Stability and volatility shape the gut bacteriome and Kazachstania slooffiae dynamics in preweaning, nursery and adult pigs

Characterization of Kazachstania slooffiae, a Proposed Commensal in the Porcine Gut

(2021) Katie Lynn Summers et al.   Journal of Fungi

Time-course alterations of gut microbiota and short-chain fatty acids after short-term lincomycin exposure in young swine

(2021) Shanlong Tang et al.   APPLIED MICROBIOLOGY AND BIOTECHNOLOGY

Comparing bioinformatic pipelines for microbial 16S rRNA amplicon sequencing

(2020) Andrei Prodan et al.   PLoS One

Oral Administration of Flavonifractor plautii Strongly Suppresses Th2 Immune Responses in Mice

(2020) Tasuku Ogita et al.   Frontiers in Immunology

Bacterial communities associated to the urethra of healthy gilts and pregnant sows undergoing different reproductive protocols

(2020) Andrea Torres Luque et al.   JOURNAL OF ANIMAL SCIENCE

Complete Genome Sequencing and Transcriptome Analysis of Nitrogen Metabolism of Succinivibrio dextrinosolvens Strain Z6 Isolated From Dairy Cow Rumen

(2020) Samson Hailemariam et al.   Frontiers in Microbiology

Temporal Dynamics of the Gut Bacteriome and Mycobiome in the Weanling Pig

(2020) Ann M. Arfken et al.   Microorganisms

Health and disease markers correlate with gut microbiome composition across thousands of people

(2020) Ohad Manor et al.   Nature Communications

Differently Pre-treated Rapeseed Meals Affect in vitro Swine Gut Microbiota Composition

(2020) Cheng Long et al.   Frontiers in Microbiology

Alterations of Gut Microbiome and Metabolite Profiling in Mice Infected by Schistosoma japonicum

(2020) Yue Hu et al.   Frontiers in Immunology

Oral administration of Lactobacillus rhamnosus GG to newborn piglets augments gut barrier function in pre-weaning piglets

(2019) Yang Wang et al.   Journal of Zhejiang University-SCIENCE B

Age-based dynamic changes of phylogenetic composition and interaction networks of health pig gut microbiome feeding in a uniformed condition

(2019) Shanlin Ke et al.   BMC Veterinary Research

The Piglet Mycobiome During the Weaning Transition: A Pilot Study

(2019) Katie L Summers et al.   JOURNAL OF ANIMAL SCIENCE

Oral administration of a mixture of probiotics protects against food allergy via induction of CD103+ dendritic cells and modulates the intestinal microbiota

(2019) Jingyi Ma et al.   Journal of Functional Foods

The Impact of DNA Extraction Methods on Stool Bacterial and Fungal Microbiota Community Recovery

(2019) Kristýna Fiedorová et al.   Frontiers in Microbiology

Comparison of Bacterial Populations in the Ceca of Swine at Two Different Stages and their Functional Annotations

(2019) Kumar et al.   Genes

BOARD INVITED REVIEW: The pig microbiota and the potential for harnessing the power of the microbiome to improve growth and health1

(2019) Nirosh D Aluthge et al.   JOURNAL OF ANIMAL SCIENCE

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

(2019) Evan Bolyen et al.   NATURE BIOTECHNOLOGY

Evolutionary Implications of Anoxygenic Phototrophy in the Bacterial Phylum Candidatus Eremiobacterota (WPS-2)

(2019) Lewis M. Ward et al.   Frontiers in Microbiology

Longitudinal investigation of the swine gut microbiome from birth to market reveals stage and growth performance associated bacteria

(2019) Xiaofan Wang et al.   Microbiome

Porcine Feed Efficiency-Associated Intestinal Microbiota and Physiological Traits: Finding Consistent Cross-Locational Biomarkers for Residual Feed Intake

(2019) Ursula M. McCormack et al.   mSystems

Yeasts of Burden: Exploring the Mycobiome–Bacteriome of the Piglet GI Tract

(2019) Ann M. Arfken et al.   Frontiers in Microbiology

Cecal versus fecal microbiota in Ossabaw swine and implications for obesity

(2018) Matthew R. Panasevich et al.   PHYSIOLOGICAL GENOMICS

Fecal microbiota transplantation as a tool to treat and reduce susceptibility to disease in animals

(2018) Megan C. Niederwerder   VETERINARY IMMUNOLOGY AND IMMUNOPATHOLOGY

Gut microbiota: Role in pathogen colonization, immune responses, and inflammatory disease

(2017) Joseph M. Pickard et al.   IMMUNOLOGICAL REVIEWS

Evaluation of protein spectra cluster analysis for Streptococcus spp. identification from various swine clinical samples

(2017) Carlos E. C. Matajira et al.   JOURNAL OF VETERINARY DIAGNOSTIC INVESTIGATION

The Gastrointestinal Microbiome: A Review

(2017) P.C. Barko et al.   JOURNAL OF VETERINARY INTERNAL MEDICINE

Microbial Ecology along the Gastrointestinal Tract

(2017) Ethan T. Hillman et al.   MICROBES AND ENVIRONMENTS

Dysbiosis Signatures of Gut Microbiota Along the Sequence from Healthy, Young Patients to Those with Overweight and Obesity

(2017) Renyuan Gao et al.   Obesity

Ensembling Variable Selectors by Stability Selection for the Cox Model

(2017) Qing-Yan Yin et al.   Computational Intelligence and Neuroscience

Housing Systems Influence Gut Microbiota Composition of Sows but Not of Their Piglets

(2017) Tereza Kubasova et al.   PLoS One

DADA2: High-resolution sample inference from Illumina amplicon data

(2016) Benjamin J Callahan et al.   NATURE METHODS

The healthy human microbiome

(2016) Jason Lloyd-Price et al.   Genome Medicine

Analysis of swine fecal microbiota at various growth stages

(2015) Jungman Kim et al.   ARCHIVES OF MICROBIOLOGY

Longitudinal study of the early-life fecal and nasal microbiotas of the domestic pig

(2015) Mackenzie Jonathan Slifierz et al.   BMC MICROBIOLOGY

Development and Evaluation of qPCR Assay for Quantitation of Kazachstania slooffiae and Total Yeasts Occurring in the Porcine Gut

(2015) Vladimir Urubschurov et al.   CURRENT MICROBIOLOGY

Archaeal microbiota population in piglet feces shifts in response to weaning: Methanobrevibacter smithii is replaced with Methanobrevibacter boviskoreani

(2015) Sara Federici et al.   FEMS MICROBIOLOGY LETTERS

Dysbiosis gut microbiota associated with inflammation and impaired mucosal immune function in intestine of humans with non-alcoholic fatty liver disease

(2015) Weiwei Jiang et al.   Scientific Reports

Sparse and Compositionally Robust Inference of Microbial Ecological Networks

(2015) Zachary D. Kurtz et al.   PLoS Computational Biology

Straw- and slurry-associated prokaryotic communities differ during co-fermentation of straw and swine manure

(2014) Jiabao Li et al.   APPLIED MICROBIOLOGY AND BIOTECHNOLOGY

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

(2013) Pelin Yilmaz et al.   NUCLEIC ACIDS RESEARCH

SINA: Accurate high-throughput multiple sequence alignment of ribosomal RNA genes

(2012) Elmar Pruesse et al.   BIOINFORMATICS

Description of Alloprevotella rava gen. nov., sp. nov., isolated from the human oral cavity, and reclassification of Prevotella tannerae Moore et al. 1994 as Alloprevotella tannerae gen. nov., comb. nov.

(2012) J. Downes et al.   INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY

Human gut microbiome viewed across age and geography

(2012) Tanya Yatsunenko et al.   NATURE

Microbial interactions: from networks to models

(2012) Karoline Faust et al.   NATURE REVIEWS MICROBIOLOGY

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

(2012) Christian Quast et al.   NUCLEIC ACIDS RESEARCH

Establishment of intestinal microbiota with focus on yeasts of unweaned and weaned piglets kept under different farm conditions

(2011) Vladimir Urubschurov et al.   FEMS MICROBIOLOGY ECOLOGY

Evidence for the possible involvement of Selenomonas ruminantium in rumen fiber digestion

(2011) Suriya Sawanon et al.   FEMS MICROBIOLOGY LETTERS

Environmental and Gut Bacteroidetes: The Food Connection

(2011) François Thomas et al.   Frontiers in Microbiology

Probiotics – do they have a role in the pig industry?

(2010) M. Kenny et al.   Animal

Stability selection

(2010) Nicolai Meinshausen et al.   JOURNAL OF THE ROYAL STATISTICAL SOCIETY SERIES B-STATISTICAL METHODOLOGY

Global patterns of 16S rRNA diversity at a depth of millions of sequences per sample

(2010) J. G. Caporaso et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Impact of diet in shaping gut microbiota revealed by a comparative study in children from Europe and rural Africa

(2010) C. De Filippo et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Gastrointestinal microflora, food components and colon cancer prevention

(2009) Cindy D. Davis et al.   JOURNAL OF NUTRITIONAL BIOCHEMISTRY