Today’s digest has quite a few papers in the human oral and gut microbiome with many interesting papers as the one from addressing positive aspects of various diets on gut microbiota and its fight with parasites. In ‘Water microbiome’ you can take a look at Raquel S. Peixoto’s paper and beneficial microbes maintaining coral health, while in ‘Microbes in News’ you can read how team from Korea is tackling one of medicine’s most pressing problems – antibiotic resistance by using bacteria to fight bacteria.
General microbiome
Reduced microbial diversity in adult survivors of childhood acute lymphoblastic leukemia and microbial associations with increased immune activation – Ling Ling Chua -Microbiome
Pregnancy and early life
Manipulating the baby biome: What are the issues? – Lai-yang Lee – Australian and New Zealand Journal of Obstetrics and Gynaecology (ANZJOG)
Ex vivo infection of human placental chorionic villi explants with Trypanosoma cruzi and Toxoplasma gondii induces different Toll-like receptor expression and cytokine/chemokine profiles – Christian Castillo – American Journal of Reproductive Immunology (AJRI)
First foods and gut microbes – Martin F. Laursen – Frontiers in Microbiology
Reproductive microbiomes a new thread in the microbial network – Michael L. Power – Reproductive Sciences
Identical bacterial populations colonize premature infant gut, skin, and oral microbiomes and exhibit different in situ growth rates – Matthew R Olm – Genome Research
Human Oral
Differential responses of human dendritic cells to metabolites from the oral/airway microbiome – K. Whiteson – Clinical & Experimental Immunology
Candida albicans alters the bacterial microbiome of early in vitro oral biofilms – M. M. Janus – Journal of Oral Microbiology
Probiotic Lactobacillus reuteri has antifungal effects on oral Candida species in vitro – Mette Rose Jørgensen – Journal of Oral Microbiology
Porphyromonas gingivalis is the most abundant species detected in coronary and femoral arteries – J-L. C. Mougeot – Journal of Oral Microbiology
Oral microbiome in HIV-associated periodontitis – Noguera-Julian – Medicine
Quorum sensing of Streptococcus mutans is activated by Aggregatibacter actinomycetemcomitans and by the periodontal microbiome – Szymon P. Szafrański – BMC Genomics
Subgingival microbiota dysbiosis in systemic lupus erythematosus: association with periodontal status – Jôice Dias Corrêa – Microbiome
Human nearly-sterile sites
Alterations in gastric microbiota after H. Pylori eradication and in different histological stages of gastric carcinogenesis – Tung Hiu Li – Scientific Reports
Human gut microbiome
Oral iron supplementation: Potential implications for the gut microbiome and metabolome in patients with CKD – Guus A. M. Kortman – Hemodialysis International
Hugonella massiliensis gen. nov., sp. nov., genome sequence, and description of a new strictly anaerobic bacterium isolated from the human gut – Ziena Elsawi – Microbiology Open
Gut microbiota: Neonatal gut microbiota induces lung immunity against pneumonia – Sabrina Tamburini – Nature Reviews Gastroenterology & Hepatology
*Review: Blastocystis: how do specific diets and human gut microbiota affect its development and pathogenicity? – M. Lepczyńska – European Journal of Clinical Microbiology & Infectious Diseases
Dysbiosis and compositional alterations with aging in the gut microbiota of patients with heart failure – Takehiro Kamo – PLOS One
Complex pectin metabolism by gut bacteria reveals novel catalytic functions – Didier Ndeh – Nature
Proteobacteria explain significant functional variability in the human gut microbiome – Patrick H. Bradley – Microbiome
Animal experiments
Rice- or pork-based diets with similar calorie and content result in different rat gut microbiota – Xiaozhe Qi – International Journal of Food Sciences and Nutrition
Perturbation of microbiota in one-day old broiler chickens with antibiotic for 24 hours negatively affects intestinal immune development – Dirkjan Schokker – BMC Genomics
Effects of dietary administration of Shewanella xiamenensis A-1, Aeromonas veronii A-7, and Bacillus subtilis, single or combined, on the Grass Carp (Ctenopharyngodon idella) intestinal microbiota – Kai Hao – Probiotics and Antimicrobial Proteins
Plant, root, and soil microbiome
Pseudomonas sesami sp. nov., a plant growth-promoting Gammaproteobacteria isolated from the rhizosphere of Sesamum indicum L. – Munusamy Madhaiyan – Antonie van Leeuwenhoek
The influence of environmental factors on communities of arbuscular mycorrhizal fungi associated with Chenopodium ambrosioides revealed by MiSeq sequencing investigation – Xihui Xu -Sceintific Reports
Compositional stability of the bacterial community in a climate-sensitive sub-Arctic peatland – James T. Weedon – Frontiers in Microbiology
Antibiotic and heavy metal tolerance of some indigenous bacteria isolated from petroleum contaminated soil sediments with a study – Jai Godheja – International Journal of Current Microbiology and Applied Science (IJCMAS)
Water and extremophile microbiome
Genome reduction and microbe-host interactions drive adaptation of a sulfur-oxidizing bacterium associated with a cold seep sponge – Ren-Mao Tian – mSystems
Impact of hypoxia on gene expression patterns by the human pathogen, Vibrio vulnificus, and bacterial community composition in a North Carolina estuary – Britney L. Phippen – Geohealth
Distribution of anaerobic carbon monoxide dehydrogenase genes in deep subseafloor sediments – T. Hoshino – Letters in Applied Microbiology
Phytoplankton species richness, evenness, and production in relation to nutrient availability and imbalance – Sirpa Lehtinen – Limnology and Oceanography
Metagenomic and culture-dependent analysis of the bacterial diversity of a hot spring reservoir as a function of the seasonal variation – B. A. Kikani – International Journal of Environmental Research
Beneficial microorganisms for corals (BMC): Proposed mechanisms for coral health and resilience – Raquel S. Peixoto – Frontiers in Microbiology
High-throughput amplicon sequencing and stream benthic bacteria: identifying the best taxonomic level for multiple-stressor research – R. K. Salis – Scientific Reports
Highlighting of quorum sensing lux genes and their expression in the hydrothermal vent shrimp Rimicaris exoculata ectosymbiontic community. Possible use as biogeographic markers – Simon Le Bloa – PLOS One
Molecular insights on dissolved organic matter transformation by supraglacial microbial communities – Runa Antony – Environmental Science & Technology
An alternative polysaccharide uptake mechanism of marine bacteria – Greta Reintjes – ISME Journal
Viable cold-tolerant iron-reducing microorganisms in geographically diverse subglacial environments – Sophie L. Nixon – Biogeosciences
Different bacterial communities involved in peptide decomposition between normoxic and hypoxic coastal waters – Shuting Liu – Frontiers in Microbiology
Temperature- and size-scaling of phytoplankton population growth rates: Reconciling the Eppley curve and the metabolic theory of ecology – Colin T. Kremer – Limnology and Oceanography
Contrasting patterns of diversity of abundant and rare bacterioplankton in freshwater lakes along an elevation gradient – Huabing Li – Limnology and Oceanography
Built environment
Short-term effects of great cormorant droppings on water quality and microbial community of an artificial agricultural reservoir – Il Han – Journal of Environmental Quality
Probiotics / prebiotics
Review: Gut microbiota and bacterial translocation in digestive surgery: the impact of probiotics – Shunichiro Komatsu – Langenbeck’s Archives of Surgery
Techniques
MinION™ nanopore sequencing of environmental metagenomes: a synthetic approach – Bonnie L. Brown – Gigascience
Microbes in the news
Diabetes patients can lower blood sugar through gut bacteria; fecal microbes found to have curative properties – The Science Times
Predatory bacteria as a new ‘living’ antibiotic -Phys Org
Achievements of the human microbiome project – News Medical Life Sciences
Warning: current ecological microbiome may be on the verge of disaster due to antibiotics – Nature World News
Microbiome Digest - Bik's Picks 