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Title: [Exploring the causality between intestinal flora and hyperplastic scars of human based on two-sample Mendelian randomization analysis].
Author: Chen WT, Wang XX, Zheng WL, Zhang WQ, Mao LJ, Zhuo JN, Zhou ST, Yang RH.
Journal: Zhonghua Shao Shang Yu Chuang Mian Xiu Fu Za Zhi; 2024 Apr 20; 40(4):333-341. PubMed ID: 38664027.
Abstract:
Objective: To investigate the causality between intestinal flora and hypertrophic scars (HS) of human. Methods: This study was a study based on two-sample Mendelian randomization (TSMR) analysis. The data on intestinal flora (n=18 473) and HS (n=208 248) of human were obtained from the genome-wide association study database. Genetically variable genes at five levels (phylum, class, order, family, and genus) of known intestinal flora, i.e., single nucleotide polymorphisms (SNPs), were extracted as instrumental variables for linkage disequilibrium (LD) analysis. Human genotype-phenotype association analysis was performed using PhenoScanner V2 database to exclude SNPs unrelated to HS in intestinal flora and analyze whether the selected SNPs were weak instrumental variables. The causal relationship between intestinal flora SNPs and HS was analyzed through four methods of TSMR analysis, namely inverse variance weighted (IVW), MR-Egger regression, weighted median, and weighted mode. Scatter plots of significant results from the four aforementioned analysis methods were plotted to analyze the correlation between intestinal flora SNPs and HS. Both IVW test and MR-Egger regression test were used to assess the heterogeneity of intestinal flora SNPs, MR-Egger regression test and MR-PRESSO outlier test were used to assess the horizontal multiplicity of intestinal flora SNPs, and leave-one-out sensitivity analysis was used to determine whether HS was caused by a single SNP in the intestinal flora. Reverse TSMR analyses were performed for HS SNPs and genus Intestinimonas or genus Ruminococcus2, respectively, to detect whether there was reverse causality between them. Results: A total of 196 known intestinal flora, belonging to 9 phyla, 16 classes, 20 orders, 32 families, and 119 genera, were obtained, and multiple SNPs were obtained from each flora as instrumental variables. LD analysis showed that the SNPs of the intestinal flora were consistent with the hypothesis that genetic variation was strongly associated with exposure factors, except for rs1000888, rs12566247, and rs994794. Human genotype-phenotype association analysis showed that none of the selected SNPs after LD analysis was excluded and there were no weak instrumental variables. IVW, MR-Egger regression, weighted median, and weighted mode of TSMR analysis showed that both genus Intestinimonas and genus Ruminococcus2 were causally associated with HS. Among them, forest plots of IVW and MR-Egger regression analyses also showed that 16 SNPs (the same SNPs number of this genus below) of genus Intestinimonas and 15 SNPs (the same SNPs number of this genus below) of genus Ruminococcus2 were protective factors for HS. Further, IVW analysis showed that genus Intestinimonas SNPs (with odds ratio of 0.62, 95% confidence interval of 0.41-0.93, P<0.05) and genus Ruminococcus2 SNPs (with odds ratio of 0.62, 95% confidence interval of 0.40-0.97, P<0.05) were negatively correlated with the risk of HS. Scatter plots showed that SNPs of genus Intestinimonas and genus Ruminococcus2 were protective factors of HS. Both IVW test and MR-Egger regression test showed that SNPs of genus Intestinimonas (with Q values of 5.73 and 5.76, respectively, P>0.05) and genus Ruminococcus2 (with Q values of 13.67 and 15.61, respectively, P>0.05) were not heterogeneous. MR-Egger regression test showed that the SNPs of genus Intestinimonas and genus Ruminococcus2 had no horizontal multiplicity (with intercepts of 0.01 and 0.06, respectively, P>0.05); MR-PRESSO outlier test showed that the SNPs of genus Intestinimonas and genus Ruminococcus2 had no horizontal multiplicity (P>0.05). Leave-one-out sensitivity analysis showed that no single intestinal flora SNP drove the occurrence of HS. Reverse TSMR analysis showed no reverse causality between HS SNPs and genus Intestinimonas or genus Ruminococcus2 (with odds ratios of 1.01 and 0.99, respectively, 95% confidence intervals of 0.97-1.06 and 0.96-1.04, respectively, P>0.05). Conclusions: There is a causal relationship between intestinal flora and HS of human, in which genus Intestinimonas and genus Ruminococcus2 have a certain effect on inhibiting HS. 目的： 探究人肠道菌群与增生性瘢痕（HS）之间的因果关系。 方法： 该研究为基于双样本孟德尔随机化（TSMR）分析的研究。从全基因组关联分析数据库获得人肠道菌群（18 473个样本）和HS（208 248个样本）的数据。提取已知肠道菌群门、纲、目、科和属5个水平的遗传变异基因，即单核苷酸多态性（SNP）作为工具变量，并进行连锁不平衡（LD）分析。使用PhenoScanner V2数据库进行人类基因型-表型关联分析，排除与HS不相关的肠道菌群SNP并分析获得的SNP是否为弱工具变量。采用TSMR分析的4种方法，即逆方差加权（IVW）、MR-Egger回归、加权中位数和加权模式，对肠道菌群SNP与HS之间的因果关系进行分析。绘制前述4种分析方法得出重要结果的散布图，分析肠道菌群SNP与HS的相关性。采用IVW检验和MR-Egger回归检验评估肠道菌群SNP的异质性，采用MR-Egger回归检验和MR-PRESSO离群值检验评估肠道菌群SNP的水平多效性，采用留一敏感性分析确定HS是否由肠道菌群中的单个SNP引起。对HS SNP与肠杆菌属或HS SNP与瘤胃球菌2属分别进行逆向TSMR分析，检测它们之间是否存在反向因果关系。 结果： 共获得196个已知肠道菌群，属于9门、16纲、20目、32科、119属，从每个菌群中均获得多个SNP作为工具变量。LD分析显示，除rs1000888、rs12566247、rs994794外，其余肠道菌群SNP均符合遗传变异与暴露因素密切相关的假设。人类基因型-表型关联分析显示，经LD分析后获得的SNP均未被排除且均不是弱工具变量。IVW、MR-Egger回归、加权中位数和加权模式的TSMR分析显示，肠杆菌属及瘤胃球菌2属均与HS存在因果关系。其中，IVW和MR-Egger回归的森林图分析还显示，肠杆菌属的16个SNP（该菌属SNP个数下同）和瘤胃球菌2属的15个SNP（该菌属SNP个数下同）均为HS的保护因素。进一步地，IVW分析显示肠杆菌属SNP（比值比为0.62，95%置信区间为0.41~0.93，P<0.05）和瘤胃球菌2属SNP（比值比为0.62，95%置信区间为0.40~0.97，P<0.05）均与HS发生风险呈负相关。散布图显示，肠杆菌属和瘤胃球菌2属的SNP均是HS的保护因素。IVW检验和MR-Egger回归检验均显示，肠杆菌属SNP（Q值分别为5.73、5.76，P>0.05）和瘤胃球菌2属SNP（Q值分别为13.67、15.61，P>0.05）均无异质性。MR-Egger回归检验显示，肠杆菌属和瘤胃球菌2属的SNP均无水平多效性（截距分别为0.01、0.06，P>0.05）；MR-PRESSO离群值检验显示，肠杆菌属和瘤胃球菌2属的SNP均无水平多效性（P>0.05）。留一敏感性分析显示，无单个肠道菌群SNP驱动HS的发生。逆向TSMR分析显示，HS SNP与肠杆菌属之间、HS SNP与瘤胃球菌2属之间均不存在任何反向因果关系（比值比分别为1.01、0.99，95%置信区间分别为0.97~1.06、0.96~1.04，P>0.05）。 结论： 人肠道菌群与HS之间存在一定因果关系，肠杆菌属及瘤胃球菌2属对抑制HS有一定作用。.

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