Culture enriched molecular profiling of the cystic fibrosis airway microbiome
| Autor: | Margot E. Grinwis, Michael D. Parkins, Monica Martins Pereira Faria, Scot E. Dowd, Christopher D. Sibley, Christina S. Eshaghurshan, Tyler R. Field, Michael G. Surette, Harvey R. Rabin |
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| Jazyk: | angličtina |
| Rok vydání: | 2011 |
| Předmět: |
Bacterial Diseases
Cystic Fibrosis Pulmonology Respiratory System lcsh:Medicine Biology medicine.disease_cause Microbiology Deep sequencing Microbial Ecology 03 medical and health sciences Autosomal Recessive RNA Ribosomal 16S Genetics medicine DNA Barcoding Taxonomic Humans Microbiome lcsh:Science 030304 developmental biology Clinical Genetics 0303 health sciences Multidisciplinary Bacteria 030306 microbiology Pseudomonas aeruginosa lcsh:R Sputum Bacterial taxonomy Obligate anaerobe Human Genetics Bacteriology Genomics Bacteria Present Bacterial Pathogens Lower Respiratory Tract Infections Infectious Diseases Medical Microbiology Respiratory Infections Metagenome Medicine lcsh:Q Metagenomics Anaerobic bacteria Restriction fragment length polymorphism Polymorphism Restriction Fragment Length Research Article |
| Zdroj: | PLoS ONE, Vol 6, Iss 7, p e22702 (2011) PLoS ONE |
| ISSN: | 1932-6203 |
| Popis: | The microbiome of the respiratory tract, including the nasopharyngeal and oropharyngeal microbiota, is a dynamic community of microorganisms that is highly diverse. The cystic fibrosis (CF) airway microbiome refers to the polymicrobial communities present in the lower airways of CF patients. It is comprised of chronic opportunistic pathogens (such as Pseudomonas aeruginosa) and a variety of organisms derived mostly from the normal microbiota of the upper respiratory tract. The complexity of these communities has been inferred primarily from culture independent molecular profiling. As with most microbial communities it is generally assumed that most of the organisms present are not readily cultured. Our culture collection generated using more extensive cultivation approaches, reveals a more complex microbial community than that obtained by conventional CF culture methods. To directly evaluate the cultivability of the airway microbiome, we examined six samples in depth using culture-enriched molecular profiling which combines culture-based methods with the molecular profiling methods of terminal restriction fragment length polymorphisms and 16S rRNA gene sequencing. We demonstrate that combining culture-dependent and culture-independent approaches enhances the sensitivity of either approach alone. Our techniques were able to cultivate 43 of the 48 families detected by deep sequencing; the five families recovered solely by culture-independent approaches were all present at very low abundance ( |
| Databáze: | OpenAIRE |
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