abstract：BACKGROUND:Lower respiratory tract infection (LRTI) is a major contributor to respiratory failure requiring intubation and mechanical ventilation. LRTI also occurs during mechanical ventilation, increasing the morbidity and mortality of intubated patients. We sought to understand the dynamics of respiratory tract micro...

journal_title：Microbiome

authors： Kelly BJ,Imai I,Bittinger K,Laughlin A,Fuchs BD,Bushman FD,Collman RG

更新日期：2016-02-11 00:00:00

abstract：BACKGROUND:Fecal microbiota transplantation is an effective treatment for recurrent Clostridium difficile infection and is being investigated as a treatment for other microbiota-associated diseases. To facilitate these activities, an international public stool bank has been created, which screens donors and processes s...

journal_title：Microbiome

authors： Kazerouni A,Burgess J,Burns LJ,Wein LM

更新日期：2015-12-17 00:00:00

abstract：BACKGROUND:Aphids are known to live in symbiosis with specific bacteria, called endosymbionts which can be classified as obligate or accessory. Buchnera aphidicola is generally the only obligatory symbiont present in aphids, supplying essential nutrients that are missing in the plants phloem to its host. Pentalonia nig...

journal_title：Microbiome

authors： De Clerck C,Fujiwara A,Joncour P,Léonard S,Félix ML,Francis F,Jijakli MH,Tsuchida T,Massart S

更新日期：2015-12-15 00:00:00

abstract：BACKGROUND:The study of the microbial communities in the built environment is of critical importance as humans spend the majority of their time indoors. While the microorganisms in living spaces, especially those in the air, can impact health and well-being, little is known of their identity and the processes that dete...

journal_title：Microbiome

authors： Miletto M,Lindow SE

更新日期：2015-12-10 00:00:00

abstract：:Human microbiome reference datasets provide epidemiological context for researchers, enabling them to uncover new insights into their own data through meta-analyses. In addition, large and comprehensive reference sets offer a means to develop or test hypotheses and can pave the way for addressing practical study desig...

journal_title：Microbiome

authors： McDonald D,Birmingham A,Knight R

更新日期：2015-11-04 00:00:00

abstract：BACKGROUND:High-throughput bacterial 16S rRNA gene sequencing followed by clustering of short sequences into operational taxonomic units (OTUs) is widely used for microbiome profiling. However, clustering of short 16S rRNA gene reads into biologically meaningful OTUs is challenging, in part because nucleotide variation...

journal_title：Microbiome

authors： Franzén O,Hu J,Bao X,Itzkowitz SH,Peter I,Bashir A

更新日期：2015-10-05 00:00:00

abstract：BACKGROUND:The newborn mammal is rapidly colonized by a complex microbial community, whose importance for host health is becoming increasingly clear. Understanding the forces that shape the early community, especially during the nursing period, is critical to gain insight into how this consortium of microbes is assembl...

journal_title：Microbiome

authors： Frese SA,Parker K,Calvert CC,Mills DA

更新日期：2015-07-01 00:00:00

abstract：BACKGROUND:Characterisation of the bacterial composition of the gut microbiota is increasingly carried out with a view to establish the role of different bacterial species in causation or prevention of disease. It is thus essential that the methods used to determine the microbial composition are robust. Here, several w...

journal_title：Microbiome

authors： Walker AW,Martin JC,Scott P,Parkhill J,Flint HJ,Scott KP

更新日期：2015-06-22 00:00:00

abstract：BACKGROUND:The role of the gut microbiome in arresting pathogen colonization and growth is important for protection against Clostridium difficile infection (CDI). Observational studies associate proton pump inhibitor (PPI) use and CDI incidence. We hypothesized that PPI use affected the distal gut microbiome over time,...

journal_title：Microbiome

authors： Seto CT,Jeraldo P,Orenstein R,Chia N,DiBaise JK

更新日期：2014-11-25 00:00:00

abstract：BACKGROUND:Periodontitis is an infectious and inflammatory disease of polymicrobial etiology that can lead to the destruction of bones and tissues that support the teeth. The management of chronic periodontitis (CP) relies heavily on elimination or at least control of known pathogenic consortia associated with the dise...

journal_title：Microbiome

authors： Galimanas V,Hall MW,Singh N,Lynch MD,Goldberg M,Tenenbaum H,Cvitkovitch DG,Neufeld JD,Senadheera DB

更新日期：2014-08-26 00:00:00

abstract：BACKGROUND:Culture-independent molecular surveys targeting conserved marker genes, most notably 16S rRNA, to assess microbial diversity remain semi-quantitative due to variations in the number of gene copies between species. RESULTS:Based on 2,900 sequenced reference genomes, we show that 16S rRNA gene copy number (GC...

journal_title：Microbiome

authors： Angly FE,Dennis PG,Skarshewski A,Vanwonterghem I,Hugenholtz P,Tyson GW

更新日期：2014-04-07 00:00:00

abstract：BACKGROUND:Bacterial vaginosis (BV), the most common vaginal condition of reproductive-aged women, is associated with a highly diverse and heterogeneous microbiota. Here we present a proof-of-principle analysis to uncover the function of the microbiota using meta-RNA-seq to uncover genes and pathways that potentially d...

journal_title：Microbiome

authors： Macklaim JM,Fernandes AD,Di Bella JM,Hammond JA,Reid G,Gloor GB

更新日期：2013-04-12 00:00:00

abstract：BACKGROUND:Besides the development of comprehensive tools for high-throughput 16S ribosomal RNA amplicon sequence analysis, there exists a growing need for protocols emphasizing alternative phylogenetic markers such as those representing eukaryotic organisms. RESULTS:Here we introduce CloVR-ITS, an automated pipeline ...

journal_title：Microbiome

authors： White JR,Maddox C,White O,Angiuoli SV,Fricke WF

更新日期：2013-02-04 00:00:00

abstract：BACKGROUND:The use of culture-independent nucleic acid techniques, such as ribosomal RNA gene cloning library analysis, has unveiled the tremendous microbial diversity that exists in natural environments. In sharp contrast to this great achievement is the current difficulty in cultivating the majority of bacterial spec...

journal_title：Microbiome

authors： Gao W,Navarroli D,Naimark J,Zhang W,Chao SH,Meldrum DR

更新日期：2013-01-09 00:00:00