An integrated meta-omics approach reveals substrates involved in synergistic interactions in a bisphenol A (BPA)-degrading microbial community.

abstract：BACKGROUND:Fecal microbiota transplantation (FMT) is an effective treatment for recurrent Clostridium difficile infection and shows promise for treating other medical conditions associated with intestinal dysbioses. However, we lack a sufficient understanding of which microbial populations successfully colonize the rec...

journal_title：Microbiome

authors： Lee STM,Kahn SA,Delmont TO,Shaiber A,Esen ÖC,Hubert NA,Morrison HG,Antonopoulos DA,Rubin DT,Eren AM

更新日期：2017-05-04 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:Taxonomic profiles of vaginal microbial communities can be sorted into a discrete number of categories termed community state types (CSTs). This approach is advantageous because collapsing a hyper-dimensional taxonomic profile into a single categorical variable enables efforts such as data exploration, epide...

journal_title：Microbiome

authors： France MT,Ma B,Gajer P,Brown S,Humphrys MS,Holm JB,Waetjen LE,Brotman RM,Ravel J

更新日期：2020-11-23 00:00:00

abstract：BACKGROUND:The vaginal microbiome is an important site of bacterial-mammalian symbiosis. This symbiosis is currently best characterized for humans, where lactobacilli dominate the microbial community and may help defend women against infectious disease. However, lactobacilli do not dominate the vaginal microbiota of an...

journal_title：Microbiome

authors： Miller EA,Livermore JA,Alberts SC,Tung J,Archie EA

更新日期：2017-01-19 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: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：:Following publication of the original article [1], the authors reported an error in Figure 1 and a text on page 13. In Figure 1, some areas are missing and the correct figure is presented here. On page 13, the sentence should be updated to the following (change has been indicated in bold italics). ...

journal_title：Microbiome

authors： Chen W,Ren K,Isabwe A,Chen H,Liu M,Yang J

更新日期：2019-11-14 00:00:00

abstract：BACKGROUND:The development of the rumen is an important physiological challenge for young ruminants. Previous studies have shown that starter feeding can effectively facilitate the growth and development of the rumen in ruminants. However, the mechanism through which starter feeding stimulates the development of the ru...

journal_title：Microbiome

authors： Lin L,Xie F,Sun D,Liu J,Zhu W,Mao S

更新日期：2019-06-03 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:Soil microorganisms can mediate the occurrence of plant diseases. Potato common scab (CS) is a refractory disease caused by pathogenic Streptomyces that occurs worldwide, but little is known about the interactions between CS and the soil microbiome. In this study, four soil-root system compartments (geocaulo...

journal_title：Microbiome

authors： Shi W,Li M,Wei G,Tian R,Li C,Wang B,Lin R,Shi C,Chi X,Zhou B,Gao Z

更新日期：2019-02-01 00:00:00

abstract：BACKGROUND:Microorganisms comprise the majority of living organisms on our planet. For many years, exploration of the composition of microbial communities has been performed through the PCR-based study of the small subunit rRNA gene due to its high conservation across the domains of life. The application of this method...

journal_title：Microbiome

authors： Gasc C,Peyret P

更新日期：2018-03-27 00:00:00

abstract：BACKGROUND:Campylobacter jejuni is the leading antecedent infection to the autoimmune neuropathy Guillain-Barré syndrome (GBS), which is accompanied by an autoimmune anti-ganglioside antibody attack on peripheral nerves. Previously, we showed that contrasting immune responses mediate C. jejuni induced colitis and autoi...

journal_title：Microbiome

authors： Brooks PT,Brakel KA,Bell JA,Bejcek CE,Gilpin T,Brudvig JM,Mansfield LS

更新日期：2017-08-08 00:00:00

abstract：BACKGROUND:Natural gas contains methane and the gaseous alkanes ethane, propane and butane, which collectively influence atmospheric chemistry and cause global warming. Methane-oxidising bacteria, methanotrophs, are crucial in mitigating emissions of methane as they oxidise most of the methane produced in soils and the...

journal_title：Microbiome

authors： Farhan Ul Haque M,Crombie AT,Ensminger SA,Baciu C,Murrell JC

更新日期：2018-06-28 00:00:00

abstract：BACKGROUND:Several biotic and abiotic factors have been reported to influence the proliferation of microbes, including Legionella pneumophila, in hot water premise plumbing systems, but their combined effects have not been systematically evaluated. Here, we utilize simulated household water heaters to examine the effec...

journal_title：Microbiome

authors： Proctor CR,Dai D,Edwards MA,Pruden A

更新日期：2017-10-04 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:Deep-sea hydrothermal vents are hotspots for productivity and biodiversity. Thermal pyrolysis and circulation produce fluids rich in hydrocarbons and reduced compounds that stimulate microbial activity in surrounding sediments. Several studies have characterized the diversity of Guaymas Basin (Gulf of Califo...

journal_title：Microbiome

authors： Dombrowski N,Seitz KW,Teske AP,Baker BJ

更新日期：2017-08-23 00:00:00

abstract：BACKGROUND:Enteric fermentation by farmed ruminant animals is a major source of methane and constitutes the second largest anthropogenic contributor to global warming. Reducing methane emissions from ruminants is needed to ensure sustainable animal production in the future. Methane yield varies naturally in sheep and i...

journal_title：Microbiome

authors： Kamke J,Kittelmann S,Soni P,Li Y,Tavendale M,Ganesh S,Janssen PH,Shi W,Froula J,Rubin EM,Attwood GT

更新日期：2016-10-19 00:00:00

abstract：:Chronic inflammation represents one of the most consistent biologic features of aging. However, the precise etiology of persistent low-grade increases in inflammation remains unclear. Recent evidence suggests that the gut microbiome may play a key role in age-related inflammation. Indeed, several studies have indicate...

journal_title：Microbiome

authors： Buford TW

更新日期：2017-07-14 00:00:00

abstract：BACKGROUND:The interplay between hosts and their associated microbiome is now recognized as a fundamental basis of the ecology, evolution, and development of both players. These interdependencies inspired a new view of multicellular organisms as "metaorganisms." The goal of the Collaborative Research Center "Origin and...

journal_title：Microbiome

authors： Rausch P,Rühlemann M,Hermes BM,Doms S,Dagan T,Dierking K,Domin H,Fraune S,von Frieling J,Hentschel U,Heinsen FA,Höppner M,Jahn MT,Jaspers C,Kissoyan KAB,Langfeldt D,Rehman A,Reusch TBH,Roeder T,Schmitz RA,Schulenb

更新日期：2019-09-14 00:00:00

abstract：BACKGROUND:The interconnectivities of built and natural environments can serve as conduits for the proliferation and dissemination of antibiotic resistance genes (ARGs). Several studies have compared the broad spectrum of ARGs (i.e., "resistomes") in various environmental compartments, but there is a need to identify u...

journal_title：Microbiome

authors： Gupta S,Arango-Argoty G,Zhang L,Pruden A,Vikesland P

更新日期：2019-08-29 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:The nasopharynx is a reservoir for pathogens associated with respiratory illnesses, such as asthma. Next-generation sequencing (NGS) has been used to characterize the nasopharyngeal microbiome during health and disease. Most studies so far have surveyed the nasopharynx as a whole; however, less is known abou...

journal_title：Microbiome

authors： Pérez-Losada M,Crandall KA,Freishtat RJ

更新日期：2016-06-16 00:00:00

abstract：BACKGROUND:Holobionts have a digestive microbiota with catabolic abilities allowing the degradation of complex dietary compounds for the host. In terrestrial herbivores, the digestive microbiota is known to degrade complex polysaccharides from land plants while in marine herbivores, the digestive microbiota is poorly c...

journal_title：Microbiome

authors： Gobet A,Mest L,Perennou M,Dittami SM,Caralp C,Coulombet C,Huchette S,Roussel S,Michel G,Leblanc C

更新日期：2018-03-27 00:00:00

abstract：BACKGROUND:In microbiome studies, it is important to detect taxa which are associated with pathological outcomes at the lowest definable taxonomic rank, such as genus or species. Traditionally, taxa at the target rank are tested for individual association, followed by the Benjamini-Hochberg (BH) procedure to control fo...

journal_title：Microbiome

authors： Hu J,Koh H,He L,Liu M,Blaser MJ,Li H

更新日期：2018-07-25 00:00:00

abstract：BACKGROUND:Natural gas seeps contribute to global climate change by releasing substantial amounts of the potent greenhouse gas methane and other climate-active gases including ethane and propane to the atmosphere. However, methanotrophs, bacteria capable of utilising methane as the sole source of carbon and energy, pla...

journal_title：Microbiome

authors： Farhan Ul Haque M,Crombie AT,Murrell JC

更新日期：2019-10-04 00:00:00

abstract：BACKGROUND:This proof-of-principle study examines whether postnatal, low-dose exposure to environmental chemicals modifies the composition of gut microbiome. Three chemicals that are widely used in personal care products-diethyl phthalate (DEP), methylparaben (MPB), triclosan (TCS)-and their mixture (MIX) were administ...

journal_title：Microbiome

authors： Hu J,Raikhel V,Gopalakrishnan K,Fernandez-Hernandez H,Lambertini L,Manservisi F,Falcioni L,Bua L,Belpoggi F,L Teitelbaum S,Chen J

更新日期：2016-06-14 00:00:00

abstract：BACKGROUND:Sub-therapeutic antibiotics are widely used as growth promoters in the poultry industry; however, the resulting antibiotic resistance threatens public health. A plant-derived growth promoter, Macleaya cordata extract (MCE), with effective ingredients of benzylisoquinoline alkaloids, is a potential alternativ...

journal_title：Microbiome

authors： Huang P,Zhang Y,Xiao K,Jiang F,Wang H,Tang D,Liu D,Liu B,Liu Y,He X,Liu H,Liu X,Qing Z,Liu C,Huang J,Ren Y,Yun L,Yin L,Lin Q,Zeng C,Su X,Yuan J,Lin L,Hu N,Cao H,Huang S,Guo Y,Fan W,Zeng J

更新日期：2018-11-27 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:Early disruption of the microbial community may influence life-long health. Environmental toxicants can contaminate breast milk and the developing infant gut microbiome is directly exposed. We investigated whether environmental toxicants in breastmilk affect the composition and function of the infant gut mic...

journal_title：Microbiome

authors： Iszatt N,Janssen S,Lenters V,Dahl C,Stigum H,Knight R,Mandal S,Peddada S,González A,Midtvedt T,Eggesbø M

更新日期：2019-02-27 00:00:00

abstract：BACKGROUND:Our view of host-associated microbiota remains incomplete due to the presence of as yet uncultured constituents. The Bacteroidales family S24-7 is a prominent example of one of these groups. Marker gene surveys indicate that members of this family are highly localized to the gastrointestinal tracts of homeot...

journal_title：Microbiome

authors： Ormerod KL,Wood DL,Lachner N,Gellatly SL,Daly JN,Parsons JD,Dal'Molin CG,Palfreyman RW,Nielsen LK,Cooper MA,Morrison M,Hansbro PM,Hugenholtz P

更新日期：2016-07-07 00:00:00