Genetic hypogonadal mouse model reveals niche-specific influence of reproductive axis and sex on intestinal microbial communities

High-fat diet and estrogen modulate the gut microbiota in a sex-dependent manner in mice

(2023) Linnea Hases et al.   Communications Biology

coda4microbiome: compositional data analysis for microbiome cross-sectional and longitudinal studies

(2023) M. Luz Calle et al.   BMC BIOINFORMATICS

Profiling the human intestinal environment under physiological conditions

(2023) Dari Shalon et al.   NATURE

Host innate and adaptive immunity shapes the gut microbiota biogeography

(2022) Min Gu et al.   MICROBIOLOGY AND IMMUNOLOGY

Characterizing the mucin-degrading capacity of the human gut microbiota

(2022) Janiece S. Glover et al.   Scientific Reports

Menopause Is Associated with an Altered Gut Microbiome and Estrobolome, with Implications for Adverse Cardiometabolic Risk in the Hispanic Community Health Study/Study of Latinos

(2022) Brandilyn A. Peters et al.   mSystems

The Hepatoprotective and Hepatotoxic Roles of Sex and Sex-Related Hormones

(2022) Linlin Xu et al.   Frontiers in Immunology

Role of dietary fiber in the recovery of the human gut microbiome and its metabolome

(2021) Ceylan Tanes et al.   Cell Host & Microbe

Sexual Dimorphism in Innate Immunity: The Role of Sex Hormones and Epigenetics

(2021) Rebecca Shepherd et al.   Frontiers in Immunology

The regional diversity of gut microbiome along the GI tract of male C57BL/6 mice

(2021) Enkhchimeg Lkhagva et al.   BMC MICROBIOLOGY

Spatial analysis of gut microbiome reveals a distinct ecological niche associated with the mucus layer

(2021) Kellyanne Duncan et al.   Gut Microbes

Mucosa‐associated cultivable aerobic gut bacterial microbiota among colorectal cancer patients attending at the referral hospitals of Amhara Regional State, Ethiopia

(2021) Yesuf Adem Siraj et al.   Gut Pathogens

Sex steroids receptors, hypertension, and vascular ageing

(2021) Paul J. Connelly et al.   JOURNAL OF HUMAN HYPERTENSION

Influence of Age, Sex, and Diet on the Human Fecal Metabolome Investigated by 1H NMR Spectroscopy

(2021) Mengni Cui et al.   JOURNAL OF PROTEOME RESEARCH

Identification of mucin degraders of the human gut microbiota

(2021) Stefano Raimondi et al.   Scientific Reports

The Role of Gut Microbial β-Glucuronidase in Estrogen Reactivation and Breast Cancer

(2021) Yue Sui et al.   Frontiers in Cell and Developmental Biology

Sex differences feed into nuclear receptor signaling along the digestive tract

(2021) Angela E. Dean et al.   BIOCHIMICA ET BIOPHYSICA ACTA-MOLECULAR BASIS OF DISEASE

Sexual dimorphism in glucose metabolism is shaped by androgen-driven gut microbiome

(2021) Aibo Gao et al.   Nature Communications

Gut microbiota develop towards an adult profile in a sex-specific manner during puberty

(2021) Katri Korpela et al.   Scientific Reports

Hormone Replacement Therapy Reverses Gut Microbiome and Serum Metabolome Alterations in Premature Ovarian Insufficiency

(2021) Lingling Jiang et al.   Frontiers in Endocrinology

Directional Gaussian Mixture Models of the Gut Microbiome Elucidate Microbial Spatial Structure

(2021) Amey P. Pasarkar et al.   mSystems

The Differences between Luminal Microbiota and Mucosal Microbiota in Mice

(2020) Minna Wu et al.   JOURNAL OF MICROBIOLOGY AND BIOTECHNOLOGY

The microbiome modulating activity of bile acids

(2020) Yuan Tian et al.   Gut Microbes

A quantitative sequencing framework for absolute abundance measurements of mucosal and lumenal microbial communities

(2020) Jacob T. Barlow et al.   Nature Communications

Meta-SourceTracker: application of Bayesian source tracking to shotgun metagenomics

(2020) Jordan J. McGhee et al.   PeerJ

The Controversial Role of Human Gut Lachnospiraceae

(2020) Mirco Vacca et al.   Microorganisms

Intestinal estrogen receptor beta suppresses colon inflammation and tumorigenesis in both sexes

(2020) Linnea Hases et al.   CANCER LETTERS

Personalized Mapping of Drug Metabolism by the Human Gut Microbiome

(2020) Bahar Javdan et al.   CELL

Biogeography of microbial bile acid transformations along the murine gut

(2020) Solenne Marion et al.   JOURNAL OF LIPID RESEARCH

Sexual dimorphism of gut microbiota at different pubertal status

(2020) Xin Yuan et al.   Microbial Cell Factories

Gut Bacteria Shape Intestinal Microhabitats Occupied by the Fungus Candida albicans

(2020) Marie-Therese Eckstein et al.   CURRENT BIOLOGY

Rational design of a microbial consortium of mucosal sugar utilizers reduces Clostridiodes difficile colonization

(2020) Fátima C. Pereira et al.   Nature Communications

Gut microbiota steroid sexual dimorphism and its impact on gonadal steroids: influences of obesity and menopausal status

(2020) Jordi Mayneris-Perxachs et al.   Microbiome

Hypothalamo-Pituitary axis and puberty

(2020) Matteo Spaziani et al.   MOLECULAR AND CELLULAR ENDOCRINOLOGY

Highly multiplexed spatial mapping of microbial communities

(2020) Hao Shi et al.   NATURE

Four Core Genotypes and XY* mouse models: Update on impact on SABV research

(2020) Arthur P. Arnold   NEUROSCIENCE AND BIOBEHAVIORAL REVIEWS

Plasmids encode niche-specific traits in Lactobacillaceae

(2020) Dimple Davray et al.   Microbial Genomics

Taxonomic profiling and populational patterns of bacterial bile salt hydrolase (BSH) genes based on worldwide human gut microbiome

(2019) Ziwei Song et al.   Microbiome

Sequence and cultivation study of Muribaculaceae reveals novel species, host preference, and functional potential of this yet undescribed family

(2019) Ilias Lagkouvardos et al.   Microbiome

Does the human placenta delivered at term have a microbiota? Results of cultivation, quantitative real-time PCR, 16S rRNA gene sequencing, and metagenomics

(2019) Kevin R. Theis et al.   AMERICAN JOURNAL OF OBSTETRICS AND GYNECOLOGY

The pros, cons, and many unknowns of probiotics

(2019) Jotham Suez et al.   NATURE MEDICINE

Age- and Sex-Dependent Patterns of Gut Microbial Diversity in Human Adults

(2019) Jacobo de la Cuesta-Zuluaga et al.   mSystems

Changes in the gut microbiome and fermentation products concurrent with enhanced longevity in acarbose-treated mice

(2019) Byron J Smith et al.   BMC MICROBIOLOGY

Spatial metagenomic characterization of microbial biogeography in the gut

(2019) Ravi U. Sheth et al.   NATURE BIOTECHNOLOGY

Reproducible, interactive, scalable and extensible microbiome data science using QIIME 2

(2019) Evan Bolyen et al.   NATURE BIOTECHNOLOGY

The role of sex and sex Hormones in Neurodegenerative Diseases

(2019) Elisabetta Vegeto et al.   ENDOCRINE REVIEWS

The gut microbiota is a major regulator of androgen metabolism in intestinal contents

(2019) Hannah Colldén et al.   AMERICAN JOURNAL OF PHYSIOLOGY-ENDOCRINOLOGY AND METABOLISM

Integrating the underlying structure of stochasticity into community ecology

(2019) Lauren G. Shoemaker et al.   ECOLOGY

Comparison of the fecal, cecal, and mucus microbiome in male and female mice after TNBS-induced colitis

(2019) Ariangela J. Kozik et al.   PLoS One

Diversification of host bile acids by members of the gut microbiota

(2019) Jenessa A. Winston et al.   Gut Microbes

Understanding sequencing data as compositions: an outlook and review

(2018) Thomas P Quinn et al.   BIOINFORMATICS

Habitat complexity effects on diversity and abundance differ with latitude: an experimental study over 20 degrees

(2018) Sally A Bracewell et al.   ECOLOGY

Sex differences in NSAID-induced perturbation of human intestinal barrier function and microbiota

(2018) Shoko Edogawa et al.   FASEB JOURNAL

Differences in gut microbiota associated with age, sex, and stool consistency in healthy Japanese subjects

(2018) Tomohisa Takagi et al.   JOURNAL OF GASTROENTEROLOGY

Influence of gender and menopausal status on gut microbiota

(2018) Jose A. Santos-Marcos et al.   MATURITAS

Body Mass Index Differences in the Gut Microbiota Are Gender Specific

(2018) Xuefeng Gao et al.   Frontiers in Microbiology

Body Mass Index and Sex Affect Diverse Microbial Niches within the Gut

(2018) Francesca Borgo et al.   Frontiers in Microbiology

Sex and strain dependent differences in mucosal immunology and microbiota composition in mice

(2018) Marlies Elderman et al.   Biology of Sex Differences

Optimizing taxonomic classification of marker-gene amplicon sequences with QIIME 2’s q2-feature-classifier plugin

(2018) Nicholas A. Bokulich et al.   Microbiome

Balances: a New Perspective for Microbiome Analysis

(2018) J. Rivera-Pinto et al.   mSystems

Sex differences in lipid metabolism are affected by presence of the gut microbiota

(2018) Annemarie Baars et al.   Scientific Reports

Segmented Filamentous Bacteria – Metabolism Meets Immunity

(2018) Grant A. Hedblom et al.   Frontiers in Microbiology

Forest vertical complexity affects alpha and beta diversity of small mammals

(2018) Nícholas Ferreira de Camargo et al.   JOURNAL OF MAMMALOGY

Identification and removal of contaminating microbial DNA from PCR reagents: impact on low‐biomass microbiome analyses

(2018) L.F. Stinson et al.   LETTERS IN APPLIED MICROBIOLOGY

Fight them or feed them: how the intestinal mucus layer manages the gut microbiota

(2018) Bjoern O Schroeder   Gastroenterology Report

Glucuronides in the gut: Sugar-driven symbioses between microbe and host

(2017) Samuel J. Pellock et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Difference in the Gut Microbiome between Ovariectomy-Induced Obesity and Diet-Induced Obesity

(2017) Sungmi Choi et al.   JOURNAL OF MICROBIOLOGY AND BIOTECHNOLOGY

Contrasting effects of habitat complexity and connectivity on biodiversity in seagrass meadows

(2017) Christopher J. Henderson et al.   MARINE BIOLOGY

The evolution of the host microbiome as an ecosystem on a leash

(2017) Kevin R. Foster et al.   NATURE

An Atlas of β-Glucuronidases in the Human Intestinal Microbiome

(2017) Rebecca M. Pollet et al.   STRUCTURE

Gender-based differences in host behavior and gut microbiota composition in response to high fat diet and stress in a mouse model

(2017) Laura C. Bridgewater et al.   Scientific Reports

Regulation of Bone Metabolism by Sex Steroids

(2017) Sundeep Khosla et al.   Cold Spring Harbor Perspectives in Medicine

Microbiome Datasets Are Compositional: And This Is Not Optional

(2017) Gregory B. Gloor et al.   Frontiers in Microbiology

The Impact of Gut Microbiota on Gender-Specific Differences in Immunity

(2017) Floris Fransen et al.   Frontiers in Immunology

DADA2: High-resolution sample inference from Illumina amplicon data

(2016) Benjamin J Callahan et al.   NATURE METHODS

Population-level analysis of gut microbiome variation

(2016) Gwen Falony et al.   SCIENCE

Age-Related Changes of Plasma Bile Acid Concentrations in Healthy Adults—Results from the Cross-Sectional KarMeN Study

(2016) Lara Frommherz et al.   PLoS One

Spatial Heterogeneity of Gut Microbial Composition along the Gastrointestinal Tract in Natural Populations of House Mice

(2016) Taichi A. Suzuki et al.   PLoS One

Castration influences intestinal microflora and induces abdominal obesity in high-fat diet-fed mice

(2016) Naoki Harada et al.   Scientific Reports

Lack of Vitamin D Receptor Causes Dysbiosis and Changes the Functions of the Murine Intestinal Microbiome

(2015) Dapeng Jin et al.   CLINICAL THERAPEUTICS

Gut biogeography of the bacterial microbiota

(2015) Gregory P. Donaldson et al.   NATURE REVIEWS MICROBIOLOGY

The outer mucus layer hosts a distinct intestinal microbial niche

(2015) Hai Li et al.   Nature Communications

Structure and function of the healthy pre-adolescent pediatric gut microbiome

(2015) Emily B. Hollister et al.   Microbiome

Sex, Body Mass Index, and Dietary Fiber Intake Influence the Human Gut Microbiome

(2015) Christine Dominianni et al.   PLoS One

Regulation of the gut microbiota by the mucosal immune system in mice

(2014) M. Hasegawa et al.   INTERNATIONAL IMMUNOLOGY

Dynamics and associations of microbial community types across the human body

(2014) Tao Ding et al.   NATURE

Gender Bias in Autoimmunity Is Influenced by Microbiota

(2013) Leonid Yurkovetskiy et al.   IMMUNITY

Spatial heterogeneity and co-occurrence patterns of human mucosal-associated intestinal microbiota

(2013) Zhigang Zhang et al.   ISME Journal

MAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability

(2013) K. Katoh et al.   MOLECULAR BIOLOGY AND EVOLUTION

The SILVA and “All-species Living Tree Project (LTP)” taxonomic frameworks

(2013) Pelin Yilmaz et al.   NUCLEIC ACIDS RESEARCH

Bacterial Community Mapping of the Mouse Gastrointestinal Tract

(2013) Shenghua Gu et al.   PLoS One

Sex Differences in the Gut Microbiome Drive Hormone-Dependent Regulation of Autoimmunity

(2013) J. G. M. Markle et al.   SCIENCE

Updated assessment of the prevalence, spectrum and case definition of autoimmune disease

(2012) Scott M. Hayter et al.   AUTOIMMUNITY REVIEWS

Butyrate-producing Clostridium cluster XIVa species specifically colonize mucins in an in vitro gut model

(2012) Pieter Van den Abbeele et al.   ISME Journal

The human small intestinal microbiota is driven by rapid uptake and conversion of simple carbohydrates

(2012) Erwin G Zoetendal et al.   ISME Journal

Ultra-high-throughput microbial community analysis on the Illumina HiSeq and MiSeq platforms

(2012) J Gregory Caporaso et al.   ISME Journal

Human gut microbiome viewed across age and geography

(2012) Tanya Yatsunenko et al.   NATURE

The SILVA ribosomal RNA gene database project: improved data processing and web-based tools

(2012) Christian Quast et al.   NUCLEIC ACIDS RESEARCH

Mouse Background Strain Profoundly Influences Paneth Cell Function and Intestinal Microbial Composition

(2012) Ajay S. Gulati et al.   PLoS One

A Crypt-Specific Core Microbiota Resides in the Mouse Colon

(2012) T. Pedron et al.   mBio

Lipoprotein distribution and serum concentrations of 7α-hydroxy-4-cholesten-3-one and bile acids: effects of monogenic disturbances in high-density lipoprotein metabolism

(2011) Carine Steiner et al.   CLINICAL SCIENCE

Bayesian community-wide culture-independent microbial source tracking

(2011) Dan Knights et al.   NATURE METHODS

Paneth cells, antimicrobial peptides and maintenance of intestinal homeostasis

(2011) Charles L. Bevins et al.   NATURE REVIEWS MICROBIOLOGY

The genetics of sex differences in brain and behavior

(2010) Tuck C. Ngun et al.   FRONTIERS IN NEUROENDOCRINOLOGY

UniFrac: an effective distance metric for microbial community comparison

(2010) Catherine Lozupone et al.   ISME Journal

Spatial organization of intestinal microbiota in the mouse ascending colon

(2010) Gerardo M Nava et al.   ISME Journal

Molecular analysis of faecal and duodenal samples reveals significantly higher prevalence and numbers of Pseudomonas aeruginosa in irritable bowel syndrome

(2010) A. P. M. Kerckhoffs et al.   JOURNAL OF MEDICAL MICROBIOLOGY

Regional Mucosa-Associated Microbiota Determine Physiological Expression of TLR2 and TLR4 in Murine Colon

(2010) Yunwei Wang et al.   PLoS One

A metagenomic  -glucuronidase uncovers a core adaptive function of the human intestinal microbiome

(2010) K. Gloux et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

FastTree: Computing Large Minimum Evolution Trees with Profiles instead of a Distance Matrix

(2009) M. N. Price et al.   MOLECULAR BIOLOGY AND EVOLUTION

Analysis of bacterial diversity in the canine duodenum, jejunum, ileum, and colon by comparative 16S rRNA gene analysis

(2008) Jan S. Suchodolski et al.   FEMS MICROBIOLOGY ECOLOGY

Symbiotic gut microbes modulate human metabolic phenotypes

(2008) M. Li et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Measurements of rat and mouse gastrointestinal pH, fluid and lymphoid tissue, and implications for in-vivo experiments

(2007) Emma L. McConnell et al.   JOURNAL OF PHARMACY AND PHARMACOLOGY