abstract：BACKGROUND:Parkinson's disease (PD) is a neurodegenerative disorder with no absolute cure. The evidence of the involvement of gut microbiota in PD pathogenesis suggests the need to identify certain molecule(s) derived from the gut microbiota, which has the potential to manage PD. Osteocalcin (OCN), an osteoblast-secret...

journal_title：Microbiome

authors： Hou YF,Shan C,Zhuang SY,Zhuang QQ,Ghosh A,Zhu KC,Kong XK,Wang SM,Gong YL,Yang YY,Tao B,Sun LH,Zhao HY,Guo XZ,Wang WQ,Ning G,Gu YY,Li ST,Liu JM

更新日期：2021-01-31 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: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：: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：: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: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: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: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：: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: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: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：: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:Metagenomics is revolutionizing the study of microorganisms and their involvement in biological, biomedical, and geochemical processes, allowing us to investigate by direct sequencing a tremendous diversity of organisms without the need for prior cultivation. Unicellular eukaryotes play essential roles in mo...

journal_title：Microbiome

authors： Levy Karin E,Mirdita M,Söding J

更新日期：2020-04-03 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：: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：:Immigration is a process that can influence the assembly of microbial communities in natural and engineered environments. However, it remains challenging to quantitatively evaluate the contribution of this process to the microbial diversity and function in the receiving ecosystems. Currently used methods, i.e., counti...

journal_title：Microbiome

authors： Mei R,Liu WT

更新日期：2019-11-06 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 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:Increasing evidence reveals the importance of the microbiome in health and disease and inseparable host-microbial dependencies. Host-microbe interactions are highly relevant in patients receiving allogeneic hematopoietic stem cell transplantation (HSCT), i.e., a replacement of the cellular components of the ...

journal_title：Microbiome

authors： Ingham AC,Kielsen K,Cilieborg MS,Lund O,Holmes S,Aarestrup FM,Müller KG,Pamp SJ

更新日期：2019-09-13 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 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：BACKGROUND:Whole-genome "shotgun" (WGS) metagenomic sequencing is an increasingly widely used tool for analyzing the metagenomic content of microbiome samples. While WGS data contains gene-level information, it can be challenging to analyze the millions of microbial genes which are typically found in microbiome experim...

journal_title：Microbiome

authors： Minot SS,Willis AD

更新日期：2019-08-01 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:The microbial populations of the human intestinal tract and their relationship to specific diseases have been extensively studied during the last decade. However, the characterization of the human bile microbiota as a whole has been hampered by difficulties in accessing biological samples and the lack of ade...

journal_title：Microbiome

authors： Molinero N,Ruiz L,Milani C,Gutiérrez-Díaz I,Sánchez B,Mangifesta M,Segura J,Cambero I,Campelo AB,García-Bernardo CM,Cabrera A,Rodríguez JI,González S,Rodríguez JM,Ventura M,Delgado S,Margolles A

更新日期：2019-07-04 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: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:The human gut microbiome performs important functions in human health and disease. A classic example for host-gut microbial co-metabolism is host biosynthesis of primary bile acids and their subsequent deconjugation and transformation by the gut microbiome. To understand these system-level host-microbe inter...

journal_title：Microbiome

authors： Heinken A,Ravcheev DA,Baldini F,Heirendt L,Fleming RMT,Thiele I

更新日期：2019-05-15 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: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:Wastewater treatment plants (WWTPs) are recognized as hotspots for horizontal gene transfer (HGT) of antibiotic resistance genes (ARGs). Despite our understanding of the composition and distribution of ARGs in WWTPs, the genetic location, host, and fate of ARGs remain largely unknown. RESULTS:In this study,...

journal_title：Microbiome

authors： Che Y,Xia Y,Liu L,Li AD,Yang Y,Zhang T

更新日期：2019-03-21 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：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: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: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：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:A westernized diet comprising a high caloric intake from animal fats is known to influence the development of pathological inflammatory conditions. However, there has been relatively little focus upon the implications of such diets for the progression of infectious disease. Here, we investigated the influenc...

journal_title：Microbiome

authors： Las Heras V,Clooney AG,Ryan FJ,Cabrera-Rubio R,Casey PG,Hueston CM,Pinheiro J,Rudkin JK,Melgar S,Cotter PD,Hill C,Gahan CGM

更新日期：2019-01-18 00:00:00

abstract：BACKGROUND:In previous studies, the gram-positive firmicute genus Paenibacillus was found with significant abundances in nests of wild solitary bees. Paenibacillus larvae is well-known for beekeepers as a severe pathogen causing the fatal honey bee disease American foulbrood, and other members of the genus are either s...

journal_title：Microbiome

authors： Keller A,Brandel A,Becker MC,Balles R,Abdelmohsen UR,Ankenbrand MJ,Sickel W

更新日期：2018-12-22 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: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