Oh Seungdae, Yap Gaik Chin, Hong Pei-Ying, Huang Chiung-Hui, Aw Marion M, Shek Lynette Pei-Chi, Liu Wen-Tso, Lee Bee Wah
Department of Civil Engineering, Kyung Hee University, Yongin-si, Gyeonggi-do, Republic of Korea.
Department of Civil and Environmental Engineering, University of Illinois at Urbana-Champaign, Urbana, IL, United States of America.
PLoS One. 2017 Oct 19;12(10):e0184955. doi: 10.1371/journal.pone.0184955. eCollection 2017.
Gut microbiota play an important role in human immunological processes, potentially affecting allergic diseases such as eczema. The diversity and structure of gut microbiota in infants with eczema have been previously documented. This study aims to evaluate by comparative metagenomics differences in genetic content in gut microbiota of infants with eczema and their matched controls. Stools were collected at the age of one month old from twelve infants from an at risk birth cohort in a case control manner. Clinical follow up for atopic outcomes were carried out at the age of 12 and 24 months. Microbial genomic DNA were extracted from stool samples and used for shotgun sequencing. Comparative metagenomic analysis showed that immune-regulatory TCAAGCTTGA motifs were significantly enriched in the six healthy controls (C) communities compared to the six eczema subjects (E), with many encoded by Bifidobacterium (38% of the total motifs in the C communities). Draft genomes of five Bifidobacterium species populations (B. longum, B. bifidum, B. breve, B. dentium, and B. pseudocatenulatum) were recovered from metagenomic datasets. The B. longum BFN-121-2 genome encoded more TCAAGCTTGA motifs (4.2 copies per one million genome sequence) than other Bifidobacterium genomes. Additionally, the communities in the stool of controls (C) were also significantly enriched in functions associated with tetrapyrrole biosynthesis compared to those of eczema (E). Our results show distinct immune-modulatory genomic properties of gut microbiota in infants associated with eczema and provide new insights into potential role of gut microbiota in affecting human immune homeostasis.
肠道微生物群在人类免疫过程中发挥着重要作用，可能会影响湿疹等过敏性疾病。先前已有文献记录了湿疹婴儿肠道微生物群的多样性和结构。本研究旨在通过比较宏基因组学评估湿疹婴儿及其匹配对照的肠道微生物群遗传内容的差异。以病例对照的方式，从一个高危出生队列中的12名婴儿1月龄时采集粪便。在12个月和24个月时对特应性结局进行临床随访。从粪便样本中提取微生物基因组DNA并用于鸟枪法测序。比较宏基因组分析表明，与6名湿疹受试者（E）相比，免疫调节基序TCAAGCTTGA在6名健康对照（C）群落中显著富集，其中许多由双歧杆菌编码（在C群落中占总基序的38%）。从宏基因组数据集中获得了5个双歧杆菌种群（长双歧杆菌、两歧双歧杆菌、短双歧杆菌、龋齿双歧杆菌和假链状双歧杆菌）的基因组草图。长双歧杆菌BFN-121-2基因组编码的TCAAGCTTGA基序（每百万基因组序列4.2个拷贝）比其他双歧杆菌基因组更多。此外，与湿疹（E）相比，对照（C）粪便中的群落中与四吡咯生物合成相关的功能也显著富集。我们的结果显示了与湿疹相关的婴儿肠道微生物群独特的免疫调节基因组特性，并为肠道微生物群在影响人类免疫稳态中的潜在作用提供了新的见解。
