The gut mycobiota of rural and urban individuals is shaped by geography

[1]  J. Sampaio,et al.  Yeast Diversity Associated with the Phylloplane of Corn Plants Cultivated in Thailand , 2020, Microorganisms.

[2]  D. Cavalieri,et al.  Longitudinal Survey of Fungi in the Human Gut: ITS Profiling, Phenotyping, and Colonization , 2019, Front. Microbiol..

[3]  H. Sokol,et al.  The gut mycobiota: insights into analysis, environmental interactions and role in gastrointestinal diseases , 2019, Nature Reviews Gastroenterology & Hepatology.

[4]  Francesco Asnicar,et al.  QIIME 2: Reproducible, interactive, scalable, and extensible microbiome data science , 2018 .

[5]  R. Gibbs,et al.  The gut mycobiome of the Human Microbiome Project healthy cohort , 2017, Microbiome.

[6]  G. Capurso,et al.  The interaction between smoking, alcohol and the gut microbiome. , 2017, Best practice & research. Clinical gastroenterology.

[7]  Jae Ha Lee,et al.  Comparison of World Health Organization and Asia-Pacific body mass index classifications in COPD patients , 2017, International journal of chronic obstructive pulmonary disease.

[8]  H. Hallen-Adams,et al.  Fungi in the healthy human gastrointestinal tract , 2017, Virulence.

[9]  L. Tang,et al.  Precipitation drives the biogeographic distribution of soil fungal community in Inner Mongolian temperate grasslands , 2017, Journal of Soils and Sediments.

[10]  S. Vermeire,et al.  Bacteriome and Mycobiome Interactions Underscore Microbial Dysbiosis in Familial Crohn’s Disease , 2016, mBio.

[11]  Patrick K. H. Lee,et al.  Skin fungal community and its correlation with bacterial community of urban Chinese individuals , 2016, Microbiome.

[12]  A. Levin,et al.  Neonatal gut microbiota associates with childhood multi–sensitized atopy and T–cell differentiation , 2016, Nature Medicine.

[13]  O. Jousson,et al.  Age and Gender Affect the Composition of Fungal Population of the Human Gastrointestinal Tract , 2016, Front. Microbiol..

[14]  O. Jousson,et al.  Altered gut microbiota in Rett syndrome , 2016, Microbiome.

[15]  D. Laukens,et al.  Chronic cigarette smoke exposure induces microbial and inflammatory shifts and mucin changes in the murine gut. , 2016, Environmental microbiology.

[16]  K. Zorena,et al.  Higher diversity in fungal species discriminates children with type 1 diabetes mellitus from healthy control , 2016, Patient preference and adherence.

[17]  H. Hallen-Adams,et al.  Sequence‐based methods for detecting and evaluating the human gut mycobiome , 2016, Letters in applied microbiology.

[18]  Hugues Aschard,et al.  Fungal microbiota dysbiosis in IBD , 2016, Gut.

[19]  D. Raoult,et al.  Repertory of eukaryotes (eukaryome) in the human gastrointestinal tract: taxonomy and detection methods , 2016, Parasite immunology.

[20]  E. Esteve,et al.  Obesity changes the human gut mycobiome , 2015, Scientific Reports.

[21]  Jaehyoung Kim,et al.  Fungi inhabiting the healthy human gastrointestinal tract: a diverse and dynamic community , 2015 .

[22]  D. Knights,et al.  Complementary Amplicon-Based Genomic Approaches for the Study of Fungal Communities in Humans , 2015, PloS one.

[23]  L. Delhaes,et al.  The lung mycobiome: an emerging field of the human respiratory microbiome , 2015, Front. Microbiol..

[24]  Knut Rudi,et al.  The composition of the gut microbiota throughout life, with an emphasis on early life , 2015, Microbial ecology in health and disease.

[25]  Yongfei Hu,et al.  Dysbiosis of Fungal Microbiota in the Intestinal Mucosa of Patients with Colorectal Adenomas , 2015, Scientific Reports.

[26]  Shusen Zheng,et al.  Application of metagenomics in the human gut microbiome. , 2015, World journal of gastroenterology.

[27]  R. Knight,et al.  Dietary effects on human gut microbiome diversity , 2014, British Journal of Nutrition.

[28]  D. Cavalieri,et al.  Richness and diversity of mammalian fungal communities shape innate and adaptive immunity in health and disease , 2014, European journal of immunology.

[29]  M. Netea,et al.  The bacteriome–mycobiome interaction and antifungal host defense , 2014, European journal of immunology.

[30]  G. Rogler,et al.  Smoking Cessation Alters Intestinal Microbiota: Insights from Quantitative Investigations on Human Fecal Samples Using FISH , 2014, Inflammatory bowel diseases.

[31]  J. Piškur,et al.  The wine and beer yeast Dekkera bruxellensis , 2014, Yeast.

[32]  C. Rosa,et al.  Hannaella pagnoccae sp. nov., a tremellaceous yeast species isolated from plants and soil. , 2014, International journal of systematic and evolutionary microbiology.

[33]  D. Underhill,et al.  The mycobiota: interactions between commensal fungi and the host immune system , 2014, Nature Reviews Immunology.

[34]  Linda D. Strausbaugh,et al.  Redefining the Human Oral Mycobiome with Improved Practices in Amplicon-based Taxonomy: Discovery of Malassezia as a Prominent Commensal , 2014, PloS one.

[35]  Patrick M. Gillevet,et al.  Oral Mycobiome Analysis of HIV-Infected Patients: Identification of Pichia as an Antagonist of Opportunistic Fungi , 2014, PLoS pathogens.

[36]  R Core Team,et al.  R: A language and environment for statistical computing. , 2014 .

[37]  D. Raoult,et al.  Gut microeukaryotes during anorexia nervosa: a case report , 2014, BMC Research Notes.

[38]  Marti J. Anderson,et al.  PERMANOVA, ANOSIM, and the Mantel test in the face of heterogeneous dispersions: What null hypothesis are you testing? , 2013 .

[39]  Pierre Legendre,et al.  Beta diversity as the variance of community data: dissimilarity coefficients and partitioning. , 2013, Ecology letters.

[40]  G. Huffnagle,et al.  The emerging world of the fungal microbiome. , 2013, Trends in microbiology.

[41]  Julia Oh,et al.  Topographic diversity of fungal and bacterial communities in human skin , 2013, Nature.

[42]  Hongzhe Li,et al.  Archaea and Fungi of the Human Gut Microbiome: Correlations with Diet and Bacterial Residents , 2013, PloS one.

[43]  M. Kostrzewa,et al.  Identification of Medically Relevant Species of Arthroconidial Yeasts by Use of Matrix-Assisted Laser Desorption Ionization–Time of Flight Mass Spectrometry , 2013, Journal of Clinical Microbiology.

[44]  Julia Oh,et al.  Human Skin Fungal Diversity , 2013, Nature.

[45]  Susan Holmes,et al.  phyloseq: An R Package for Reproducible Interactive Analysis and Graphics of Microbiome Census Data , 2013, PloS one.

[46]  D. Raoult,et al.  Plant and Fungal Diversity in Gut Microbiota as Revealed by Molecular and Culture Investigations , 2013, PloS one.

[47]  Ateequr Rehman,et al.  Smoking Cessation Induces Profound Changes in the Composition of the Intestinal Microbiota in Humans , 2013, PloS one.

[48]  M. Metsis,et al.  Characterization of the Vaginal Micro- and Mycobiome in Asymptomatic Reproductive-Age Estonian Women , 2013, PloS one.

[49]  Jonathan Friedman,et al.  Inferring Correlation Networks from Genomic Survey Data , 2012, PLoS Comput. Biol..

[50]  R. Calderone Candida and candidiasis. , 2012 .

[51]  S. Saint,et al.  Higher Rates of Clostridium difficile Infection among Smokers , 2012, PloS one.

[52]  D. Raoult,et al.  Molecular Detection of Eukaryotes in a Single Human Stool Sample from Senegal , 2012, PloS one.

[53]  M. Dubinsky,et al.  Interactions Between Commensal Fungi and the C-Type Lectin Receptor Dectin-1 Influence Colitis , 2012, Science.

[54]  J. Clemente,et al.  Human gut microbiome viewed across age and geography , 2012, Nature.

[55]  Mariana Henriques,et al.  Candida glabrata, Candida parapsilosis and Candida tropicalis: biology, epidemiology, pathogenicity and antifungal resistance. , 2012, FEMS microbiology reviews.

[56]  R. Calderone,et al.  Candida and Candidiasis, Second Edition , 2012 .

[57]  G. Moran,et al.  An introduction to the medically important Candida species , 2012 .

[58]  F. Bushman,et al.  Linking Long-Term Dietary Patterns with Gut Microbial Enterotypes , 2011, Science.

[59]  T. Sugita,et al.  Characterization of the skin fungal microbiota in patients with atopic dermatitis and in healthy subjects , 2011, Microbiology and immunology.

[60]  C. Huttenhower,et al.  Metagenomic biomarker discovery and explanation , 2011, Genome Biology.

[61]  Yoshifumi Yamamoto,et al.  Cigarette smoke decreases organic acids levels and population of bifidobacterium in the caecum of rats. , 2011, The Journal of toxicological sciences.

[62]  C. P. Kurtzman Hyphopichia von Arx & van der Walt (1976) , 2011 .

[63]  L. Romani Immunity to fungal infections , 2011, Nature Reviews Immunology.

[64]  M. Refai,et al.  Prevalence of Yeasts in Human, Animals and Soil Sample at El-Fayoum Governorate in Egypt , 2011 .

[65]  Robert C. Edgar,et al.  BIOINFORMATICS APPLICATIONS NOTE , 2001 .

[66]  B. Summerell,et al.  Biogeography and phylogeography of Fusarium: a review , 2010, Fungal Diversity.

[67]  R. Knight,et al.  Delivery mode shapes the acquisition and structure of the initial microbiota across multiple body habitats in newborns , 2010, Proceedings of the National Academy of Sciences.

[68]  Daniel J. Blankenberg,et al.  Galaxy: A Web‐Based Genome Analysis Tool for Experimentalists , 2010, Current protocols in molecular biology.

[69]  Patrick M. Gillevet,et al.  Characterization of the Oral Fungal Microbiome (Mycobiome) in Healthy Individuals , 2010, PLoS pathogens.

[70]  José A. Villaseñor Alva,et al.  A Generalization of Shapiro–Wilk's Test for Multivariate Normality , 2009 .

[71]  M. Jung,et al.  Bacterial, archaeal, and eukaryal diversity in the intestines of Korean people , 2008, The Journal of Microbiology.

[72]  W. Weichert,et al.  Fungi and inflammatory bowel diseases: Alterations of composition and diversity , 2008, Scandinavian journal of gastroenterology.

[73]  J. Vivanco,et al.  Use of the ITS primers, ITS1F and ITS4, to characterize fungal abundance and diversity in mixed-template samples by qPCR and length heterogeneity analysis. , 2007, Journal of microbiological methods.

[74]  J. Fell,et al.  Prevalence of yeasts in beach sand at three bathing beaches in South Florida. , 2007, Water research.

[75]  P. Legendre,et al.  vegan : Community Ecology Package. R package version 1.8-5 , 2007 .

[76]  Susan M. Huse,et al.  Microbial diversity in the deep sea and the underexplored “rare biosphere” , 2006, Proceedings of the National Academy of Sciences.

[77]  Robin Sen,et al.  UNITE: a database providing web-based methods for the molecular identification of ectomycorrhizal fungi. , 2005, The New phytologist.

[78]  W. Hammes,et al.  Identification and Population Dynamics of Yeasts in Sourdough Fermentation Processes by PCR-Denaturing Gradient Gel Electrophoresis , 2003, Applied and Environmental Microbiology.

[79]  Hilde van der Togt,et al.  Publisher's Note , 2003, J. Netw. Comput. Appl..

[80]  M. Deplano,et al.  Yeast populations in Sardinian feta cheese. , 2001, International journal of food microbiology.

[81]  Marti J. Anderson,et al.  A new method for non-parametric multivariate analysis of variance in ecology , 2001 .

[82]  P. Panigrahi,et al.  Stool microflora in extremely low birthweight infants , 1999, Archives of disease in childhood. Fetal and neonatal edition.

[83]  C. R. Rao,et al.  An Alternative to Correspondence Analysis Using Hellinger Distance. , 1997 .

[84]  Y. Benjamini,et al.  Controlling the false discovery rate: a practical and powerful approach to multiple testing , 1995 .

[85]  T. Bruns,et al.  ITS primers with enhanced specificity for basidiomycetes ‐ application to the identification of mycorrhizae and rusts , 1993, Molecular ecology.

[86]  T. White Amplification and direct sequencing of fungal ribosomal RNA genes for phylogenetics , 1990 .

[87]  Michaela Aschan,et al.  Analysis of community attributes of the benthic macrofauna of Frierfjord/Langesundfjord and in a mesocosm experiment , 1988 .

[88]  HighWire Press,et al.  Archives of disease in childhood. Fetal and neonatal edition , 1988 .

[89]  N. Breslow A generalized Kruskal-Wallis test for comparing K samples subject to unequal patterns of censorship , 1970 .

[90]  H. B. Mann,et al.  On a Test of Whether one of Two Random Variables is Stochastically Larger than the Other , 1947 .

[91]  F. Wilcoxon Individual Comparisons by Ranking Methods , 1945 .