February 26, 2019

Today’s Digest features a discovery of an intestinal archaea inversely associated with asthma, a tracking of surviving bacteria after FMT using 16s and a report on a bat species as a reservoir for antibiotic resistant determinants. Enjoy reading!

General microbiology

Sequence and cultivation study of Muribaculaceae reveals novel species, host preference, and functional potential of this yet undescribed family – Ilias Lagkouvardos et al. – Microbiome

Description of Janibacter massiliensis sp. nov., cultured from the vaginal discharge of a patient with bacterial vaginosis – Mossaab Maaloum et al. – Antonie van Leeuwenhoek

Preprint: Emergence of stable coexistence in a complex microbial community through metabolic cooperation and spatio-temporal niche partitioning – Sonja Blasche et al. – bioRxiv

Human oral microbiome

Streptococcus Salivarius: A Potential Salivary Biomarker for Orofacial Granulomatosis and Crohn’s Disease? – Rishi M Goel et al. – Inflammatory Bowel Diseases

Human respiratory microbiome

Changes in microbiome diversity following beta-lactam antibiotic treatment are associated with therapeutic versus subtherapeutic antibiotic exposure in cystic fibrosis – Andrea Hahn et al. – Scientific Reports

Human gut microbiome

** Intestinal archaea inversely associated with childhood asthma – David J.M. Barnett et al. – The Journal of Allergy and Clinical Immunology

Alterations in intestinal microbiota of colorectal cancer patients receiving radical surgery combined with adjuvant CapeOx therapy – Cheng Kong et al. – Science China Life Sciences

Immunity, microbiota and kidney disease – Felix Knauf et al. – Nature Reviews Nephrology

The human gut Firmicute Roseburia intestinalis is a primary degrader of dietary β-mannans – Sabina Leanti La Rosa et al. – Nature Communications

** Bacterial viability in faecal transplants: Which bacteria survive? – Lito E. Papanicolas et al. – EBioMedicine

Increased risk of chronic fatigue syndrome in patients with inflammatory bowel disease: a population-based retrospective cohort study – Shin-Yi Tsai et al. – Journal of Translational Medicine

Preprint: Necrotizing enterocolitis is preceded by increased gut bacterial replication, Klebsiella, and fimbriae-encoding bacteria that may stimulate TLR4 receptors – Matthew R Olm et al. – bioRxiv

Human gut-microbiome-brain axis

Review: Microbes and Monoamines: Potential Neuropsychiatric Consequences of Dysbiosis – Stephen D. Skolnick & Nigel H. Greig – Trends in Neurosciences


Targeted metabolomics for the quantitative measurement of 9 gut microbiota–host co-metabolites in rat serum, urine and feces by liquid chromatography–tandem mass spectrometry – Yifeng Zeng et al. – Journal of Chromatography B

Untargeted Metabolomics and Inflammatory Markers Profiling in Children With Crohn’s Disease and Ulcerative Colitis—A Preliminary Study – Urszula Daniluk et al. – Inflammatory Bowel Diseases

Animal experiments

Effects of a Saccharomyces cerevisiae fermentation product on liver abscesses, fecal microbiome, and resistome in feedlot cattle raised without antibiotics – Katherine L. Huebner et al. – Scientific Reports

Mouse: Altered Gut Microbiota Activate and Expand Insulin B15-23-Reactive CD8+ T-Cells – James A. Pearson et al. – Diabetes

Xiaoyaosan improves depressive-like behavior in rats with chronic immobilization stress through modulation of the gut microbiota – Hui-Zheng Zhu et al. – Biomedicine & Pharmacotherapy
Animal microbiome

In-feed resin acids reduce matrix metalloproteinase activity in the ileal mucosa of healthy broilers without inducing major effects on the gut microbiota – Marisol Aguirre et al. – Veterinary Research

** Bats as reservoirs of antibiotic resistance determinants: A survey of class 1 integrons in Grey-headed Flying Foxes (Pteropus poliocephalus) – Fiona McDougall et al. – Infection, Genetics and Evolution

Plant, root and soil microbiome

Structural and functional responses of microbial community with respect to salinity levels in a coastal reclamation land – Kiyoon Kim et al. – Applied Soil Ecology

Biosolids and Tillage Practices Influence Soil Bacterial Communities in Dryland Wheat – Daniel C. Schlatter et al. – Microbial Ecology

Metabolic regulation of the maize rhizobiome by benzoxazinoids – T. E. Anne Cotton et al. – The ISME Journal

Above and belowground community strategies respond to different global change drivers – Karen L. Adair et al. – Scientific Reports

Utilization of actinobacteria to enhance the production and quality of date palm (Phoenix dactylifera L.) fruits in a semi-arid environment – Hamada AbdElgawad et al. – Science of The Total Environment

Protura are unique: first evidence of specialized feeding on ectomycorrhizal fungi in soil invertebrates – Sarah L. Bluhm et al. – BMC Ecology

Rotations with Indian Mustard and Wild Rocket Suppressed Cucumber Fusarium Wilt Disease and Changed Rhizosphere Bacterial Communities – Xue Jin et al. – Microorganisms

Water and extremophile microbiome

Change in the microbial community of saline geothermal fluids amended with a scaling inhibitor: effects of heat extraction and nitrate dosage – Anke Westphal et al. – Extremophiles

Genomic and metatranscriptomic analyses of carbon remineralization in an Antarctic polynya – So-Jeong Kim & Jong-Geol Kim et al. – Microbiome

Preprint: Extreme niche partitioning promotes a remarkably high diversity of soil microbiomes across eastern Antarctica – Eden Zhang et al. – bioRxiv

Phages and viruses

Viral metagenomics revealed novel betatorquevirus species in pediatric inpatients with encephalitis/meningoencephalitis from Ghana – Daniel Eibach et al. – Scientific Reports

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