Microbiome and antibiotic resistome in household dust from Beijing, China
Microbiome and antibiotic resistome in household dust from Beijing, China
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DOI：
10.1016/j.envint.2020.105702
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发表时间：
2020-06-01
影响因子：
11.8
通讯作者：
Zhu, Yong-Guan
中科院分区：
文献类型：
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作者：
Ding, Long-Jun;Zhou, Xin-Yuan;Zhu, Yong-Guan
沿着城市化，我们在室内花费的时间越来越多;然而，微生物组和抗生素耐药组的地理分布模式及其在家庭环境中的驱动力仍然缺乏特征。在这里，我们采用Illumina测序和高通量定量PCR技术，调查了来自中国北京82个家庭的细菌和真菌群落以及沉降灰尘中的耐药基因组。粉尘相关细菌群落的相似性存在轻微但显著（P <0. 05）的距离衰减关系，但无明显的地理分布格局;而真菌群落的相似性存在较明显的地理聚集性和较强的距离衰减关系。灰尘样品的微生物组中的跨域（细菌与真菌）关系大多被观察到为稳健的共现相关性。细菌群落以变形菌门和放线菌门为主，人体皮肤、土壤和植物是潜在的主要来源。真菌群落主要包括潜在的过敏原（中位数61%的真菌序列），与链格孢属内子囊菌门是最主要的类群。粉尘相关的细菌群落的配置文件主要是由住房因素相关的居住者和室内植物，而真菌群落的地理环境因素，特别是维管植物多样性决定。此外，在粉尘样品中检测到抗生素耐药基因的多样性（Shannon指数平均为1.96）和归一化丰度（平均每个细菌细胞2.22个拷贝），其中对万古霉素和大环内酯-林可酰胺-链阳性菌素B的耐药基因占主导地位。耐药基因组谱没有表现出明显的地理模式，主要是由某些细菌门和占领相关的因素。总的来说，我们强调了人为影响和房屋位置在构建房屋内细菌和真菌群落中的重要性，并建议家庭灰尘是一个被忽视的抗生素耐药性水库。
We spend ever-increasing time indoors along with urbanization; however, the geographical distribution patterns of microbiome and antibiotic resistome, and their driving forces in household environment remains poorly characterized. Here, we surveyed the bacterial and fungal communities, and the resistome in settled dust gathered from 82 homes located across Beijing, China, employing Illumina sequencing and high-throughput quantitative PCR techniques. There was no clear geographical distribution pattern in dust-related bacterial communities although a slight but significant (P < 0.05) distance-decay relationship occurred in its community similarity; by contrast, a relatively distinct geographical clustering and a stronger distance-decay relationship were observed in fungal communities at the local scale. The cross-domain (bacteria versus fungi) relationships in the microbiome of the dust samples were mostly observed as robust co-occurrence correlations. The bacterial communities were dominated by Proteobacteria and Actinobacteria phyla, with human skin, soil and plants being potential major sources. The fungal communities largely comprised potential allergens (a median 61% of the fungal sequences), with Alternaria genus within Ascomycota phylum being the most predominant taxa. The profile of dust-related bacterial communities was mainly affected by housing factors related to occupants and houseplants, while that of fungal communities was determined by georeferenced environmental factors, particularly vascular plant diversity. Additionally, a great diversity (1.96 on average for Shannon index) and normalized abundance (2.22 copies per bacterial cell on average) of antibiotic resistance genes were detected across the dust samples, with the dominance of genes resistant to vancomycin and Macrolide-Lincosamide-Streptogramin B. The resistome profile exhibited no distinct geographical pattern, and was primarily driven by certain bacterial phyla and occupancy-related factors. Overall, we underline the significance of anthropogenic impacts and house location in structuring bacterial and fungal communities inside homes, respectively, and suggest that household dust is an overlooked reservoir for antibiotic resistance.