Comparison and selection of probiotic <i>Lactobacillus</i> from human intestinal tract and traditional fermented food in vitro via <scp>PCA</scp>, unsupervised clustering algorithm, and heat‐map analysis

Zhang, Longfei; Qu, Hengxian; Liu, Huan; Liu, Yang; Wang, Wen-Qiong; Chen, Fan; Xiao, Lixia; Gu, Ruixia

doi:10.1002/fsn3.3018

Cited by 7 publications

(3 citation statements)

References 76 publications

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“…Zhang et al . utilized heatmap visualization and an unsupervised K-means clustering algorithm to categorize 40 Lactobacillus strains based on their probiotic attributes [ 20 ]. Ghosh et al .…”

Section: Discussionmentioning

confidence: 99%

Precision probiotics supplement strategy in aging population based on gut microbiome composition

Chuang,

Fan,

et al. 2024

Briefings in Bioinformatics

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With the increasing prevalence of age-related chronic diseases burdening healthcare systems, there is a pressing need for innovative management strategies. Our study focuses on the gut microbiota, essential for metabolic, nutritional, and immune functions, which undergoes significant changes with aging. These changes can impair intestinal function, leading to altered microbial diversity and composition that potentially influence health outcomes and disease progression. Using advanced metagenomic sequencing, we explore the potential of personalized probiotic supplements in 297 older adults by analyzing their gut microbiota. We identified distinctive Lactobacillus and Bifidobacterium signatures in the gut microbiota of older adults, revealing probiotic patterns associated with various population characteristics, microbial compositions, cognitive functions, and neuroimaging results. These insights suggest that tailored probiotic supplements, designed to match individual probiotic profile, could offer an innovative method for addressing age-related diseases and functional declines. Our findings enhance the existing evidence base for probiotic use among older adults, highlighting the opportunity to create more targeted and effective probiotic strategies. However, additional research is required to validate our results and further assess the impact of precision probiotics on aging populations. Future studies should employ longitudinal designs and larger cohorts to conclusively demonstrate the benefits of tailored probiotic treatments.

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Section: Discussionmentioning

confidence: 99%

Precision probiotics supplement strategy in aging population based on gut microbiome composition

Chuang,

Fan,

et al. 2024

Briefings in Bioinformatics

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“…The eigenvalues associated with the first three principal components ranged from 1.20 to 3.03, with the third principal component axis contributing significantly by explaining 87.30% of the overall variation. The application of principal component analysis (PCA) allows for the characterization of variations observed among experimental materials, thereby aiding in the identification of noteworthy plant traits [49,50]. In the biplot diagram, genotypes are deemed to have substantial contribution coefficients when their F values surpass 0.…”

Section: Discussionmentioning

confidence: 99%

Modeling Callus Induction and Regeneration in Hypocotyl Explant of Fodder Pea (Pisum sativum var. arvense L.) Using Machine Learning Algorithm Method

Türkoğlu,

Bolouri,

Haliloğlu

et al. 2023

Agronomy

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A comprehensive understanding of genetic diversity and the categorization of germplasm is important to effectively identify appropriate parental candidates for the goal of breeding. It is necessary to have a technique of tissue culture that is both effective and reproducible to perform genetic engineering on fodder pea genotypes (Pisum sativum var. arvense L.). In this investigation, the genetic diversity of forty-two fodder pea genotypes was assessed based on their ability of callus induction (CI), the percentage of embryogenic callus by explant number (ECNEP), the percentage of responding embryogenic calluses by explant number (RECNEP), the number of somatic embryogenesis (NSE), the number of responding somatic embryogenesis (RSE), the regeneration efficiency (RE), and the number of regenerated plantlets (NRP). The findings of the ANOVA showed that there were significant differences (p < 0.001) between the genotypes for all in vitro parameters. The method of principal component analysis (PCA) was used to study the correlations that exist between the factors associated with tissue culture. While RE and NRP variables were most strongly associated with Doğruyol, Ovaçevirme-4, Doşeli-1, Yolgeçmez, and Incili-3 genotypes, RECNEP, NSE, RDE, and RECNEP variables were strongly associated with Avcılar, Ovaçevirme-3, and Ardahan Merkez-2 genotypes. The in vitro process is a complex multivariate process and more robust analyses are needed for linear and nonlinear parameters. Within the scope of this study, artificial neural network (ANN), random forest (RF), and multivariate adaptive regression spline (MARS) algorithms were used for RE estimation, and these algorithms were also compared. The results that we acquired from our research led us to the conclusion that the employed ANN-multilayer perceptron (ANN-MLP) model (R2 = 0.941) performs better than the RF model (R2 = 0.754) and the MARS model (R2 = 0.214). Despite this, it has been shown that the RF model is capable of accurately predicting RE in the early stages of the in vitro process. The current work is an inquiry regarding the use of RF, MARS, and ANN models in plant tissue culture, and it indicates the possibilities of application in a variety of economically important fodder peas.

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“…Human-derived probiotics have more advantages than of non-human-derived probiotics [16]. It is safer and more effective to use human-derived probiotics for alleviating alcoholic liver injury.…”

Section: Introductionmentioning

confidence: 99%

Beneficial Effects of Probiotics on Liver Injury Caused by Chronic Alcohol Consumption

Sang,

Qu,

Liu

et al. 2024

Fermentation

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Alcoholic liver injury is a serious risk to human health. Probiotics have become a popular form of treatment. Lacticaseibacillus casei Grx12 and Limosilactobacillus fermentum Grx07 isolated from the gut of long-lived people in Rugao, Jiangsu, were studied to determine their protective effects and possible mechanisms of action on alcoholic liver injury. The results showed that rat serum ALT and AST were restored, and liver injury was reduced after the probiotics intervention. The level of antioxidant enzymes and antioxidants such as SOD, GSH and GSH-Px in the rat liver was significantly increased (p < 0.05), which reduces the level of MDA, a peroxidation product in the liver, and thus alleviates liver oxidative stress. L. casei Grx12 and L. fermentum Grx07 also could significantly enhance the expression of Nrf2 protein in the rat liver to regulate the anti-oxidative stress response in the body and cells (p < 0.05). The levels of ADH, Na+-K+-ATPase and Ca2+-ATPase in the rat liver were significantly increased (p < 0.05), which enhanced the body’s metabolism of alcohol. The rat serum LPS and liver TNF-α, IL-6, VEGF, TGF-β1 and NF-κB levels were significantly reduced (p < 0.05), indicating that the probiotics could relieve liver inflammation. The results of this study indicate that L. casei Grx12 and L. fermentum Grx07 have certain protective effects on alcoholic liver injury in rats, likely because of their antioxidant properties and ability to prevent oxidative stress and relieve inflammation.

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Comparison and selection of probiotic Lactobacillus from human intestinal tract and traditional fermented food in vitro via PCA, unsupervised clustering algorithm, and heat‐map analysis

Abstract: This is an open access article under the terms of the Creative Commons Attribution License, which permits use, distribution and reproduction in any medium, provided the original work is properly cited.

Cited by 7 publications

References 76 publications

Precision probiotics supplement strategy in aging population based on gut microbiome composition

Precision probiotics supplement strategy in aging population based on gut microbiome composition

Modeling Callus Induction and Regeneration in Hypocotyl Explant of Fodder Pea (Pisum sativum var. arvense L.) Using Machine Learning Algorithm Method

Beneficial Effects of Probiotics on Liver Injury Caused by Chronic Alcohol Consumption

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