Longitudinal Survey of Microbiota in Hospitalized Preterm Very-Low-Birth-Weight Infants.
Longitudinal Survey of Microbiota in Hospitalized Preterm Very-Low-Birth-Weight Infants.
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DOI：
10.1097/mpg.0000000000000913
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发表时间：
2016-02
影响因子：
2.9
通讯作者：
Keshavarzian A
中科院分区：
文献类型：
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作者：
Patel AL;Mutlu EA;Sun Y;Koenig L;Green S;Jakubowicz A;Mryan J;Engen P;Fogg L;Chen AL;Pombar X;Meier PP;Keshavarzian A
目的探讨早产儿出生后1个月内住院患儿的细菌变化。每天从12名早产儿中采集直肠拭子。从出生当天和此后每周从拭子中提取DNA。在454 Roche钛平台上，使用靶向16 S rDNA的通用细菌引物，通过下一代测序鉴定细菌分类群。将序列聚类成操作分类单位（OTU），并使用Qiime 1.4对Greengenes数据库进行分类。采用定量PCR方法检测双歧杆菌的丰度。使用PICRUSt对微生物组进行功能评估。平均出生体重为1055 g，胎龄为28周。在出生当天的样本中鉴定出6-35个不同的细菌家族，与分娩方式无关。在住院期间，丰富度降低（第1周：16.9±7.7 vs.第3-5周：10.7±3.4，p<0.001）。Shannon多样性指数在出生时表现出最低的多样性，在第2周增加，然后在第3-5周快速下降，表明在NICU停留2周后形成了更均匀的微生物群组成。肠杆菌科、葡萄球菌科和肠球菌科构成细菌科的大多数。双歧杆菌属很少检测到非常低的水平。PICRUSt分析显示，在第1周样品中，过氧化物酶体、过氧化物酶体增殖物激活受体和脂肪细胞因子信号传导增强;植物-病原体相互作用;和氨基苯甲酸酯降解途径。我们的研究结果表明，虽然早产儿具有在出生时可检测到的个体化微生物群，但在新生儿重症监护病房住院期间，随着致病微生物群的日益突出，差异有所减少。
To examine the changes in bacteria in hospitalized preterm infants over the first month of life. Rectal swabs were collected daily from 12 preterm infants. DNA was extracted from swabs from day of birth and weekly thereafter. Bacterial taxa were identified with next generation sequencing using universal bacterial primers targeted at the 16S rDNA on a 454 Roche titanium platform. Sequences were clustered into operational taxonomic units (OTUs), and taxonomy was assigned against the Greengenes databank using Qiime1.4. Quantitative PCR was used to determine the abundance of Bifidobacterium spp. Functional assessment of the microbiome was performed with PICRUSt. Average birth weight and gestational age were 1055g and 28 weeks, respectively. There were 6-35 different bacterial families identified in the day of birth samples, unrelated to mode of delivery. Richness decreased over hospitalization (week 1: 16.9±7.7 vs. weeks 3-5: 10.7±3.4, p<0.001). The Shannon diversity index demonstrated lowest diversity at birth, an increase at week 2, followed by a rapid decline at weeks 3-5, suggesting development of a more uniform microbiota composition after 2 weeks of NICU stay. Enterobacteriaceae, Staphylococcaceae, and Enterococcaceae constituted the majority of the bacterial families. Bifidobacterium spp. were infrequently detected at very low levels. PICRUSt analysis revealed enhancement of peroxisome, PPAR and adipocytokine signaling; plant-pathogen interaction; and aminobenzoate degradation pathways in week 1 samples. Our results suggest that while preterm infants have individualized microbiota that are detectable at birth, the differences decrease during the neonatal intensive care unit hospitalization with increasing prominence of pathogenic microbiota.