Facultative methanotrophs are abundant at terrestrial natural gas seeps.

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: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 correct establishment of the human gut microbiota represents a crucial development that commences at birth. Different hypotheses propose that the infant gut microbiota is derived from, among other sources, the mother's fecal/vaginal microbiota and human milk. RESULTS:The composition of bifidobacterial c...

journal_title：Microbiome

authors： Duranti S,Lugli GA,Mancabelli L,Armanini F,Turroni F,James K,Ferretti P,Gorfer V,Ferrario C,Milani C,Mangifesta M,Anzalone R,Zolfo M,Viappiani A,Pasolli E,Bariletti I,Canto R,Clementi R,Cologna M,Crifò T,Cusumano

更新日期：2017-06-26 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：:Following publication of the original article [1], the authors reported an error in Fig. 2. The original Fig. 2 has been incorrectly replaced with the Supplementary Fig. 2. The correct Fig. 2 is presented here. ...

journal_title：Microbiome

authors： Armstrong AJS,Shaffer M,Nusbacher NM,Griesmer C,Fiorillo S,Schneider JM,Neff CP,Li SX,Fontenot AP,Campbell T,Palmer BE,Lozupone CA

更新日期：2020-04-06 00:00:00

abstract：BACKGROUND:Polycyclic aromatic hydrocarbons (PAHs) are of environmental and public health concerns and contribute to adverse skin attributes such as premature skin aging and pigmentary disorder. However, little information is available on the potential roles of chronic urban PAH pollutant exposure on the cutaneous micr...

journal_title：Microbiome

authors： Leung MHY,Tong X,Bastien P,Guinot F,Tenenhaus A,Appenzeller BMR,Betts RJ,Mezzache S,Li J,Bourokba N,Breton L,Clavaud C,Lee PKH

更新日期：2020-06-26 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: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:A majority of indoor residential microbes originate from humans, pets, and outdoor air and are not adapted to the built environment (BE). Consequently, a large portion of the microbes identified by DNA-based methods are either dead or metabolically inactive. Although many exceptions have been noted, the ribo...

journal_title：Microbiome

authors： Gomez-Silvan C,Leung MHY,Grue KA,Kaur R,Tong X,Lee PKH,Andersen GL

更新日期：2018-04-16 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:Dental plaque is composed of hundreds of bacterial taxonomic units and represents one of the most diverse and stable microbial ecosystems associated with the human body. Taxonomic composition and functional capacity of mature plaque is gradually shaped during several stages of community assembly via processe...

journal_title：Microbiome

authors： Edlund A,Yang Y,Yooseph S,He X,Shi W,McLean JS

更新日期：2018-12-06 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: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：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:Bacterial predation is an important selective force in microbial community structure and dynamics. However, only a limited number of predatory bacteria have been reported, and their predatory strategies and evolutionary adaptations remain elusive. We recently isolated a novel group of bacterial predators, Br...

journal_title：Microbiome

authors： Mu DS,Wang S,Liang QY,Du ZZ,Tian R,Ouyang Y,Wang XP,Zhou A,Gong Y,Chen GJ,Van Nostrand J,Yang Y,Zhou J,Du ZJ

更新日期：2020-08-31 00:00:00

abstract：BACKGROUND:High-throughput amplicon sequencing spanning conserved portions of microbial genomes (16s rRNA and ITS) was used in the present study to describe the endophytic microbiota associated with three apple varieties, "Royal Gala," "Golden Delicious," and "Honey Crisp," and two rootstocks, M.9 and M.M.111. The obje...

journal_title：Microbiome

authors： Liu J,Abdelfattah A,Norelli J,Burchard E,Schena L,Droby S,Wisniewski M

更新日期：2018-01-27 00:00:00

abstract：BACKGROUND:Given their adaptation to nutrient-poor and drought environments, cycads are vital models for plant-microbiome interaction research because they are likely to host an important reservoir of beneficial microbes that may support cycad survival. However, a comprehensive understanding of the diversity and commun...

journal_title：Microbiome

authors： Zheng Y,Gong X

更新日期：2019-12-02 00:00:00

abstract：BACKGROUND:Preterm infants are at risk of developing intestinal dysbiosis with an increased proportion of Gammaproteobacteria. In this study, we sought the clinical determinants of the relative abundance of feces-associated Gammaproteobacteria in very low birth weight (VLBW) infants. Fecal microbiome was characterized ...

journal_title：Microbiome

authors： Ho TTB,Groer MW,Kane B,Yee AL,Torres BA,Gilbert JA,Maheshwari A

更新日期：2018-09-12 00:00:00

abstract：BACKGROUND:Metagenomic datasets provide an opportunity to study horizontal gene transfer (HGT) on the level of a microbial community. However, current HGT detection methods cannot be applied to community-level datasets or require reference genomes. Here, we present MetaCHIP, a pipeline for reference-independent HGT ide...

journal_title：Microbiome

authors： Song W,Wemheuer B,Zhang S,Steensen K,Thomas T

更新日期：2019-03-04 00:00:00

abstract：:An amendment to this paper has been published and can be accessed via the original article. ...

journal_title：Microbiome

authors： Berg G,Rybakova D,Fischer D,Cernava T,Vergès MC,Charles T,Chen X,Cocolin L,Eversole K,Corral GH,Kazou M,Kinkel L,Lange L,Lima N,Loy A,Macklin JA,Maguin E,Mauchline T,McClure R,Mitter B,Ryan M,Sarand I,Smidt H

更新日期：2020-08-20 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: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：:The vaginal microbiota plays a significant role in health and disease of the female reproductive tract. Next-generation sequencing techniques based upon the analysis of bacterial 16S rRNA genes permit in-depth study of vaginal microbial community structure to a level of detail not possible with standard culture-based ...

journal_title：Microbiome

authors： Mitra A,MacIntyre DA,Marchesi JR,Lee YS,Bennett PR,Kyrgiou M

更新日期：2016-11-01 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 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:The degree to which host genetic variation can modulate microbial communities in humans remains an open question. Here, we performed a genetic mapping study of the microbiome in two accessible upper airway sites, the nasopharynx and the nasal vestibule, during two seasons in 144 adult members of a founder po...

journal_title：Microbiome

authors： Igartua C,Davenport ER,Gilad Y,Nicolae DL,Pinto J,Ober C

更新日期：2017-02-01 00:00:00

abstract：BACKGROUND:Our understanding of gut microbiota has been limited primarily to findings from human and laboratory animals, but what shapes the gut microbiota in nature remains largely unknown. To fill this gap, we conducted a comprehensive study of gut microbiota of a well-studied North American red squirrel (Tamiasciuru...

journal_title：Microbiome

authors： Ren T,Boutin S,Humphries MM,Dantzer B,Gorrell JC,Coltman DW,McAdam AG,Wu M

更新日期：2017-12-21 00:00:00

abstract：BACKGROUND:Antimicrobial resistance (AMR) is a major threat to public health. Microorganisms equipped with AMR genes are suggested to have partially emerged from natural habitats; however, this hypothesis remains inconclusive so far. To understand the consequences of the introduction of exogenic antimicrobials into nat...

journal_title：Microbiome

authors： Wicaksono WA,Kusstatscher P,Erschen S,Reisenhofer-Graber T,Grube M,Cernava T,Berg G

更新日期：2021-01-27 00:00:00

abstract：BACKGROUND:Gastrointestinal mucosal injury (mucositis), commonly affecting the oral cavity, is a clinically significant yet incompletely understood complication of cancer chemotherapy. Although antineoplastic cytotoxicity constitutes the primary injury trigger, the interaction of oral microbial commensals with mucosal ...

journal_title：Microbiome

authors： Hong BY,Sobue T,Choquette L,Dupuy AK,Thompson A,Burleson JA,Salner AL,Schauer PK,Joshi P,Fox E,Shin DG,Weinstock GM,Strausbaugh LD,Dongari-Bagtzoglou A,Peterson DE,Diaz PI

更新日期：2019-04-25 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