Meta-analysis reveals the vaginal microbiome is a better predictor of earlier than later preterm birth.
Meta-analysis reveals the vaginal microbiome is a better predictor of earlier than later preterm birth.
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荟萃分析显示，阴道微生物组对早产发生时间的预测，在预测早产较早发生方面比预测较晚发生更为有效。
DOI：
10.1186/s12915-023-01702-2
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发表时间：
2023-09-25
期刊：
影响因子：
5.4
通讯作者：
Callahan, Benjamin
中科院分区：
文献类型：
--
作者：
Huang, Caizhi;Gin, Craig;Fettweis, Jennifer;Foxman, Betsy;Gelaye, Bizu;MacIntyre, David A.;Subramaniam, Akila;Fraser, William;Tabatabaei, Negar;Callahan, Benjamin
对阴道微生物组的高通量测序测量发现了阴道微生物组与早产(PTB；妊娠37周前的活产)之间有趣的潜在关系。然而，各项研究的结果并不一致。在这里，我们对之前发表的12组孕妇的数据集进行了综合分析，这些孕妇的阴道微生物群是通过16S rRNA基因测序来测量的。在我们分析的2039名女性中，有586名继续早产。这些数据集在对早产的定义、研究人群的特征和测序方法方面存在很大差异。然而，在所有队列中，一小部分分类群构成了所测量的微生物群的绝大多数。我们训练机器学习(ML)模型，根据阴道微生物群的组成预测肺结核，发现预测精度较低至中等(0.28-0.79)。当在一个数据集中训练的ML模型预测另一个数据集中的PTB时，预测精度通常较低。无论是在数据集内还是在数据集之间，从阴道微生物组来看，早产(32周，34周)比早产晚(34-37周)更容易预测。综合差异丰度分析显示，皱纹夜蛾和结核杆菌之间存在高度显著的负相关，这在几乎所有的研究中都是一致的。大多数属(25个属中的18个)的存在与肺结核的风险较高有关，其中L.iners、Prevoella和Gardnerella显示出特别一致和显著的相关性。一些研究之间的实例差异可以归因于特定的方法差异，但不是大多数研究之间的差异，在阴道微生物群和早产之间的关系。我们相信，未来对阴道微生物组和肺结核的研究将受益于对早期早产的关注，以及对特定患者元数据的改进报告，这些数据被证明会影响阴道微生物组和/或出生结果。网上版载有补充材料，可在10.1186/s12915-023-01702-2查阅。
High-throughput sequencing measurements of the vaginal microbiome have yielded intriguing potential relationships between the vaginal microbiome and preterm birth (PTB; live birth prior to 37 weeks of gestation). However, results across studies have been inconsistent. Here, we perform an integrated analysis of previously published datasets from 12 cohorts of pregnant women whose vaginal microbiomes were measured by 16S rRNA gene sequencing. Of 2039 women included in our analysis, 586 went on to deliver prematurely. Substantial variation between these datasets existed in their definition of preterm birth, characteristics of the study populations, and sequencing methodology. Nevertheless, a small group of taxa comprised a vast majority of the measured microbiome in all cohorts. We trained machine learning (ML) models to predict PTB from the composition of the vaginal microbiome, finding low to modest predictive accuracy (0.28–0.79). Predictive accuracy was typically lower when ML models trained in one dataset predicted PTB in another dataset. Earlier preterm birth (< 32 weeks, < 34 weeks) was more predictable from the vaginal microbiome than late preterm birth (34–37 weeks), both within and across datasets. Integrated differential abundance analysis revealed a highly significant negative association between L. crispatus and PTB that was consistent across almost all studies. The presence of the majority (18 out of 25) of genera was associated with a higher risk of PTB, with L. iners, Prevotella, and Gardnerella showing particularly consistent and significant associations. Some example discrepancies between studies could be attributed to specific methodological differences but not most study-to-study variations in the relationship between the vaginal microbiome and preterm birth. We believe future studies of the vaginal microbiome and PTB will benefit from a focus on earlier preterm births and improved reporting of specific patient metadata shown to influence the vaginal microbiome and/or birth outcomes. The online version contains supplementary material available at 10.1186/s12915-023-01702-2.
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影响因子：
9.3
作者：
Brown RG;Marchesi JR;Lee YS;Smith A;Lehne B;Kindinger LM;Terzidou V;Holmes E;Nicholson JK;Bennett PR;MacIntyre DA
通讯作者：
MacIntyre DA
影响因子：
28.3
作者：
France M;Alizadeh M;Brown S;Ma B;Ravel J
通讯作者：
Ravel J
影响因子：
16.6
作者：
Chan D;Bennett PR;Lee YS;Kundu S;Teoh TG;Adan M;Ahmed S;Brown RG;David AL;Lewis HV;Gimeno-Molina B;Norman JE;Stock SJ;Terzidou V;Kropf P;Botto M;MacIntyre DA;Sykes L
通讯作者：
Sykes L
影响因子：
48
作者：
Callahan BJ;McMurdie PJ;Rosen MJ;Han AW;Johnson AJ;Holmes SP
通讯作者：
Holmes SP
DOI：
10.1073/pnas.1502875112
发表时间：
2015-09-01
影响因子：
11.1
作者：
DiGiulio, Daniel B.;Callahan, Benjamin J.;Relman, David A.
通讯作者：
Relman, David A.