A Mild Causal Relationship Between Tea Consumption and Obesity in General Population: A Two-Sample Mendelian Randomization Study

Li, Cancan; Niu, Mingyun; Guo, Zheng; Liu, Pengcheng; Zheng, Yulu; Liu, Di; Yang, Song; Wang, Wei; Li, Yuanmin; Hou, Haifeng

doi:10.3389/fgene.2022.795049

Cited by 21 publications

(14 citation statements)

References 60 publications

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“…Weighted medians can provide strong estimates of effective IVs with at least a 50% weight [ 51 ]. The simple mode is a model-based assessment approach that offers pleiotropy robustness [ 52 ]. For mode assessment, the weighted mode is sensitive to the hard throughput collection [ 53 ].…”

Section: Methodsmentioning

confidence: 99%

No Evidence of a Genetic Causal Relationship between Ankylosing Spondylitis and Gut Microbiota: A Two-Sample Mendelian Randomization Study

et al. 2023

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Objective: Ankylosing spondylitis (AS) is associated with a variety of gut microbiotas. We aim to analyze the causal relationship between the two at the genetic level. Methods: Mendelian randomization (MR) is a type of instrumental variables (IVs) analysis; MR follows the Mendelian genetic rule of “parental alleles are randomly assigned to offspring” and takes genetic variation as IVs to infer the causal association between exposure factors and study outcome in observational studies. Genome-wide association study (GWAS) summary data of AS were from the FinnGen consortium, and the gut microbiota (Bacteroides, Streptococcus, Proteobacteria, Lachnospiraceae) were from the MiBioGen consortium. The TwoSampleMR and MRPRESSO packages of the R were used to perform a two-sample MR study. Random-effects inverse variance weighted (IVW) was the main analysis method, and MR Egger, weighted median, simple mode, and weighted mode were used as supplementary methods. We examined heterogeneity and horizontal pleiotropy, and examined whether the analysis results were influenced by a single SNP. We applied radial variants of the IVW and MR-Egger model for the improved visualization of the causal estimate. We further examined the causal relationship between AS and gut microbiota, and the robustness of the analysis results. Finally, we performed maximum likelihood, penalized weighted median, and IVW (fixed effects) to further identify the potential causal association. Results: The random-effects IVW results showed that Bacteroides (p = 0.965, OR 95% confidence interval [CI] = 0.990 [0.621–1.579]), Streptococcus (p = 0.591, OR 95% CI = 1.120 [0.741–1.692]), Proteobacteria (p = 0.522, OR 95% CI = 1.160 [0.737–1.826]), and Lachnospiraceae (p = 0.717, OR 95% CI = 1.073 [0.732–1.574]) have no genetic causal relationship with AS. There was no heterogeneity, horizontal pleiotropy or outliers, and results were normally distributed. The MR analysis results were not driven by a single SNP. Conclusion: This study showed that Bacteroides, Streptococcus, Proteobacteria and Lachnospiraceae, four common gut microbiotas associated with AS, had no causal relationship with AS at the genetic level. This study makes a positive contribution to the genetics of AS, but the insufficient number of gut microbiota included is a limitation.

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Section: Methodsmentioning

confidence: 99%

No Evidence of a Genetic Causal Relationship between Ankylosing Spondylitis and Gut Microbiota: A Two-Sample Mendelian Randomization Study

et al. 2023

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“…If no SNP associated with PM2.5 was found in the GDM database, then proxy SNPs were searched for with a minimum LD R 2 = 0.8 [ 32 ]. Palindrome SNPs were retained based on the criterion that the MAF < 0.3 [ 33 ].…”

Section: Methodsmentioning

confidence: 99%

Causal Associations of PM2.5 and GDM: A Two-Sample Mendelian Randomization Study

Yang

Pang

et al. 2023

Toxics

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Epidemiological studies have linked particulate matter (PM2.5) to gestational diabetes mellitus (GDM). However, the causality of this association has not been established; Mendelian randomization was carried out using summary data from genome-wide association studies (GWAS). For the analysis of the causal relationship between PM2.5 and GDM, the inverse variance weighted (IVW) method was used. The exposure data came from a GWAS dataset of IEU analysis of the United Kingdom Biobank phenotypes consisting of 423,796 European participants. The FinnGen consortium provided the GDM data, which included 6033 cases and 123,000 controls. We also performed multivariate MR (MVMR), adjusting for body mass index (BMI) and smoking. As a result, we found that each standard deviation increase in PM2.5 is associated with a 73.6% increase in the risk of GDM (OR: 1.736; 95%CI: 1.226–2.457). Multivariable MR analysis showed that the effect of PM2.5 on GDM remained after accounting for BMI and smoking. Our results demonstrate a causal relationship between PM2.5 and GDM.

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“…The Weighted median analysis is an important method to estimate causal effects if more than 50% of SNPs met the “no horizontal pleiotropy” assumption ( 40 ). The simple mode is a model-based estimation method that provides robustness for pleiotropy, although it is not as powerful as IVW ( 41 ). The Weighted mode is sensitive to the difficult bandwidth selection for mode estimation ( 42 ).…”

Section: Methodsmentioning

confidence: 99%

No evidence of a genetic causal relationship between ankylosing spondylitis and iron homeostasis: A two-sample Mendelian randomization study

Yang

et al. 2023

Front. Nutr.

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BackgroundAnkylosing spondylitis (AS) is an immune-mediated chronic inflammatory disease that leads to bone hyperplasia and spinal ankylosis. Iron homeostasis plays a very important role in the inflammatory response and is closely related to the pathogenesis of AS. This study aimed to use large-scale genome-wide association study (GWAS) summary data to study the genetic causal relationship between AS and iron homeostasis using Mendelian randomization (MR).MethodsGenome-wide association study summary data of AS and iron homeostasis-related indicators were obtained from the FinnGen consortium and the DeCODE genetics database, respectively. We used four iron homeostasis-related indicators: ferritin, serum iron, total iron binding capacity (TIBC), and transferrin saturation (TSAT) for two-sample MR analyses to test for genetic causal association with AS using the “TwoSampleMR” package of the R software (version 4.1.2). The random-effects inverse variance weighted (IVW) method was the main analysis method used for MR. We examined the MR analysis results for heterogeneity, horizontal pleiotropy, and possible outliers. In addition, we confirmed the robustness of the MR analysis by testing whether the results were affected by a single SNP and whether they followed a normal distribution.ResultsThe random-effects IVW results showed that ferritin [p = 0.225, OR 95% confidence interval (CI) = 0.836 (0.627–1.116)], serum iron [p = 0.714, OR 95% CI = 0.948 (0.714–1.260)], TIBC [p = 0.380, OR 95% CI = 0.917 (0.755–1.113)], and TSAT [p = 0.674, OR 95% CI = 0.942 (0.713–1.244)] have no genetic causal relationship with AS. We detected no heterogeneity，horizontal pleiotropy and possible outliers in our MR analysis (p > 0.05). In addition, our MR analysis results were not affected by a single SNP, and were normally distributed.ConclusionOur study did not detect a genetic causal relationship between AS and iron homeostasis. Nonetheless, this does not rule out a relationship between the two at other mechanistic levels.

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A Mild Causal Relationship Between Tea Consumption and Obesity in General Population: A Two-Sample Mendelian Randomization Study

Cited by 21 publications

References 60 publications

No Evidence of a Genetic Causal Relationship between Ankylosing Spondylitis and Gut Microbiota: A Two-Sample Mendelian Randomization Study

No Evidence of a Genetic Causal Relationship between Ankylosing Spondylitis and Gut Microbiota: A Two-Sample Mendelian Randomization Study

Causal Associations of PM2.5 and GDM: A Two-Sample Mendelian Randomization Study

No evidence of a genetic causal relationship between ankylosing spondylitis and iron homeostasis: A two-sample Mendelian randomization study

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