Correction to: Microbiome definition re-visited: old concepts and new challenges.

abstract：BACKGROUND:The caecal microbiota plays a key role in chicken health and performance, influencing digestion and absorption of nutrients, and contributing to defence against colonisation by invading pathogens. Measures of productivity and resistance to pathogen colonisation are directly influenced by chicken genotype, bu...

journal_title：Microbiome

authors： Pandit RJ,Hinsu AT,Patel NV,Koringa PG,Jakhesara SJ,Thakkar JR,Shah TM,Limon G,Psifidi A,Guitian J,Hume DA,Tomley FM,Rank DN,Raman M,Tirumurugaan KG,Blake DP,Joshi CG

更新日期：2018-06-23 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: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：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: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：: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: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: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：: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:Dental calculus, calcified oral plaque biofilm, contains microbial and host biomolecules that can be used to study historic microbiome communities and host responses. Dental calculus does not typically accumulate as much today as historically, and clinical oral microbiome research studies focus primarily on ...

journal_title：Microbiome

authors： Velsko IM,Fellows Yates JA,Aron F,Hagan RW,Frantz LAF,Loe L,Martinez JBR,Chaves E,Gosden C,Larson G,Warinner C

更新日期：2019-07-06 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: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

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：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：:The human microbiome refers to the genetic composition of microorganisms in a particular location in the human body. Emerging evidence over the past many years suggests that the microbiome constitute drivers of human fate almost at par with our genome and epigenome. It is now well accepted after decades of disbelief t...

journal_title：Microbiome

authors： Silverstein RB,Mysorekar IU

更新日期：2021-01-12 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: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: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: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: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: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:Whole genome amplification (WGA) is a challenging, key step in metagenomic studies of samples containing minute amounts of DNA, such as samples from low biomass environments. It is well known that multiple displacement amplification (MDA), the most commonly used WGA method for microbial samples, skews the ge...

journal_title：Microbiome

authors： Hammond M,Homa F,Andersson-Svahn H,Ettema TJ,Joensson HN

更新日期：2016-10-06 00:00:00

abstract：BACKGROUND:Plants have developed defense strategies for phytopathogen and herbivore protection via coordinated metabolic mechanisms. Low-molecular weight metabolites produced within plant tissues, such as salicylic acid, represent one such mechanism which likely mediates plant - microbe interactions above and below gro...

journal_title：Microbiome

authors： Veach AM,Morris R,Yip DZ,Yang ZK,Engle NL,Cregger MA,Tschaplinski TJ,Schadt CW

更新日期：2019-05-18 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:Bacteriophage-prokaryote dynamics and interaction are believed to be important in governing microbiome composition and ecosystem functions, yet our limited knowledge of the spatial and temporal variation in phage and prokaryotic community compositions precludes accurate assessment of their roles and impacts....

journal_title：Microbiome

authors： Zhang J,Gao Q,Zhang Q,Wang T,Yue H,Wu L,Shi J,Qin Z,Zhou J,Zuo J,Yang Y

更新日期：2017-05-31 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: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: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：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