Comparative Community Genomics of the Gut Microbiota

肠道微生物群的比较群落基因组学

• 批准号: 7208064
• 负责人: MARIA Pilar FRANCINO
• 金额: $ 24.42万
• 依托单位: UNIVERSITY OF CALIF-LAWRENC BERKELEY LAB
• 依托单位国家: 美国
• 财政年份: 2004
• 资助国家: 美国
• 起止时间: 2004-07-01 至 2009-02-28
• 项目状态: 已结题
• 来源: https://reporter.nih.gov/project-details/7208064
• 关键词: Adult; Age; Antibiotic Resistance; Antibiotics; Appearance; Bacteria; Bacterial Artificial Chromosomes; Bacterial Chromosomes; Benign; Breast Feeding; Cell Adhesion; Cell Communication; Cells; Child; Code; Communicable Diseases; Communities; Complex; DNA; Depth; Development; Diet; Ecology; Event; Evolution; Gastrointestinal tract structure; Gene Exchanges; Gene Targeting; Genes; Genome; Genomic Library; Genomics; Goals; Hand; Health; Horizontal Disease Transmission; Human; Immune system; Infant; Libraries; Microbe; Molecular; Mothers; Mus; Numbers; Pathogenicity; Phylogenetic Analysis; Phylogeny; Play; Positioning Attribute; Process; Production; Proteins; Recombinant DNA; Research Personnel; Ribosomal DNA; Role; Sampling; Staging; System; Techniques; Toxin; base; comparative; gastrointestinal; gastrointestinal bacteria; insight; member; microbial community; pathogen; pup

DESCRIPTION (provided by applicant): The global aim of this project is to increase our understanding of the diverse microbial community that inhabits the human gastrointestinal (GI) tract. This microbiota plays essential roles in human health, including a significant contribution to the digestive process, promotion of gut maturation and integrity and modulation of the immune system. Moreover, the microbiota interacts with pathogenic agents in several complex ways. On one hand, resident bacteria exert a protective barrier effect against enteropathogens; but, on the other, they could contribute to enrich the arsenal of incoming pathogens through horizontal transmission of genes involved in host-microbe interaction or antibiotic resistance. In addition, many normally benign GI commensals have the potential to become opportunistic pathogens in compromised hosts. Elucidating the composition and coding capabilities of the GI microbiota is therefore crucial for a comprehensive analysis of infectious disease. To advance towards this goal, we will produce large-insert bacterial artificial chromosome (BAC) libraries from genomic DNA isolated directly from fecal samples. The availability of BAC libraries will allow for a deep characterization of the GI microbiota by providing extensive genomic sequences that will serve to elucidate the coding capabilities as well as the phylogenetic positions of the members of this community. Given that the composition of the GI microbiota varies greatly with age and diet, we have chosen to generate BAC libraries from two very distinct stages of microbiota development: adults and breast-feeding infants, as represented by mother and child. Because of the widespread use of mice as an experimental system to study both infectious diseases in general and the GI microbiota in particular, we will also generate BAC libraries for mouse mother and suckling pup. To maximize our insight into the evolution and ecology of infectious disease, we will focus our sequencing efforts towards genomic regions relevant to pathogenicity and other ecological interactions, both among the microbial community members and between microbes and host.

描述(由申请人提供)： 这个项目的全球目标是增加我们对人类胃肠道(GI)中不同微生物群落的了解。这种微生物群在人类健康中发挥着重要作用，包括对消化过程、促进肠道成熟和完整性以及调节免疫系统做出重大贡献。此外，微生物区系以几种复杂的方式与病原体相互作用。一方面，驻留细菌对肠道病原体起到保护屏障作用；但另一方面，它们可以通过水平传播参与宿主-微生物相互作用或抗生素耐药性的基因来丰富传入病原体的武器库。此外，许多正常情况下良性的胃肠道共生体有可能成为受损宿主中的机会性病原体。因此，阐明胃肠道微生物区系的组成和编码能力对于全面分析传染病至关重要。 为了推进这一目标，我们将从直接从粪便样本中提取的基因组DNA中构建大插入细菌人工染色体(BAC)文库。BAC文库的可用将通过提供广泛的基因组序列来深入描述GI微生物区系，这些基因组序列将有助于阐明该群落成员的编码能力和系统发育位置。鉴于GI微生物区系的组成随年龄和饮食的不同而有很大差异，我们选择从微生物区系发育的两个非常不同的阶段生成BAC文库：成人和母乳喂养的婴儿，以母亲和孩子为代表。由于广泛使用小鼠作为实验系统来研究一般传染病和特别是胃肠道微生物区系，我们还将为小鼠母亲和哺乳幼崽建立BAC文库。为了最大限度地了解传染病的进化和生态学，我们将把测序工作的重点放在与致病性和其他生态相互作用相关的基因组区域，包括微生物群落成员之间以及微生物和宿主之间。

项目成果

Metagenomics and development of the gut microbiota in infants.

婴儿肠道微生物群的宏基因组学和发育。

• DOI: 10.1111/j.1469-0691.2012.03876.x
• 发表时间: 2012
• 期刊: Clinical microbiology and infection : the official publication of the European Society of Clinical Microbiology and Infectious Diseases
• 作者: Valles,Y;Gosalbes,MJ;deVries,LE;Abellan,JJ;Francino,MP
• 通讯作者: Francino,MP

The gut as reservoir of antibiotic resistance: microbial diversity of tetracycline resistance in mother and infant.

• DOI: 10.1371/journal.pone.0021644
• 发表时间: 2011
• 期刊: PloS one
• 影响因子: 3.7
• 作者: de Vries LE;Vallès Y;Agersø Y;Vaishampayan PA;García-Montaner A;Kuehl JV;Christensen H;Barlow M;Francino MP
• 通讯作者: Francino MP