Role of Melt Curve Analysis in Interpretation of Nutrigenomics’ MicroRNA Expression Data

Ahmed, Farid; Gouda, Mostafa; Hussein, Laila; Ahmed, Nadia; Vos, Paul; Mohammad, Mahmoud A.

doi:10.21873/cgp.20057

Cited by 15 publications

(11 citation statements)

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“…Additionally, related to income, a previous study concluded that people with higher education and income levels will have a better diet because they can afford diet costs [2, 20]. Our results provide another point of view different from the conventional idea of most previous studies; people who have higher socioeconomic status have better meals [2, 20, 41, 42] yet, their diet quality at the individual nutrient level shows insufficient in a certain nutrient.…”

Section: Discussioncontrasting

confidence: 58%

Association between eating behaviour and diet quality: eating alone vs. eating with others

Chae

Shin

et al. 2018

Nutr J

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BackgroundTo discover the association between eating alone and diet quality among Korean adults who eat alone measured by the mean adequacy ratio (MAR),MethodsThe cross-sectional study in diet quality which was measured by nutrient intakes, indicated as MAR and nutrient adequacy ratio (NAR) with the Korean National Health and Nutrition Examination Survey (KNHANES) VI 2013–2015 data. Study population was 8523 Korean adults. Multiple linear regression was performed to identify the association between eating behaviour and MAR and further study analysed how socioeconomic factors influence the diet quality of those who eat alone.ResultsWe found that the diet quality of people who eat alone was lower than that of people who eat together in both male (β: − 0.110, p = 0.002) and female participants (β: − 0.069, p = 0.005). Among who eats alone, the socioeconomic factors that negatively influenced MAR with the living arrangement, education level, income levels, and various occupation classifications.ConclusionsPeople who eat alone have nutrition intake below the recommended amount. This could lead to serious health problems not only to those who are socially disadvantaged but also those who are in a higher social stratum. Policy-makers should develop strategies to enhance diet quality to prevent potential risk factors.Electronic supplementary materialThe online version of this article (10.1186/s12937-018-0424-0) contains supplementary material, which is available to authorized users.

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Section: Discussioncontrasting

confidence: 58%

Association between eating behaviour and diet quality: eating alone vs. eating with others

Chae

Shin

et al. 2018

Nutr J

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“…MicroRNAs (miRNAs) assume a pivotal role in controlling inborn and versatile immunity in humans and animals [ 23 ]. An aggregate of 1838 miRNAs was recognized, including 580 known-miRNAs (incorporated for the miRbase database) and 1258 anticipated novel miRNAs.…”

Section: Discussionmentioning

confidence: 99%

Transcriptomic in silico analysis of bovine Escherichia coli mastitis highlights its immune-related expressed genes as an effective biomarker

Farmanullah

Liang

Khan

et al. 2021

Journal of Genetic Engineering and Biotechnology

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Background Mastitis is one of the major diseases causing economic loss to the dairy industry by reducing the quantity and quality of milk. Thus, the objective of this scientific study was to find new biomarkers based on genes for the early prediction before its severity. Methods In the present study, advanced bioinformatics including hierarchical clustering, enrichment analysis, active site prediction, epigenetic analysis, functional domain identification, and protein docking were used to analyze the important genes that could be utilized as biomarkers and therapeutic targets for mastitis. Results Four differentially expressed genes (DEGs) were identified in different regions of the mammary gland (teat cistern, gland cistern, lobuloalveolar, and Furstenberg’s rosette) that resulted in 453, 597, 577, and 636 DEG, respectively. Also, 101 overlapped genes were found by comparing 27 different expressed genes. These genes were associated with eight immune response pathways including NOD-like receptor signaling pathway (IL8, IL18, IL1B, PYDC1) and chemokine signaling pathway (PTK2, IL8, NCF1, CCR1, HCK). Meanwhile, 241 protein-protein interaction networks were developed among overlapped genes. Fifty-seven regulatory events were found between miRNAs, expressed genes, and the transcription factors (TFs) through micro-RNA and transcription factors (miRNA-DEG-TF) regulatory network. The 3D structure docking model of the expressed genes proteins identified their active sites and the binding ligands that could help in choosing the appropriate feed or treatment for affected animals. Conclusions The novelty of the distinguished DEG and their pathways in this study is that they can precisely improve the detection biomarkers and treatments techniques of cows’ Escherichia coli mastitis disease due to their high affinity with the target site of the mammary gland before appearing the symptoms. Graphical abstract

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“…Fold change in mRNA levels was calculated by the Eq. 2 −ΔΔCt method [31]. Primer sequences are shown in the Table.…”

Section: Rna Extraction Reverse Transcription and The Quantitative Real-time Polymerase Chain Reaction (Qrt-pcr)mentioning

confidence: 99%

Mixed lineage kinase domain-like pseudokinase-mediated necroptosis aggravates periodontitis progression

et al. 2021

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Necroptosis is a form of cell death that is reportedly involved in the pathogenesis of periodontitis.However, the role of Mlkl-involved necroptosis remains unclear. Herein, we aim to explore the role of MLKL-mediated necroptosis in periodontitis in vitro and in vivo. Expression of RIPK3, MLKL, and phosphorylated MLKL is observed in gingival tissues obtained from healthy subjects or patients with periodontitis. Viability of Porphyromonas gingivalis lipopolysaccharide (LPS-Pg)-treated cells was detected. In wild type or Mlkl de ciency mice with ligature-induced periodontitis, alveolar bone loss and osteoclast activation were assessed. mRNA levels of in ammatory cytokines in bone marrow-derived macrophages were tested by qRT-PCR. Increased expression of RIPK3, MLKL, and phosphorylated MLKL is observed in gingival tissues obtained from patients with periodontitis. Porphyromonas gingivalis lipopolysaccharide (LPS-Pg)-treated cells developed necroptosis after caspase inhibition and negatively regulated the NF-κB signaling pathway. In mice with ligature-induced periodontitis, Mlkl de ciency reduced alveolar bone loss and weakened osteoclast activation. Furthermore, genetic ablation of Mlkl in LPS-Pg-treated bone marrow-derived macrophages increased the mRNA levels of tumor necrosis factor-α, interleukin (Il)-1β, Il-6, cyclooxygenase 2, matrix metalloproteinase 9, and receptor activator of nuclear factor kappa-B ligand. Our data indicated that MLKL-mediated necroptosis aggravates the development of periodontitis in a Mlkl-de cient mouse. And this will provide a new sight for the understanding of etiology and therapies of periodontitis. Key MessagesMLKL expression was upregulated in human gingival tissue.Mlkl de ciency affected the progression of periodontitis.Necroptosis played a major role in mice periodontitis model. Knockout of Mlkl had a signi cant effect on in ammatory responses.

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Role of Melt Curve Analysis in Interpretation of Nutrigenomics’ MicroRNA Expression Data

Abstract: Abstract. This article illustrates the importance of meltcurve analysis (MCA) (miR-184, miR-203, miR-373, miR-124, miR-96, miR-373 and miR301a)

Cited by 15 publications

References 71 publications

Association between eating behaviour and diet quality: eating alone vs. eating with others

Association between eating behaviour and diet quality: eating alone vs. eating with others

Transcriptomic in silico analysis of bovine Escherichia coli mastitis highlights its immune-related expressed genes as an effective biomarker

Mixed lineage kinase domain-like pseudokinase-mediated necroptosis aggravates periodontitis progression

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