Decade-long bacterial community dynamics in cystic fibrosis airways
Decade-long bacterial community dynamics in cystic fibrosis airways
复制标题
DOI：
10.1073/pnas.1120577109
复制
发表时间：
2012-04-10
影响因子：
11.1
通讯作者：
LiPuma, John J.
中科院分区：
文献类型：
--
作者：
Zhao, Jiangchao;Schloss, Patrick D.;LiPuma, John J.
囊性纤维化（CF）患者气道中细菌群落的结构和动力学在很大程度上仍然未知。我们对126份痰液样本中的细菌群落进行了表征，这些样本代表了来自6名年龄匹配的男性CF患者的8-9年的连续收集。通过16 S rRNA基因的V3-V5高变区的条形码焦磷酸测序分析痰液DNA，从> 633，000个序列中定义662个操作分类单位（OTU）。细菌群落多样性在典型进行性肺病患者中随时间显著降低，但在轻度肺病表型患者中保持相对稳定。抗生素的使用，而不是患者的年龄或肺功能，是减少多样性的主要驱动力。在连续样本中，社区结构的患者间变异超过了患者内变异。抗生素治疗与社区结构的明显变化有关，但社区在抗生素干扰后表现出短期和长期的弹性。OTU的出现和相对丰度之间存在正相关关系，少量持久性OTU占最大丰度。在肺部恶化时，未观察到群落结构、多样性或总细菌密度的显著变化。尽管进行性疾病患者的群落多样性降低，但总细菌密度随时间推移保持相对稳定。这些发现显示了样本采集时气道细菌群落结构、疾病阶段和临床状态之间的关键关系。这些特征是评估CF气道复杂生态学的关键参数。
The structure and dynamics of bacterial communities in the airways of persons with cystic fibrosis (CF) remain largely unknown. We characterized the bacterial communities in 126 sputum samples representing serial collections spanning 8-9 y from six age-matched male CF patients. Sputum DNA was analyzed by bar-coded pyrosequencing of the V3-V5 hypervariable region of the 16S rRNA gene, defining 662 operational taxonomic units (OTUs) from >633,000 sequences. Bacterial community diversity decreased significantly over time in patients with typically progressive lung disease but remained relatively stable in patients with a mild lung disease phenotype. Antibiotic use, rather than patient age or lung function, was the primary driver of decreasing diversity. Interpatient variability in community structure exceeded intrapatient variability in serial samples. Antibiotic treatment was associated with pronounced shifts in community structure, but communities showed both short-and long-term resilience after antibiotic perturbation. There was a positive correlation between OTU occurrence and relative abundance, with a small number of persistent OTUs accounting for the greatest abundance. Significant changes in community structure, diversity, or total bacterial density at the time of pulmonary exacerbation were not observed. Despite decreasing community diversity in patients with progressive disease, total bacterial density remained relatively stable over time. These findings show the critical relationship between airway bacterial community structure, disease stage, and clinical state at the time of sample collection. These features are the key parameters with which to assess the complex ecology of the CF airway.