September 23, 2018

In today’s microbiome digest there are several interesting papers under animal experiments using mice, drosophila, mosquito vector and Ixodes scapularis ticks microbiome. Other important studies include the sinus swabs microbiome from chronic rhinosinusitis patients, lymph node microbiome from Crohn’s disease, intestinal microbiome profiling in psoriasis patients and a review which highlight on several common pitfalls for clinicians analyzing and interpreting the microbiome data. Enjoy reading.

General microbiome

Mucin Degradation Niche as a Driver of Microbiome Composition and Akkermansia Muciniphila Abundance in a Dynamic Gut Model is Donor Independent – Van Herreweghen Florence – FEMS Microbiology Ecology 

The human mesenteric lymph node microbiome differentiates between Crohn’s disease and ulcerative colitis – Miranda G Kiernan – Journal of Crohn’s and Colitis 

Review: Microbial enterotypes in personalized nutrition and obesity management – Lars Christensen – The American Journal of Clinical Nutrition 

Nasal microbiome

Relative abundance of nasal microbiota in chronic rhinosinusitis by structured histopathology – Hannah N. Kuhar BA – International Forum of Allergy and Rhinology

Respiratory microbiome

Pulmonary Metagenomic Sequencing Suggests Missed Infections in Immunocompromised Children – M S Zinter – Clinical Infectious Diseases

Human gut microbiome

Review: Microbiome 101: Studying, Analyzing, and Interpreting Gut Microbiome Data for Clinicians – Celeste Allaband – Clinical Gastroenterology and Hepatology

Increased relative abundance of Klebsiella pneumoniaecarbapenemase-producing Klebsiella pneumoniae within the gut microbiota is associated with risk of bloodstream infection in long-term acute care hospital patients – Teppei Shimasaki – Clinical Infectious Diseases

Intestinal microorganisms involved in colorectal cancer complicated with dyslipidosis – Shuwen Han – Cancer Biology and Therapy

Intestinal microbiota profiling and predicted metabolic dysregulation in psoriasis patients – Yi‐Ju Chen – Experimental Dermatology

Effects of products designed to modulate the gut microbiota on hyperlipidaemia – Xilong Deng – European Journal of Nutrition

Review: Bacterial antagonism in host-associated microbial communitiesLeonor García-Bayona – Science 

Meconium microbiome associates with the development of neonatal jaundice – Tianyu Dong – Clinical and Translational Gastroenterology

Animal experiments

The effects of metabolic syndrome, obesity, and the gut microbiome on load-induced osteoarthritis – Guss JD – Osteoarthritis Cartilage

Microbial Quantity Impacts Drosophila Nutrition, Development, and Lifespan – Erin S.Keebaugh – iScience

Sex Differences in Pulmonary Responses to Ozone in Mice: Role of the Microbiome – Youngji Cho – American Journal of Respiratory Cell and Molecular Biology

Short-term impacts of anthropogenic stressors on Aedes albopictus mosquito vector microbiota – Morgane Guégan – FEMS Microbiology Ecology

Effects of temperature on bacterial microbiome composition in Ixodes scapularis ticks – Santosh Thapa – MicrobiologyOpen

Intestinal anti-inflammatory effect of the probiotic Saccharomyces boulardii in DSS-induced colitis in mice: Impact on microRNAs expression and gut microbiota composition – Alba Rodríguez-Nogalesa – The Journal of Nutritional Biochemistry


Sequence clustering in bioinformatics: an empirical study – Quan Zou – Briefings in Bioinformatics


Using non‐invasive metagenomics to characterize viral communities from wildlife – Laura M. Bergner – Molecular Ecology Resources

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