Multi-cohort analysis of colorectal cancer metagenome identified altered bacteria across populations and universal bacterial markers.

abstract：BACKGROUND:Metallo-β-lactamases are bacterial enzymes that provide resistance to carbapenems, the most potent class of antibiotics. These enzymes are commonly encoded on mobile genetic elements, which, together with their broad substrate spectrum and lack of clinically useful inhibitors, make them a particularly proble...

journal_title：Microbiome

authors： Berglund F,Marathe NP,Österlund T,Bengtsson-Palme J,Kotsakis S,Flach CF,Larsson DGJ,Kristiansson E

更新日期：2017-10-12 00:00:00

abstract：BACKGROUND:The ecological consequences of mercury (Hg) pollution-one of the major pollutants worldwide-on microbial taxonomic and functional attributes remain poorly understood and largely unexplored. Using soils from two typical Hg-impacted regions across China, here, we evaluated the role of Hg pollution in regulatin...

journal_title：Microbiome

authors： Liu YR,Delgado-Baquerizo M,Bi L,Zhu J,He JZ

更新日期：2018-10-18 00:00:00

abstract：BACKGROUND:Clostridium difficile infection (CDI) is the leading infectious cause of nosocomial diarrhea. Hospitalized patients are at increased risk of developing CDI because they are exposed to C. difficile spores through contact with the hospital environment and often receive antibiotics and other medications that ca...

journal_title：Microbiome

authors： Vincent C,Miller MA,Edens TJ,Mehrotra S,Dewar K,Manges AR

更新日期：2016-03-14 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:The photic zone of aquatic habitats is subjected to strong physicochemical gradients. To analyze the fine-scale variations in the marine microbiome, we collected seven samples from a single offshore location in the Mediterranean at 15 m depth intervals during a period of strong stratification, as well as two...

journal_title：Microbiome

authors： Haro-Moreno JM,López-Pérez M,de la Torre JR,Picazo A,Camacho A,Rodriguez-Valera F

更新日期：2018-07-10 00:00:00

abstract：:The inaugural "Microbiome for Mars" virtual workshop took place on July 13, 2020. This event assembled leaders in microbiome research and development to discuss their work and how it may relate to long-duration human space travel. The conference focused on surveying current microbiome research, future endeavors, and h...

journal_title：Microbiome

authors： LaPelusa M,Donoviel D,Branzini SE,Carlson PE Jr,Culler S,Cheema AK,Kaddurah-Daouk R,Kelly D,de Cremoux I,Knight R,Krajmalnik-Brown R,Mayo SL,Mazmanian SK,Mayer EA,Petrosino JF,Garrison K

更新日期：2021-01-04 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:Understanding microbial interactions in engineering bioprocesses is important to enhance and optimize performance outcomes and requires dissection of the multi-layer complexities of microbial communities. However, unraveling microbial interactions as well as substrates involved in complex microbial communiti...

journal_title：Microbiome

authors： Yu K,Yi S,Li B,Guo F,Peng X,Wang Z,Wu Y,Alvarez-Cohen L,Zhang T

更新日期：2019-02-06 00:00:00

abstract：:Recent studies have conflicting data regarding the presence of intra-amniotic microbiota. Viral communities are increasingly recognized as important although overlooked components of the human microbiota. It is unknown if the developing fetus is exposed to a community of viruses (virome). Given the debate over the exi...

journal_title：Microbiome

authors： Lim ES,Rodriguez C,Holtz LR

更新日期：2018-05-11 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:Archaea are one of the least-studied members of the gut-dwelling autochthonous microbiota. Few studies have reported the dominance of methanogens in the archaeal microbiome (archaeome) of the human gut, although limited information regarding the diversity and abundance of other archaeal phylotypes is availab...

journal_title：Microbiome

authors： Kim JY,Whon TW,Lim MY,Kim YB,Kim N,Kwon MS,Kim J,Lee SH,Choi HJ,Nam IH,Chung WH,Kim JH,Bae JW,Roh SW,Nam YD

更新日期：2020-08-04 00:00:00

abstract：:Human genome-wide association studies (GWASs) have recurrently estimated lower heritability estimates than familial studies. Many explanations have been suggested to explain these lower estimates, including that a substantial proportion of genetic variation and gene-by-environment interactions are unmeasured in typica...

journal_title：Microbiome

authors： Douglas GM,Bielawski JP,Langille MGI

更新日期：2020-06-08 00:00:00

abstract：BACKGROUND:Post-infarction cardiovascular remodeling and heart failure are the leading cause of myocardial infarction (MI)-driven death during the past decades. Experimental observations have involved intestinal microbiota in the susceptibility to MI in mice; however, in humans, identifying whether translocation of gut...

journal_title：Microbiome

authors： Zhou X,Li J,Guo J,Geng B,Ji W,Zhao Q,Li J,Liu X,Liu J,Guo Z,Cai W,Ma Y,Ren D,Miao J,Chen S,Zhang Z,Chen J,Zhong J,Liu W,Zou M,Li Y,Cai J

更新日期：2018-04-03 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: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:Determining the role of fomites in the transmission of SARS-CoV-2 is essential in the hospital setting and will likely be important outside of medical facilities as governments around the world make plans to ease COVID-19 public health restrictions and attempt to safely reopen economies. Expanding COVID-19 t...

journal_title：Microbiome

authors： Minich JJ,Ali F,Marotz C,Belda-Ferre P,Chiang L,Shaffer JP,Carpenter CS,McDonald D,Gilbert J,Allard SM,Allen EE,Knight R,Sweeney DA,Swafford AD

更新日期：2021-01-22 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：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:Microorganisms have long been associated with oxic and anoxic degradation of hydrocarbons in oil reservoirs and oil production facilities. While we can readily determine the abundance of microorganisms in the reservoir and study their activity in the laboratory, it has been challenging to resolve what microb...

journal_title：Microbiome

authors： Liu YF,Galzerani DD,Mbadinga SM,Zaramela LS,Gu JD,Mu BZ,Zengler K

更新日期：2018-01-05 00:00:00

abstract：BACKGROUND:Current knowledge of the urinary tract microbiome is limited to urine analysis and analysis of biofilms formed on Foley catheters. Bacterial biofilms on ureteral stents have rarely been investigated, and no cultivation-independent data are available on the microbiome of the encrustations on the stents. RESU...

journal_title：Microbiome

authors： Buhmann MT,Abt D,Nolte O,Neu TR,Strempel S,Albrich WC,Betschart P,Zumstein V,Neels A,Maniura-Weber K,Ren Q

更新日期：2019-04-13 00:00:00

abstract：BACKGROUND:Microbiome sequencing projects typically collect tens of millions of short reads per sample. Depending on the goals of the project, the short reads can either be subjected to direct sequence analysis or be assembled into longer contigs. The assembly of whole genomes from metagenomic sequencing reads is a ver...

journal_title：Microbiome

authors： Huson DH,Tappu R,Bazinet AL,Xie C,Cummings MP,Nieselt K,Williams R

更新日期：2017-01-25 00:00:00

abstract：BACKGROUND:Recent evidence supports that the maternal gut microbiota impacts the initial infant gut microbiota. Since the gut microbiota may play a causal role in the development of obesity, it is important to understand how pre-pregnancy weight and gestational weight gain (GWG) impact the gut microbiota of mothers at ...

journal_title：Microbiome

authors： Stanislawski MA,Dabelea D,Wagner BD,Sontag MK,Lozupone CA,Eggesbø M

更新日期：2017-09-04 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:Lake sediments harbor diverse microbial communities that cycle carbon and nutrients while being constantly colonized and potentially buried by organic matter sinking from the water column. The interaction of activity and burial remained largely unexplored in aquatic sediments. We aimed to relate taxonomic co...

journal_title：Microbiome

authors： Wurzbacher C,Fuchs A,Attermeyer K,Frindte K,Grossart HP,Hupfer M,Casper P,Monaghan MT

更新日期：2017-04-08 00:00:00

abstract：BACKGROUND:Otitis media (OM) imposes a great burden of disease in indigenous populations around the world, despite a variety of treatment and prevention programs. Improved understanding of the pathogenesis of OM in indigenous populations is required to advance treatment and reduce prevalence. We conducted a systematic ...

journal_title：Microbiome

authors： Coleman A,Wood A,Bialasiewicz S,Ware RS,Marsh RL,Cervin A

更新日期：2018-11-05 00:00:00

abstract：BACKGROUND:Disruption of the gut microbiota homeostasis may induce low-grade inflammation leading to obesity-associated diseases. A major protective mechanism is to use the multi-layered mucus structures to keep a safe distance between gut epithelial cells and microbiota. To investigate whether pesticides would induce ...

journal_title：Microbiome

authors： Liang Y,Zhan J,Liu D,Luo M,Han J,Liu X,Liu C,Cheng Z,Zhou Z,Wang P

更新日期：2019-02-11 00:00:00

abstract：BACKGROUND:Intestinal microbiota restoration can be achieved by complementing a subject's perturbed microbiota with that of a healthy donor. Recurrent Clostridioides difficile infection (rCDI) is one key application of such treatment. Another emerging application of interest is reducing antibiotic-resistant genes (ARGs...

journal_title：Microbiome

authors： Kwak S,Choi J,Hink T,Reske KA,Blount K,Jones C,Bost MH,Sun X,Burnham CD,Dubberke ER,Dantas G,CDC Prevention Epicenter Program.

更新日期：2020-08-31 00:00:00

abstract：BACKGROUND:Wheat residues are a crucial determinant of the epidemiology of Septoria tritici blotch, as they support the sexual reproduction of the causal agent Zymoseptoria tritici. We aimed to characterize the effect of infection with this fungal pathogen on the microbial communities present on wheat residues and to i...

journal_title：Microbiome

authors： Kerdraon L,Barret M,Laval V,Suffert F

更新日期：2019-08-30 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: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