheat bread were suitable carriers for delivering the probiotic.
FOOD RESEARCH INTERNATIONAL
(2022)
Article
Food Science & Technology
Henry M. Nascimento, Leonardo do Prado-Silva, Luciana R. Brandao, Ramon P. Brexo, Antonio A. Camara, Carlos A. Rosa, Anderson S. Sant'Ana
Summary: This study evaluated the occurrence and diversity of yeasts in frozen concentrated orange juice (FCOJ) and their resistance to peracetic acid. The results showed a wide variety of yeasts present in FCOJ samples, with some strains exhibiting high resistance to peracetic acid concentrations. These findings are important for ensuring the quality of orange juice and reducing the risk of yeast contamination during transportation and storage.
INTERNATIONAL JOURNAL OF FOOD MICROBIOLOGY
(2022)
Article
Food Science & Technology
Beatriz Nunes Silva, Olga Maria Bonilla-Luque, Aricia Possas, Youssef Ezzaky, Abdelkhaleq Elmoslih, Jose Antonio Teixeira, Fouad Achemchem, Antonio Valero, Vasco Cadavez, Ursula Gonzales-Barron
Summary: Diffusion methods and dilution methods are commonly used to evaluate the antimicrobial capacity of extracts and essential oils derived from Origanum, Syzygium aromaticum, and Citrus. The results are reported as inhibition diameters and minimum inhibitory concentrations. Meta-analytical regression models were built to investigate the sources of variability and the correlation between inhibition diameters and minimum inhibitory concentrations. The study found varied bacterial susceptibilities among the extracts and different impacts of plant species and methodology utilized on the measurements obtained.
Article
Food Science & Technology
Beatriz Nunes Silva, Vasco Cadavez, Cristina Caleja, Eliana Pereira, Ricardo C. Calhelha, Mikel Anibarro-Ortega, Tiane Finimundy, Marina Kostic, Marina Sokovic, Jose Antonio Teixeira, Lillian Barros, Ursula Gonzales-Barron
Summary: This study aimed to characterize the polyphenolic profile and bioactive properties of lemon balm, sage, and spearmint extracts. The results showed that some of these extracts may have the ability to prevent food spoilage and promote health benefits while not displaying toxicity against healthy cells. Although sage extracts did not exhibit anti-inflammatory capacity, they often showed the best outcomes in terms of other bioactivities. Overall, the research provides insight into the potential of plant extracts as a source of active phytochemicals and as natural food additives.
Article
Agricultural Engineering
Nesar Mohammadi Baneh, Hossein Navid, Jalal Kafashan, Hatef Fouladi, Ursula Gonzales-Barron
Summary: This study focuses on the accurate recognition of stem and calyx in apple quality classification. The researchers developed a highly accurate and feasible methodology using Niblack thresholding and k-nearest neighbor classifiers, along with a locally designed small-scale apple sorting machine. The results showed that using a 5-nearest neighbor classifier and Euclidean distance with 80 training samples achieved accuracy rates of 100% for stem and 97.5% for calyx. This study is significant for the development of an advanced small-scale and low-cost sorting machine in the horticultural industry.
Article
Food Science & Technology
Beatriz Nunes Silva, Sara Coelho-Fernandes, Jose Antonio Teixeira, Vasco Cadavez, Ursula Gonzales-Barron
Summary: This study investigates the effect of a customised starter culture and plant extracts on the kinetics of Staphylococcus aureus and lactic acid bacteria in raw milk soft cheeses. The results show that the bio-preservatives can reduce the time required for a one-log reduction in S. aureus, but they may also affect the pH drop and decay rates in the cheese. Spearmint and sage extracts have an impact on the specific growth rate of lactic acid bacteria, while lemon balm does not have a significant effect.
Review
Food Science & Technology
Beatriz Nunes Silva, Jose Antonio Teixeira, Vasco Cadavez, Ursula Gonzales-Barron
Summary: This study provides an overview of lactic acid bacteria and plant extracts as antimicrobial agents in artisanal cheeses, as well as thermisation as a strategy to avoid pasteurisation. The mechanisms of antimicrobial action, advantages, limitations, and potential commercial applications of these approaches are discussed. Plant extracts and lactic acid bacteria appear to be effective in reducing microbial contamination, while thermisation can effectively inactivate pathogens.
Article
Environmental Sciences
Beatriz Nunes Silva, Sara Coelho-Fernandes, Jose Antonio Teixeira, Vasco Cadavez, Ursula Gonzales-Barron
Summary: In this study, the heat resistance of S. aureus in goats' raw milk subjected to different thermisation temperatures was investigated. The Weibull model was used to model the survival curves and two different approaches were employed to analyze the data. The study established a model capable of predicting S. aureus behavior at different temperatures and provided valuable information for the production of safer unpasteurized milk cheeses.
MICROBIAL RISK ANALYSIS
(2023)
Article
Biotechnology & Applied Microbiology
Lihan Huang, Nurul Hawa Ahmad, Vijay Juneja, Erika Stapp-Kamotani, Jose Gabiola, Udit Minocha, Robert Phillips, Marie Hooker, Isabel Walls, Kim Cook, James Lindsay
Summary: This study investigated the growth kinetics of foodborne pathogen B. cereus during the commercial production of liquid egg yolk using PLA(2) treatment. The results showed that B. cytotoxicus NVH391-98 can grow prolifically at 50 degrees C, with estimated minimum, optimum, and maximum temperatures of 16.7-18.5, 47.8-48.1, and 52.1-52.4 degrees C, respectively. The dynamic model was validated with isothermal curves and it was found that holding the temperature below 15 degrees C or above 55 degrees C can effectively prevent the growth of B. cytotoxicus in egg yolk.
Article
Biotechnology & Applied Microbiology
Giacomo Mantegazza, Robin Duncan, Nicolo Telesca, Giorgio Gargari, Susanna Perotti, Patrizia Riso, Simone Guglielmetti
Summary: This study investigates whether salad-associated LAB can survive the gastrointestinal transit (GIT) and contribute to the gut microbiota. The results suggest that salad-associated LAB can survive in the gastrointestinal tract, but their quantity does not significantly alter the composition of the gut microbiota.
Article
Biotechnology & Applied Microbiology
Itsaso Baztarrika, Adrian Salazar-Sanchez, Lorena Laorden, Ilargi Martinez-Ballesteros, Rodrigo Alonso, Irati Martinez-Malaxetxebarria
Summary: The infection mechanisms of Arcobacter are still uncertain. This study found that Arcobacter isolates from food and water sources were able to adhere and invade Caco-2 cells, and carried at least two virulence markers. A. butzleri showed higher virulent activity compared to A. cryaerophilus, while A. lanthieri, A. skirrowii, and A. vitoriensis exhibited even higher adhesion and invasion values. Sewage isolates were more adherent and invasive, and had a higher gene content. The association between cadF and hecA with high adhesion capability was identified for the first time.
Article
Biotechnology & Applied Microbiology
Balaji Sundararaman, Karen Shapiro, Andrea Packham, Lauren E. Camp, Rachel S. Meyer, Beth Shapiro, Richard E. Green
Summary: Pathogenic bacteria, viruses, fungi, and protozoa can cause food and waterborne diseases, and surveillance methods are needed. In this study, CNER method was used to prepare enrichment baits for difficult-to-grow pathogens. This method allows direct sequencing of pathogens from samples.
Article
Biotechnology & Applied Microbiology
Guanghui Zhou, Pengcheng Dong, Xin Luo, Lixian Zhu, Yanwei Mao, Yunge Liu, Yimin Zhang
Summary: Interactions between bacterial species in the formation of dual-species biofilms in the food industry are affected by environmental stresses, such as temperature and pH. This study found that the combination of cold and acid stresses significantly increased biofilm formation, and different temperatures resulted in variations in the presence of specific bacterial species and the secretion of extracellular substances. The findings provide valuable insights for addressing mixed biofilms in food processing under diverse stressful conditions.
Article
Biotechnology & Applied Microbiology
Carmen Sanchez, Sonia Garde, Jose Maria Landete, Javier Calzada, Dave J. Baker, Rhiannon Evans, Arjan Narbad, Melinda J. Mayer, Marta Avila
Summary: This study sequenced and compared the genomes of bacteriophages active against C. tyrobutyricum, identifying novel species and phage proteins. A phage showed high lytic activity against C. tyrobutyricum cells and remained stable under different environmental conditions. Additionally, engineered strains successfully delivered endolysin and fluorescent protein to dairy products without affecting their technological properties.
Article
Biotechnology & Applied Microbiology
Danai Etter, Michael Biggel, Mariella Greutmann, Nicole Cernela, Sophia Johler
Summary: Bacillus cytotoxicus is a thermotolerant bacterium that is linked to rare but sometimes fatal cases of diarrheal disease. It is mostly found in dehydrated foods containing potato starch or insects and may be missed in routine screening.
Article
Biotechnology & Applied Microbiology
Tong Jin, Xiangjun Zhan, Liuxin Pang, Bo Peng, Xinpeng Zhang, Wenxiu Zhu, Baowei Yang, Xiaodong Xia
Summary: The study found that CpxAR TCS is an important regulatory mechanism for the virulence of C. sakazakii. Mutants showed weakened adhesion, invasion, and survival ability, and exhibited attenuated virulence in animal models. In addition, CpxAR TCS is involved in regulating the expression of genes associated with bacterial virulence and cellular invasion.
Article
Biotechnology & Applied Microbiology
Soo-Hwan Kim, Sang-Hyun Park, Jun-Bae Ahn, Dong-Hyun Kang
Summary: In this study, a semi continuous SHS system was developed to inactivate foodborne pathogens on radish seed surfaces and enhance the seeds' salinity tolerance. The results showed that higher temperature and more treatments led to a significant reduction in microbial count on the seed surface.
Article
Biotechnology & Applied Microbiology
Yujun Zhai, Weina Tian, Kewei Chen, Linshu Lan, Jianquan Kan, Hui Shi
Summary: This research investigates the role of flagella-related genes in the adhesion of E. coli O157:H7 and the effects of certain cations on bacterial adhesion and motility. The results demonstrate that flagellar-mediated motility is critical in the early stage of adhesion, and the presence of Fe2+, Ca2+, and Mn2+ affects the adhesion and motility of wildtype strains but not flagellar function-impaired strains. These findings provide new insights into the mechanisms of bacterial adhesion and have implications for the development of anti-adhesion agents.
Article
Biotechnology & Applied Microbiology
Mariana Marggraf, Andrea Barac, Jens Andre Hammerl, Stefan Hertwig
Summary: Isolating Yersinia enterocolitica from food is challenging due to overgrowth by other microflora and the lack of a selective medium. The authors improved the standard isolation procedure, resulting in a more sensitive method, reduced background bacteria, and time savings.
Article
Biotechnology & Applied Microbiology
Rafael D. Chaves, Samuel H. Kumazawa, Amin Mousavi Khaneghah, Veronica O. Alvarenga, Humberto M. Hungaro, Anderson S. Sant'Ana
Summary: This study investigated the susceptibility to sanitizers and biofilm-forming ability of 43 Salmonella enterica and Listeria monocytogenes strains on stainless steel surfaces. The results showed variations in susceptibility to sanitizers and biofilm resistance among different strains of the pathogens, with chlorine compounds being more effective in inactivating planktonic cells and biofilms.
Article
Biotechnology & Applied Microbiology
So Yeong Mun, Wooje Lee, Soo-Young Lee, Ji Yoon Chang, Hae Choon Chang
Summary: This study reveals that lactobacilli with a strong defense system dominate the final stage of kimchi fermentation and proposes a model for the succession mechanism of kimchi lactobacilli.