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Article
Culture-enriched metagenomic sequencing enables in-depth profiling of the cystic fibrosis lung microbiota
Amplicon sequencing (for example, of the 16S rRNA gene) identifies the presence and relative abundance of microbial community members. However, metagenomic sequencing is needed to identify the genetic content ...
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Chapter
Pangenomes and Selection: The Public Goods Hypothesis
The evolution and structure of prokaryotic genomes are largely shaped by horizontal gene transfer. This process is so prevalent that DNA can be seen as a public good—a resource that is shared across individua...
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Protocol
Culture and Molecular Profiling of the Respiratory Tract Microbiota
Microbiome research of host-associated communities has been advanced recently through improvements in sequencing technologies and bioinformatic methods. Traditional microbiological culture, when combined with ...
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Article
Open AccessA comprehensive evaluation of the sl1p pipeline for 16S rRNA gene sequencing analysis
Advances in next-generation sequencing technologies have allowed for detailed, molecular-based studies of microbial communities such as the human gut, soil, and ocean waters. Sequencing of the 16S rRNA gene, s...
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Article
Open AccessThe effects of inhaled aztreonam on the cystic fibrosis lung microbiome
Aztreonam lysine for inhalation (AZLI) is an inhaled antibiotic used to treat chronic Pseudomonas aeruginosa infection in CF. AZLI improves lung function and quality of life, and reduces exacerbations-improvement...
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Article
Open AccessCapturing the diversity of the human gut microbiota through culture-enriched molecular profiling
The human gut microbiota has been implicated in most aspects of health and disease; however, most of the bacteria in this community are considered unculturable, so studies have relied on molecular-based method...
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Article
Open AccessThe evolution of the class A scavenger receptors
The class A scavenger receptors are a subclass of a diverse family of proteins defined based on their ability to bind modified lipoproteins. The 5 members of this family are strikingly variable in their protei...
