Summary: The full collection of microbes (bacteria, fungi, virus, etc.) that naturally exist within a particular biological niche such as an organism, soil, a body of water, etc.

Top Publications

  1. . The MAL-ED study: a multinational and multidisciplinary approach to understand the relationship between enteric pathogens, malnutrition, gut physiology, physical growth, cognitive development, and immune responses in infants and children up to 2 year. Clin Infect Dis. 2014;59 Suppl 4:S193-206 pubmed publisher
  2. Salzman N. The role of the microbiome in immune cell development. Ann Allergy Asthma Immunol. 2014;113:593-8 pubmed publisher
  3. May A, Brady J, Romano Keeler J, Drake W, Norris P, Jenkins J, et al. A pilot study of the noninvasive assessment of the lung microbiota as a potential tool for the early diagnosis of ventilator-associated pneumonia. Chest. 2015;147:1494-1502 pubmed publisher
    ..Exhaled breath contains aerosolized droplets that reflect the lung microbiota. We hypothesized that exhaled breath condensate fluid (EBCF) in hygroscopic condenser humidifier/heat and ..
  4. Jansson J. Spotlight on… Janet K. Jansson. FEMS Microbiol Lett. 2016;363: pubmed publisher
  5. Burbank A, Sood A, Kesic M, Peden D, Hernandez M. Environmental determinants of allergy and asthma in early life. J Allergy Clin Immunol. 2017;140:1-12 pubmed publisher
    ..Understanding the effect of the summation of environmental exposures throughout a child's development is needed to identify cost-effective interventions that reduce atopy risk in children. ..
  6. Chonmaitree T, Jennings K, Golovko G, Khanipov K, Pimenova M, Patel J, et al. Nasopharyngeal microbiota in infants and changes during viral upper respiratory tract infection and acute otitis media. PLoS ONE. 2017;12:e0180630 pubmed publisher
    ..Among the high abundant genus-level nasopharyngeal microbiota were Moraxella, Haemophilus, and Streptococcus (3 otopathogen genera), Corynebacterium, Dolosigranulum, ..
  7. Jee J, Mourya R, Shivakumar P, Fei L, Wagner M, Bezerra J. Cxcr2 signaling and the microbiome suppress inflammation, bile duct injury, and the phenotype of experimental biliary atresia. PLoS ONE. 2017;12:e0182089 pubmed publisher
    ..These results suggest that the postnatal development of the intestinal microbiota is an important susceptibility factor for experimental biliary atresia.
  8. Kuzmin M, Peshkova Y, Pashkova T, Kartashova O, Pashinina O, Meshcheryakov A. [Structure of microorganism species cultured from urine of urolithiasis patients]. Urologiia. 2017;:18-21 pubmed
    ..The study findings showed species diversity of microorganisms cultured from pelvic and bladder urine sampled during surgical interventions in urolithiasis patients. ..
  9. van der Putten W. Introduced tree species released from negative soil biota. New Phytol. 2014;202:341-3 pubmed publisher

More Information

Publications121 found, 100 shown here

  1. Reardon S. Microbiome therapy gains market traction. Nature. 2014;509:269-70 pubmed publisher
  2. Tang W, Hazen S. The contributory role of gut microbiota in cardiovascular disease. J Clin Invest. 2014;124:4204-11 pubmed publisher
    ..A meta-organismal pathway was elucidated involving gut microbiota-dependent formation of TMA and host hepatic flavin monooxygenase 3-dependent (FMO3-dependent) formation of TMA-N-..
  3. Wang P, Wu Q, Jiang X, Wang Z, Tang J, Xu Y. Bacillus licheniformis affects the microbial community and metabolic profile in the spontaneous fermentation of Daqu starter for Chinese liquor making. Int J Food Microbiol. 2017;250:59-67 pubmed publisher
    ..1mgethylcaproate/g/100h to 17.2mgethylcaproate/g/100h). These effects of inoculation were important factors for regulating the metabolism of microbial communities, hence for improving the flavor profile Daqu. ..
  4. Agnello M, Cen L, Tran N, Shi W, McLean J, He X. Arginine Improves pH Homeostasis via Metabolism and Microbiome Modulation. J Dent Res. 2017;96:924-930 pubmed publisher
    ..Overall, we show that arginine improved pH homeostasis through a remodeling of the oral microbial community. ..
  5. Hanssen E, Avershina E, Rudi K, Gill P, Snipen L. Body fluid prediction from microbial patterns for forensic application. Forensic Sci Int Genet. 2017;30:10-17 pubmed publisher
    ..is a person-effect influencing the result, especially from skin, indicating that a reference sample of pure skin microbiota from the same person could improve accuracy...
  6. Savage A, Liang H, Locksley R. The Development of Steady-State Activation Hubs between Adult LTi ILC3s and Primed Macrophages in Small Intestine. J Immunol. 2017;199:1912-1922 pubmed publisher
    ..Constitutive IL-22 expression was dependent on the microbiota and MyD88 signaling, appeared upon weaning, and was present across the spectrum of SILT, including in ..
  7. Sharma Poudyal D, Schlatter D, Yin C, Hulbert S, Paulitz T. Long-term no-till: A major driver of fungal communities in dryland wheat cropping systems. PLoS ONE. 2017;12:e0184611 pubmed publisher
    ..But a larger proportion of the fungal community is not affected by tillage and may be niche generalists. ..
  8. Parma M, Stella Vanni V, Bertini M, Candiani M. Probiotics in the prevention of recurrences of bacterial vaginosis. Altern Ther Health Med. 2014;20 Suppl 1:52-7 pubmed
  9. Mizock B. Probiotics. Dis Mon. 2015;61:259-90 pubmed publisher
  10. De Cesare A, Sirri F, Manfreda G, Moniaci P, Giardini A, Zampiga M, et al. Effect of dietary supplementation with Lactobacillus acidophilus D2/CSL (CECT 4529) on caecum microbioma and productive performance in broiler chickens. PLoS ONE. 2017;12:e0176309 pubmed publisher
    ..In conclusion, the LA supplementation improved broiler productive performances and metabolic functions promoting animal health. ..
  11. Garcia S, Blackledge M, Michalek S, Su L, Ptacek T, Eipers P, et al. Targeting of Streptococcus mutans Biofilms by a Novel Small Molecule Prevents Dental Caries and Preserves the Oral Microbiome. J Dent Res. 2017;96:807-814 pubmed publisher
    ..mutans in a rat caries model without perturbing the oral microbiota. Our study demonstrates that selective targeting of S...
  12. Hata T, Asano Y, Yoshihara K, Kimura Todani T, Miyata N, Zhang X, et al. Regulation of gut luminal serotonin by commensal microbiota in mice. PLoS ONE. 2017;12:e0180745 pubmed publisher
    ..is released from enterochromaffin (EC) cells in response to a number of stimuli, including signals from the gut microbiota. However, the specific mechanism by which the gut microbiota regulates 5-HT levels in the gut lumen has not yet ..
  13. Pérez Losada M, Graham R, Coquillette M, Jafarey A, Castro Nallar E, Aira M, et al. The temporal dynamics of the tracheal microbiome in tracheostomised patients with and without lower respiratory infections. PLoS ONE. 2017;12:e0182520 pubmed publisher
    Airway microbiota dynamics during lower respiratory infection (LRI) are still poorly understood due, in part, to insufficient longitudinal studies and lack of uncontaminated lower airways samples...
  14. Park S, Lee S, Kim S, Christensen K, Ricke S. Comparison of antibiotic supplementation versus a yeast-based prebiotic on the cecal microbiome of commercial broilers. PLoS ONE. 2017;12:e0182805 pubmed publisher
    ..Retention of broiler performance and improvement of white meat yield suggest that the prebiotic MB40 appears to be a potential alternative to replace the antibiotic growth promoter. ..
  15. Alisi A, Ceccarelli S, Panera N, Nobili V. Causative role of gut microbiota in non-alcoholic fatty liver disease pathogenesis. Front Cell Infect Microbiol. 2012;2:132 pubmed publisher
  16. Cox M, Cookson W, Moffatt M. Sequencing the human microbiome in health and disease. Hum Mol Genet. 2013;22:R88-94 pubmed publisher
    ..and number of reads generated by high-throughput sequencing has coincided with a surge of interest in the human microbiota, the totality of bacteria associated with the human body, in both health and disease...
  17. Fan W, Tang Y, Qu Y, Cao F, Huo G. Infant formula supplemented with low protein and high carbohydrate alters the intestinal microbiota in neonatal SD rats. BMC Microbiol. 2014;14:279 pubmed publisher
    Infant microbiota is influenced by numerous factors, such as delivery mode, environment, prematurity and diet (breast milk or formula) and last but not least, the diet composition...
  18. Fogelman A. TMAO is both a biomarker and a renal toxin. Circ Res. 2015;116:396-7 pubmed publisher
  19. Sowada J, Lemoine L, Schön K, Hutzler C, Luch A, Tralau T. Toxification of polycyclic aromatic hydrocarbons by commensal bacteria from human skin. Arch Toxicol. 2017;91:2331-2341 pubmed publisher
    ..Altogether we show that PAH metabolism of the microbiome has to be considered a potential hazard. ..
  20. Perazzolli M, Antonielli L, Storari M, Puopolo G, Pancher M, Giovannini O, et al. Resilience of the natural phyllosphere microbiota of the grapevine to chemical and biological pesticides. Appl Environ Microbiol. 2014;80:3585-96 pubmed
    ..the role and ecology of nonpathogenic microorganisms of the phyllosphere are only partially understood, leaf microbiota could have a beneficial role in plant growth and health...
  21. Val Laillet D, Besson M, Guerin S, Coquery N, Randuineau G, Kanzari A, et al. A maternal Western diet during gestation and lactation modifies offspring's microbiota activity, blood lipid levels, cognitive responses, and hippocampal neurogenesis in Yucatan pigs. FASEB J. 2017;31:2037-2049 pubmed publisher
    ..i> Western diet (WD)] during gestation and 25 d of lactation on milk composition, blood metabolism, and microbiota activity of sows (n = 17) and their piglets (n = 65), and on spatial cognition (n = 51), ..
  22. Nascimento M, Zaura E, Mira A, Takahashi N, Ten Cate J. Second Era of OMICS in Caries Research: Moving Past the Phase of Disillusionment. J Dent Res. 2017;96:733-740 pubmed publisher
    ..These observations apply equally to the study of other oral diseases. ..
  23. Gomez D, Arroyo L, Costa M, Viel L, Weese J. Characterization of the Fecal Bacterial Microbiota of Healthy and Diarrheic Dairy Calves. J Vet Intern Med. 2017;31:928-939 pubmed publisher
    ..Few population-based studies of cattle have investigated how the microbiota is impacted during diarrhea...
  24. Adebayo A, Suryavanshi M, Bhute S, Agunloye A, Isokpehi R, Anumudu C, et al. The microbiome in urogenital schistosomiasis and induced bladder pathologies. PLoS Negl Trop Dis. 2017;11:e0005826 pubmed publisher
    ..The objective of the research study was to determine the microbiome features and changes in urine during urogenital schistosomiasis and induced bladder pathologies...
  25. Kort R. Personalized therapy with probiotics from the host by TripleA. Trends Biotechnol. 2014;32:291-3 pubmed publisher
  26. Weiss S, Amir A, Hyde E, Metcalf J, Song S, Knight R. Tracking down the sources of experimental contamination in microbiome studies. Genome Biol. 2014;15:564 pubmed publisher
    ..A recent report warns that DNA extraction kits and other laboratory reagents are considerable sources of contamination in microbiome experiments. The issue of contamination is particularly problematic for samples of low biomass. ..
  27. Clasen J, Shurin J. Kelp forest size alters microbial community structure and function on Vancouver Island, Canada. Ecology. 2015;96:862-72 pubmed
  28. Shannon B, Gajer P, Yi T, Ma B, Humphrys M, Thomas Pavanel J, et al. Distinct Effects of the Cervicovaginal Microbiota and Herpes Simplex Type 2 Infection on Female Genital Tract Immunology. J Infect Dis. 2017;215:1366-1375 pubmed publisher
    ..Therefore, we assessed the impact of the genital microbiota on mucosal immunology in ACB women and microbiome-HSV-2 interactions.
  29. Rainard P. Mammary microbiota of dairy ruminants: fact or fiction?. Vet Res. 2017;48:25 pubmed publisher
    ..to health and disease have prompted research on the ways the harmonious relationship between a host and its microbiota could be used to keep animals healthy in their production conditions...
  30. Rahman M, Yoon K, Lim S, Jeon M, Kim H, Kim H, et al. Molecular detection by analysis of the 16S rRNA gene of fecal coliform bacteria from the two Korean Apodemus species (Apodemus agrarius and A. peninsulae). Genet Mol Res. 2017;16: pubmed publisher
    ..These results could help us to better understand the pathogen reservoirs of mice and initiate some preventive measures to mitigate the microbial risks associated with mouse fecal matter in agricultural production areas. ..
  31. Foster K, Schlüter J, Coyte K, Rakoff Nahoum S. The evolution of the host microbiome as an ecosystem on a leash. Nature. 2017;548:43-51 pubmed publisher
    ..We suggest that the health benefits of the microbiome should be understood, and studied, as an interplay between microbial competition and host control...
  32. Murray G, O Neill R, Lee A, McElroy M, More S, Monagle A, et al. The bovine paranasal sinuses: Bacterial flora, epithelial expression of nitric oxide and potential role in the in-herd persistence of respiratory disease pathogens. PLoS ONE. 2017;12:e0173845 pubmed publisher
    ..5% of a sub-sample of animals suggesting production of this compound plays a similar protective role in the bovine sinus as it does in humans. ..
  33. Ramalho M, Bueno O, Moreau C. Microbial composition of spiny ants (Hymenoptera: Formicidae: Polyrhachis) across their geographic range. BMC Evol Biol. 2017;17:96 pubmed publisher
    ..the microbial community of >80 species of Polyrhachis distributed across the Old World and compares the microbiota of samples and related hosts across different biogeographic locations and in the context of their phylogenetic ..
  34. Galla S, Chakraborty S, Mell B, Vijay Kumar M, Joe B. Microbiotal-Host Interactions and Hypertension. Physiology (Bethesda). 2017;32:224-233 pubmed publisher
    ..role for the microbiome in BP regulation, this review highlights the need to further explore the role of the co-existence of host and the microbiota as an organized biological unit called the "holobiont" in the context of BP regulation.
  35. De Vuyst L, Van Kerrebroeck S, Leroy F. Microbial Ecology and Process Technology of Sourdough Fermentation. Adv Appl Microbiol. 2017;100:49-160 pubmed publisher
    ..With respect to the metabolic impact of the sourdough microbiota, acidification (LAB), flavor formation (LAB and yeasts), and leavening (yeasts and heterofermentative LAB ..
  36. Shen P, Whelan F, Schenck L, McGrath J, Vanderstocken G, Bowdish D, et al. Streptococcus pneumoniae Colonization Is Required To Alter the Nasal Microbiota in Cigarette Smoke-Exposed Mice. Infect Immun. 2017;85: pubmed publisher
    Smokers have nasal microbiota dysbiosis, with an increased frequency of colonizing bacterial pathogens. It is possible that cigarette smoke increases pathogen acquisition by perturbing the microbiota and decreasing colonization resistance...
  37. Fierer N. Embracing the unknown: disentangling the complexities of the soil microbiome. Nat Rev Microbiol. 2017;15:579-590 pubmed publisher
  38. Brown R, Marchesi J, Lee Y, Smith A, Lehne B, Kindinger L, et al. Vaginal dysbiosis increases risk of preterm fetal membrane rupture, neonatal sepsis and is exacerbated by erythromycin. BMC Med. 2018;16:9 pubmed publisher
    ..The evolution of vaginal microbiota compositions associated with PPROM and the impact of antibiotics on bacterial compositions are unknown...
  39. Kuipers F, Groen A. FXR: the key to benefits in bariatric surgery?. Nat Med. 2014;20:337-8 pubmed publisher
  40. Jones K, Thitiri J, Ngari M, Berkley J. Childhood malnutrition: toward an understanding of infections, inflammation, and antimicrobials. Food Nutr Bull. 2014;35:S64-70 pubmed
    ..The trial is expected to be reported in mid-2014. As well as improving nutritional intake, new case management strategies need to address infection, inflammation, and microbiota and assess health outcomes rather than only anthropometry.
  41. Coton M, Pawtowski A, Taminiau B, Burgaud G, Déniel F, Coulloumme Labarthe L, et al. Unraveling microbial ecology of industrial-scale Kombucha fermentations by metabarcoding and culture-based methods. FEMS Microbiol Ecol. 2017;93: pubmed publisher
    ..anomala, Zygosaccharomyces bailii and Hanseniaspora valbyensis as most dominant. This study unraveled a distinctive core microbial community which is essential for fermentation control and could lead to Kombucha quality standardization. ..
  42. Cope E, Goldberg A, Pletcher S, Lynch S. Compositionally and functionally distinct sinus microbiota in chronic rhinosinusitis patients have immunological and clinically divergent consequences. Microbiome. 2017;5:53 pubmed publisher
    ..We sought to address the hypothesis that a limited number of compositionally distinct pathogenic bacterial microbiota exist in CRS patients and invoke discrete immune responses and clinical phenotypes in CRS patients...
  43. Goulas T, Ksiazek M, Garcia Ferrer I, Sochaj Gregorczyk A, Waligorska I, Wasylewski M, et al. A structure-derived snap-trap mechanism of a multispecific serpin from the dysbiotic human oral microbiome. J Biol Chem. 2017;292:10883-10898 pubmed publisher
    ..This finding suggests that miropin was acquired from the host through horizontal gene transfer, perhaps facilitated by the long and intimate association of T. forsythia with the human gingiva. ..
  44. Wu S, Cao Z, Chang K, Juang J. Intestinal microbial dysbiosis aggravates the progression of Alzheimer's disease in Drosophila. Nat Commun. 2017;8:24 pubmed publisher
    ..However, inflammation in the brain is not always a response to local primary insults. Gut microbiota dysbiosis, which is recently emerging as a risk factor for psychiatric disorders, can also initiate a brain ..
  45. Scheiermann J, Klinman D. Three distinct pneumotypes characterize the microbiome of the lung in BALB/cJ mice. PLoS ONE. 2017;12:e0180561 pubmed publisher
  46. Zitvogel L, Pietrocola F, Kroemer G. Nutrition, inflammation and cancer. Nat Immunol. 2017;18:843-850 pubmed publisher
    ..We examine each of the connections that compose the triangle of nutrition, immunological and inflammatory reactions and cancer while focusing on the mechanistic aspects of these relationships. ..
  47. Khan M, Nieuwdorp M, Bäckhed F. Microbial modulation of insulin sensitivity. Cell Metab. 2014;20:753-760 pubmed publisher
    The gut microbiota has emerged as an integral factor that impacts host metabolism and has been suggested to play a vital role in metabolic diseases such as obesity, insulin resistance, type 2 diabetes, and cardiovascular disease...
  48. Ring H, Thorsen J, Saunte D, Lilje B, Bay L, Riis P, et al. The Follicular Skin Microbiome in Patients With Hidradenitis Suppurativa and Healthy Controls. JAMA Dermatol. 2017;153:897-905 pubmed publisher
    ..Insight into the cutaneous microbiome in HS using next-generation sequencing may provide novel data on the microbiological diversity of the skin...
  49. Witkowska Zimny M, Kaminska El Hassan E. Cells of human breast milk. Cell Mol Biol Lett. 2017;22:11 pubmed publisher
    ..This review summarizes the current state of knowledge of breast milk cells, including leukocytes, epithelial cells, stem cells and potentially probiotic bacteria. ..
  50. Lloyd Price J, Mahurkar A, Rahnavard G, Crabtree J, Orvis J, Hall A, et al. Strains, functions and dynamics in the expanded Human Microbiome Project. Nature. 2017;550:61-66 pubmed publisher
    ..This study furthers our knowledge of baseline human microbial diversity and enables an understanding of personalized microbiome function and dynamics...
  51. Hwang P. One of the ongoing challenges in the management of CRS is determining the optimal diagnostic method. Int Forum Allergy Rhinol. 2015;5:1-2 pubmed publisher
  52. Sonnenburg J. Microbiome engineering. Nature. 2015;518:S10 pubmed publisher
  53. Konkel L. Inflammatory Bowel Disease in Asia: A Second Chance at Uncovering Environmental Factors. Environ Health Perspect. 2016;124:A49-54 pubmed publisher
  54. Le D. Microbiome R&D and Business Collaboration Forum, April 11-12, 2016, London, UK. EBioMedicine. 2016;7:2-3 pubmed publisher
  55. Kostanjsek R, Vittori M, Srot V, van Aken P, Strus J. Polyphosphate-accumulating bacterial community colonizing the calcium bodies of terrestrial isopod crustaceans Titanethes albus and Hyloniscus riparius. FEMS Microbiol Ecol. 2017;93: pubmed publisher
    ..Although not fully understood, this unique symbiosis represents the first evidence of polyphosphate-accumulating bacterial symbionts in the tissue of a terrestrial animal. ..
  56. Elhady A, Giné A, Topalović O, Jacquiod S, Sørensen S, Sorribas F, et al. Microbiomes associated with infective stages of root-knot and lesion nematodes in soil. PLoS ONE. 2017;12:e0177145 pubmed publisher
    ..In conclusion, the highly specific attachment of microbes to infective stages of phytonematodes in soil suggested an ecological role of this association and might be involved in soil suppressiveness towards them. ..
  57. Villette P, Afonso E, Couval G, Levret A, Galan M, Tatard C, et al. Consequences of organ choice in describing bacterial pathogen assemblages in a rodent population. Epidemiol Infect. 2017;145:3070-3075 pubmed publisher
    ..Our results demonstrate that the number of organs sampled influences the ability to detect bacterial pathogens, which can inform sampling decisions in public health and wildlife ecology...
  58. Lenchi N, Inceoglu O, Kebbouche Gana S, Gana M, Llirós M, Servais P, et al. Diversity of Microbial Communities in Production and Injection Waters of Algerian Oilfields Revealed by 16S rRNA Gene Amplicon 454 Pyrosequencing. PLoS ONE. 2013;8:e66588 pubmed publisher
    ..Nevertheless, a large number of unclassified bacterial and archaeal sequences were found in the analyzed samples, indicating that subsurface waters in oilfields could harbor new and still-non-described microbial species. ..
  59. Biesbroek G, Wang X, Keijser B, Eijkemans R, Trzcinski K, Rots N, et al. Seven-valent pneumococcal conjugate vaccine and nasopharyngeal microbiota in healthy children. Emerg Infect Dis. 2014;20:201-10 pubmed publisher
    ..This study illustrates the much broader effect of vaccination with PCV-7 on the microbial community than currently assumed, and highlights the need for careful monitoring when implementing vaccines directed against common colonizers. ..
  60. Aagaard K. Author response to comment on "the placenta harbors a unique microbiome". Sci Transl Med. 2014;6:254lr3 pubmed publisher
  61. Jiang C, Xie C, Li F, Zhang L, Nichols R, Krausz K, et al. Intestinal farnesoid X receptor signaling promotes nonalcoholic fatty liver disease. J Clin Invest. 2015;125:386-402 pubmed publisher
    Nonalcoholic fatty liver disease (NAFLD) is a major worldwide health problem. Recent studies suggest that the gut microbiota influences NAFLD pathogenesis...
  62. Dai X, Tian Y, Li J, Luo Y, Liu D, Zheng H, et al. Metatranscriptomic analyses of plant cell wall polysaccharide degradation by microorganisms in the cow rumen. Appl Environ Microbiol. 2015;81:1375-86 pubmed
  63. Grogan D. The microbes within. Nature. 2015;518:S2 pubmed publisher
  64. Wadsworth W, Argiento R, Guindani M, Galloway Peña J, Shelburne S, Vannucci M. An integrative Bayesian Dirichlet-multinomial regression model for the analysis of taxonomic abundances in microbiome data. BMC Bioinformatics. 2017;18:94 pubmed publisher
    ..In the application to the data from the Human Microbiome Project, a close evaluation of the biological significance of our findings confirms existing associations in the literature. ..
  65. Balvociute M, Huson D. SILVA, RDP, Greengenes, NCBI and OTT - how do these taxonomies compare?. BMC Genomics. 2017;18:114 pubmed publisher
    ..While we find that SILVA, RDP and Greengenes map well into NCBI, and all four map well into the OTT, mapping the two larger taxonomies on to the smaller ones is problematic. ..
  66. Sandes S, Alvim L, Silva B, Acurcio L, Santos C, Campos M, et al. Selection of new lactic acid bacteria strains bearing probiotic features from mucosal microbiota of healthy calves: Looking for immunobiotics through in vitro and in vivo approaches for immunoprophylaxis applications. Microbiol Res. 2017;200:1-13 pubmed publisher
    From the birth, since their mucosal microbiota and immune system are not fully developed, newborn calves are susceptible to several mucosal pathogenic microorganisms...
  67. Jena P, Sheng L, Liu H, Kalanetra K, Mirsoian A, Murphy W, et al. Western Diet-Induced Dysbiosis in Farnesoid X Receptor Knockout Mice Causes Persistent Hepatic Inflammation after Antibiotic Treatment. Am J Pathol. 2017;187:1800-1813 pubmed publisher
    ..The current study analyzes the effect of diet through microbiota that affect hepatic inflammation in FXR knockout (KO) mice...
  68. Li Q, Wang C, Tang C, He Q, Zhao X, Li N, et al. Therapeutic modulation and reestablishment of the intestinal microbiota with fecal microbiota transplantation resolves sepsis and diarrhea in a patient. Am J Gastroenterol. 2014;109:1832-4 pubmed publisher
  69. Berg G, Köberl M, Rybakova D, Müller H, Grosch R, Smalla K. Plant microbial diversity is suggested as the key to future biocontrol and health trends. FEMS Microbiol Ecol. 2017;93: pubmed publisher
    ..The analysis of plant microbiome data has brought about a paradigm shift in our understanding of its role in health and disease and has substantial consequences for biocontrol and health issues. ..
  70. Hao L, Xia Z, Yang H, Wang J, Han M. Ionic liquid-based reagents improve the stability of midterm fecal sample storage. J Microbiol Methods. 2017;139:68-73 pubmed publisher
    ..used in metagenomic research, which aims to elucidate the relationship between human health and the intestinal microbiota. However, the best conditions for stable and reliable storage and transport of these samples at room temperature ..
  71. Older C, Diesel A, Patterson A, Meason Smith C, Johnson T, Mansell J, et al. The feline skin microbiota: The bacteria inhabiting the skin of healthy and allergic cats. PLoS ONE. 2017;12:e0178555 pubmed publisher
    ..An imbalance of these microorganisms is associated with disease, however, the causal relationship between skin microbiota and disease remains unknown...
  72. Kaysen A, Heintz Buschart A, Muller E, Narayanasamy S, Wampach L, Laczny C, et al. Integrated meta-omic analyses of the gastrointestinal tract microbiome in patients undergoing allogeneic hematopoietic stem cell transplantation. Transl Res. 2017;186:79-94.e1 pubmed publisher
    ..We therefore assert that such analyses including information about the selection of pathogenic bacteria expressing ARGs may assist clinicians in "personalizing" regimens for individual patients to improve overall outcomes. ..
  73. Lori M, Symnaczik S, Mäder P, De Deyn G, Gattinger A. Organic farming enhances soil microbial abundance and activity-A meta-analysis and meta-regression. PLoS ONE. 2017;12:e0180442 pubmed publisher
    ..In this concept an active soil microbiota plays an important role for various soil based ecosystem services such as nutrient cycling, erosion control and ..
  74. Wang W, Li Z, Lv Z, Zhang B, Lv H, Guo Y. Effects of Kluyveromyces marxianus supplementation on immune responses, intestinal structure and microbiota in broiler chickens. PLoS ONE. 2017;12:e0180884 pubmed publisher
    To investigate the effects of Kluyveromyces marxianus on immune responses, intestinal structure and microbiota in broilers, 840 1-d-old broiler chicks were randomly divided into seven groups (eight replicates) and were fed basal diets ..
  75. Nascimento B, Cartelle C, Noviello M, Pinheiro B, de Almeida Vitor R, Souza D, et al. Influence of indigenous microbiota on experimental toxoplasmosis in conventional and germ-free mice. Int J Exp Pathol. 2017;98:191-202 pubmed publisher
    ..Its agent, Toxoplasma gondii, causes a severe innate pro-inflammatory response. The indigenous intestinal microbiota promotes host animal homoeostasis and may protect the host against pathogens...
  76. Maley C, Aktipis A, Graham T, Sottoriva A, Boddy A, Janiszewska M, et al. Classifying the evolutionary and ecological features of neoplasms. Nat Rev Cancer. 2017;17:605-619 pubmed publisher
    ..The Evo- and Eco-indices provide a common lexicon for communicating about how neoplasms change in response to interventions, with potential implications for clinical trials, personalized medicine and basic cancer research. ..
  77. Salter S, Turner C, Watthanaworawit W, de Goffau M, Wagner J, Parkhill J, et al. A longitudinal study of the infant nasopharyngeal microbiota: The effects of age, illness and antibiotic use in a cohort of South East Asian children. PLoS Negl Trop Dis. 2017;11:e0005975 pubmed publisher
    ..The bacterial 16S rRNA gene profiles of 544 swabs from 21 infants were analysed to see how the microbiota changes with age, respiratory infection, antibiotic consumption and pneumococcal acquisition...
  78. Dickson R, Huang Y, Martinez F, Huffnagle G. The lung microbiome and viral-induced exacerbations of chronic obstructive pulmonary disease: new observations, novel approaches. Am J Respir Crit Care Med. 2013;188:1185-6 pubmed publisher
  79. Spence J. Effects of the intestinal microbiome on constituents of red meat and egg yolks: a new window opens on nutrition and cardiovascular disease. Can J Cardiol. 2014;30:150-1 pubmed publisher
  80. Mitra S, Förster Fromme K, Damms Machado A, Scheurenbrand T, Biskup S, Huson D, et al. Analysis of the intestinal microbiota using SOLiD 16S rRNA gene sequencing and SOLiD shotgun sequencing. BMC Genomics. 2013;14 Suppl 5:S16 pubmed publisher
    ..DNA was extracted and shotgun sequenced using SOLiD sequencing to study the composition of the intestinal microbiota and the existing microbial metabolism...
  81. Lima F, Oikonomou G, Lima S, Bicalho M, Ganda E, Filho J, et al. Prepartum and postpartum rumen fluid microbiomes: characterization and correlation with production traits in dairy cows. Appl Environ Microbiol. 2015;81:1327-37 pubmed
    ..In conclusion, the structure of the rumen fluid microbiome shifts between the prepartum and first-week postpartum periods, and its profile within the context of this study could be used to accurately predict production traits. ..
  82. Lucas R, Kuchenbuch A, Fetzer I, Harms H, Kleinsteuber S. Long-term monitoring reveals stable and remarkably similar microbial communities in parallel full-scale biogas reactors digesting energy crops. FEMS Microbiol Ecol. 2015;91: pubmed publisher
    ..Practical implications such as flexible operation schemes comprising controlled variations of process parameters for an efficient microbial resource management under fluctuating process conditions are discussed. ..
  83. Quigley E. Gut microbiome as a clinical tool in gastrointestinal disease management: are we there yet?. Nat Rev Gastroenterol Hepatol. 2017;14:315-320 pubmed publisher
    ..Ingenious experiments in animal models have revealed the extent to which the gut microbiota sustains health and how its disruption might contribute to disease pathogenesis...
  84. Sawahata M, Nakamura Y, Sugiyama Y. Appendectomy, tonsillectomy, and risk for sarcoidosis - A hospital-based case-control study in Japan. Respir Investig. 2017;55:196-202 pubmed publisher
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