February 19, 2019

Highlights: Microbial colonization in infants, prokaryotes of oxygen depleted water in Bay of Bengal, biodegradation of petroleum hydrocarbons, microbial communities across a range of saline soils, trait based approaches in wastewater treatment bioreactors to understand the changes in bacterial community composition. You can also read a handful of career based news in today’s non-microbe picks. 

General microbiome

Petroleum Microbiology Under Extreme Conditions – Oluwadara Oluwaseun Alegbeleye –Microbial Action on Hydrocarbons

Pregnancy and early life

Genome-resolved metagenomics of eukaryotic populations during early colonization of premature infants and in hospital rooms – Matthew R Olm – Microbiome

Review: Establishment of an ideal gut microbiota to boost healthy growth of neonates – Thi Thanh Binh Nguyen – Critical Reviews in Microbiology

Necrotizing Enterocolitis Pathophysiology: How Microbiome Data Alter Our Understanding – Christina S. Kim MD – Clinics in Perinatology

Human skin microbiome

Rapid discrimination of fungal strains isolated from human skin based on microbial volatile organic profiles – Joao Raul Belinato – Journal of Chromatography B

Human gut microbiome

A pilot study on clinicopathological features and intestinal microflora changes in colorectal cancer patients born over a nine-year period encompassing three years before and after the Great Chinese famine – Jiante Li – Cancer Epidemiology

Animal experiments 

Ameliorating gut microenvironment through staphylococcal nuclease-mediated intestinal NETs degradation for prevention of type 1 diabetes in NOD mice – Yixuan Liang – Life Sciences

Oral administration of antibiotics increased the potential mobility of bacterial resistance genes in the gut of the fish Piaractus mesopotamicus – Johan S. Sáenz – Microbiome

Animal microbiome 

Effects of a Saccharomyces cerevisiae fermentation product on fecal characteristics, nutrient digestibility, fecal fermentative end-products, fecal microbial populations, immune function, and diet palatability in adult dogs – Ching-Yen Lin – Journal of Animal Science

Bacterial community analysis for investigating bacterial transfer from tonsils to the pig carcass – Anne Mette Jakobsen – International Journal of Food Microbiology

Plant, root, and soil microbiome

Spatial distribution of prokaryotic communities in hypersaline soils – Blanca Vera-Gargallo – Scientific Reports

Comparative Genomics, Siderophore Production, and Iron Scavenging Potential of Root Zone Soil Bacteria Isolated from ‘Concord’ Grape Vineyards – Ricky W. Lewis – Microbial Ecology

Dynamics of soil microbial communities following vegetation succession in a karst mountain ecosystem, Southwest China – Chang Zhao – Scientific Reports

Diversity and Functionality of Culturable Endophytic Bacterial Communities in Chickpea Plants – Clarisse Brígido – MDPI

Robust archaeal and bacterial communities inhabit shallow subsurface sediments of the Bonneville Salt Flats – Julia M. McGonigle – bioRxiv

Impact of intercropping on the coupling between soil microbial community structure, activity, and nutrient-use efficiencies – Tengxiang Lian – PeerJ

Alteration of Crop Rotation in Continuous Pinellia ternate Cropping Soils Profiled via ITS Amplicon Sequencing – Zhigui He – Letters in Applied Microbiology

Assessment of the Diversity of Fungal Community Composition Associated With Vachellia pachyceras and Its Rhizosphere Soil From Kuwait Desert – Majda K. Suleiman – Frontiers in Microbiology

Water and extremophile microbiome 

Prokaryotic Diversity in Oxygen Depleted Waters of the Bay of Bengal Inferred Using Culture-Dependent and -Independent Methods – Genevieve L. Fernandes – Indian Journal of Microbiology

Enrichment of anaerobic heterotrophic thermophiles from four Azorean hot springs revealed different community composition and genera abundances using recalcitrant substrates – Marcel Suleiman – Extremophiles 

Microbial Consortia and Biodegradation of Petroleum Hydrocarbons in Marine Environments – J. Paniagua-Michel – Microbial Action on Hydrocarbons

Built environment 

Trait-based life-history strategies explain succession scenario for complex bacterial communities under varying disturbance – Ezequiel Santillan – bioRxiv

Non-Microbiology picks

To move research from quantity to quality, go beyond good intentions – Nature

How business-savvy scientists can find success in the risky start-up world – Nature

A disadvantaged background doesn’t have to be a barrier to success – Nature

Announcing the 2019 ScientistAtWork photo competition – Nature

Huge variations in US postdoc salaries point to undervalued workforce – Nature

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January 15, 2019

Highlights today include the organisms in the healthy infant intestinal microbiome that protect against food allergy, an algorithm to predict aging based on the gut microbiome, and how bacteria adapt to life on the International Space Station. Enjoy!

Pregnancy and early life
Healthy infants harbor intestinal bacteria that protect against food allergy – Taylor Feehley – Nature Medicine

Human gut microbiome
Preprint: Human microbiome aging clocks based on deep learning and tandem of permutation feature importance and accumulated local effects – Fedor Galkin – bioRxiv
(Covered in popular press as Your Gut Microbiome Could Actually Reveal Your Age, Study Shows)

Preprint: The virome in adult monozygotic twins with concordant or discordant gut microbiomes – J. Leonardo Moreno-Gallego – bioRxiv

Human nearly-sterile sites
Review: Microbiome–metabolome reveals the contribution of gut–kidney axis on kidney disease – Yuan-Yuan Chen – Journal of Translational Medicine

Animal experiments
Lactobacillus sakei Alleviates High-fat Diet-induced Obesity and Anxiety in Mice by Inducing AMPK Activation and SIRT1 Expression and Inhibiting Gut Microbiota-mediated NF-κB Activation – Hyo-Min Jang – Molecular Nutrition and Food Research

Aqueous raw and ripe Pu-erh tea extracts alleviate obesity and alter cecal microbiota composition and function in diet-induced obese rats – Yun Xia – Applied Microbiology and Biotechnology

Impact of intramammary inoculation of inactivated Lactobacillus rhamnosus and antibiotics on the milk microbiota of water buffalo with subclinical mastitis – Carlotta Catozzi – PLOS One

Plant, root, and soil microbiome
Superior dispersal ability can lead to persistent ecological dominance throughout succession – Primrose J. Boynton – Applied and Environmental Microbiology

Plant growth-promoting rhizobacterium Pseudomonas PS01 induces salt tolerance in Arabidopsis thaliana – Thanh Nguyen Chu – BMC Research Notes

Diversity analysis of the rhizospheric and endophytic bacterial communities of Senecio vulgaris L. (Asteraceae) in an invasive range – Dandan Cheng – PeerJ\

Antifungal potential of bacterial rhizosphere isolates associated with three ethno-medicinal plants (poppy, chamomile, and nettle) – Marija Mojicevic – International Microbiology

Analysis of uranium removal capacity of anaerobic granular sludge bacterial communities under different initial pH conditions – Taotao Zeng – Environmental Science and Pollution Research

Water and extremophile microbiomes
An interspecies malate–pyruvate shuttle reconciles redox imbalance in an anaerobic microbial community – Po-Hsiang Wang – The ISME Journal

Bacterial community assembly in a typical estuarine marsh with multiple environmental gradients – Zhiyuan Yao – Applied and Environmental Microbiology

Effects of salinity on microbialite-associated production in Great Salt Lake, Utah – Melody R. Lindsay – Ecology

Preprint: Capturing the Diversity of Subsurface Microbiota – Choice of Carbon Source for Microcosm Enrichment and Isolation of Groundwater Bacteria – Xiaoqin Wu – bioRxiv

Genetic Evidence for Two Carbon Fixation Pathways (the Calvin-Benson-Bassham Cycle and the Reverse Tricarboxylic Acid Cycle) in Symbiotic and Free-Living Bacteria – Maxim Rubin-Blum – mSphere

Techniques
Generation of 13C-labeled MUC5AC mucin oligosaccharides for stable isotope probing of host-associated microbial communities – Clayton Evert – ACS Infectious Diseases

Transomics data-driven, ensemble kinetic modeling for system-level understanding and engineering of the cyanobacteria central metabolism – Hiroki Nishiguchi – Metabolic Engineering

Built environment/Microbes in Space
Pangenomic Approach To Understanding Microbial Adaptations within a Model Built Environment, the International Space Station, Relative to Human Hosts and Soil – Ryan A. Blaustein – mSystems
(Covered in the popular press as Good news: space bacteria (probably) aren’t evolving to destroy us)

Science, publishing, and career
Preprint: Tracking the popularity and outcomes of all bioRxiv preprints – Richard J. Abdill – bioRxiv

January 7, 2019

Happy Monday! Today’s digest includes the influence of ant colonies on soil microbes, the assembly of prokaryotic communities in subtropical grasslands, and lactic acid bacteria isolated from sourdough. Have a great week!

Human gut microbiome

Review: The gut microbiome in anorexia nervosa: relevance for nutritional rehabilitation – Ruusunen – Psychopharmacology

Impact of early events and lifestyle on the gut microbiota and metabolic phenotypes in young school-age children – Zhong – Microbiome

Host immunoglobulin G selectively identifies pathobionts in pediatric inflammatory bowel diseases – Armstrong – Microbiome

Animal experiments

Preprint: The gut microbiota is associated with clearance of Clostridium difficile infection independent of adaptive immunity – Leslie – BioRxiv

Animal microbiome

Bioreactivity and Microbiome of Biodeposits from Filter-Feeding Bivalves – Murphy – Microbial Ecology

Modulation of broiler gut microbiota and gene expression of Toll-like receptors and tight junction proteins by diet type and inclusion of phytogenics – Paraskeuas – Poultry Science

Plant, root, and soil microbiome

Responses of soil aggregates and bacterial communities to soil-Pb immobilization induced by biofertilizer – Wang -Chemosphere

Moisture Is More Important than Temperature for Assembly of Both Potentially Active and Whole Prokaryotic Communities in Subtropical Grassland – Lupatini – Microbial Ecology

Ant colonies promote the diversity of soil microbial communities – Delgado-Baquerizo – ISME

Water and extemophile microbiome

Morphological response to salinity, temperature, and pH changes by marine fungus Epicoccum nigrum – Ahumada-Rudolph – Environmental Monitoring and Assessment

Thermoplasmatales and sulfur-oxidizing bacteria dominate the microbial community at the surface water of a CO2-rich hydrothermal spring located in Tenorio Volcano National Park, Costa Rica – Arce-Rodríguez – Extremophiles

Metagenomic, phylogenetic, and functional characterization of predominant endolithic green sulfur bacteria in the coral Isopora palifera – Yang – Microbiome

Water pollution and observation of acquired antibiotic resistance in Bayou Lafourche, a major drinking water source in Southeast Louisiana, USA – Bird – Environmental Science and Pollution Research

Metagenomic Analysis of Zinc Surface–Associated Marine Biofilms – Ding – Microbial Ecology

Evolutionary constraints on species diversity in marine bacterioplankton communities – Lu – ISME

Built environment

Wastewater treatment and microbial community dynamics in a sequencing batch reactor operating under photosynthetic aeration – Parakh – Chemosphere

Novel ecological insights and functional roles during anaerobic digestion of saccharides unveiled by genome-centric metagenomics – Zhu – Water Research

Food microbiology

Effect of in vitro digestion-fermentation on green and roasted coffee bioactivity: The role of the gut microbiota – Pérez-Burillo – Food Chemistry

In vitro and in vivo investigations of probiotic properties of lactic acid bacteria isolated from Chinese traditional sourdough – Li – Applied Microbiology and Biotechnology

Bacterial community dynamics and physical–chemical characteristics in natural fermentation of jiang‐shui, a traditional food made in Northwest China – Liu – Science of Food and Agriculture

Science, publishing, and career

Here’s what scientists searched for in 2018: AI is up, stress is down – Kelly Oakes – Nature News

December 14, 2018

The microbiota of chigger mites and praying mantids, the prevalence of thermophiles in domestic water heaters, the bacteria that colonize and degrade centuries-old art.

General microbiome

Migration alters oscillatory dynamics and promotes survival in connected bacterial populations – Shreyas Gokhale – Nature Communications

Pre-print: A probabilistic model to identify the core microbial community – Thiago Gumiere – bioRxiv

Human oral microbiome

Pre-print: Correlation between the oral microbiome and brain resting state connectivity in smokers – Dongdong Lin – bioRxiv

Animal experiments

Host-targeted niclosamide inhibits C. difficile virulence and prevents disease in mice without disrupting the gut microbiota – John Tam – Nature Communications

Impact of Bacillus spp. spores and gentamicin on the gastrointestinal microbiota of suckling and newly weaned piglets – Ann-Sofie Riis Poulsen – PLOS ONE

Animal microbiome

Bacterial microbiome of the chigger mite Leptotrombidium imphalum varies by life stage and infection with the scrub typhus pathogen Orientia tsutsugamushi – Loganathan Ponnusamy – PLOS ONE

The hindgut microbiota of praying mantids is highly variable and includes both prey-associated and host-specific microbes – Kara A Tinker – PLOS ONE

Plant, root, and soil microbiome

Belowground fungal community diversity and composition associated with Norway spruce along an altitudinal gradient – Max E. Schön – PLOS ONE

Treating wheat seeds with neonicotinoid insecticides does not harm the rhizosphere microbial community – Yaofa Li – PLOS ONE

Water and extremophile microbiome

Pre-print: An archaeal symbiont-host association from the deep terrestrial subsurface – Katrin Schwank – bioRxiv

Marine-Derived Fungi: Promising Candidates for Enhanced Bioremediation – Anjana K Vala – Approaches in Bioremediation

Built environment

Biogeography of thermophiles and predominance of Thermus scotoductus in domestic water heaters – Regina L Wilpiszeski – Extremophiles

Probiotics/prebiotics

Dopamine production in Enterococcus faecium: A microbial endocrinology-based mechanism for the selection of probiotics based on neurochemical-producing potential – Daniel Villageliú – PLOS ONE

Phages and viruses

A chemical defence against phage infection – Sarah Kronheim – Nature

Bioinformatics

Pre-print: Metagenome-wide measurement of protein synthesis in the human fecal microbiota using MetaRibo-Seq – Brayon J Fremin – bioRxiv

Pre-print: Large-scale analyses of human microbiomes reveal thousands of small, novel genes and their predicted functions – Hila Sberro – bioRxiv

Metabolomics

Rumen and plasma metabolomics profiling by UHPLC-QTOF/MS revealed metabolic alterations associated with a high-corn diet in beef steers – You Yang – PLOS ONE

More microbes

Pre-print: Real-time capture of horizontal gene transfers from gut microbiota by engineered CRISPR-Cas acquisition – Christian Munck – bioRxiv

Bacteria art

A detailed look at the microorganisms that colonize, and degrade, a 400-year-old painting – ScienceDaily

Inside SAIC’s Bio Art Lab, where art is life—literally – Paul Dailing – Chicago Reader

Across China: Medical students paint “Mona Lisa” with bacteria – Xinhua Net

Science, career, and publishing

Pre-print: Non-academic employability of life science PhDs: the importance of training beyond the bench – Sohyoung Her – bioRxiv

November 28, 2018

Influence of bacterial biofilms from vats on cheese characteristics, the fecal virome of wild ducks, variation in fungal diversity associated with olive trees.

Pregnancy and early life

Review: Strategies for the Preservation, Restoration and Modulation of the Human Milk Microbiota. Implications for Human Milk Banks and Neonatal Intensive Care Units – Leónides Fernández – Frontiers in Microbiology

Human vaginal microbiome

Vaginal microbiome in pregnant women according to trimester and its association with preterm birth: critical appraisal of a cross-sectional study – Dimitrios Papoutsis – Obstetrics & Gynecology Science

Human gut microbiome

Microbial-Host Interactions in Inflammatory Bowel Disease, Functional Bowel Disease, Obesity and Obesity-Related Metabolic Disease – Shailja C Shah – Gastroenterology

Animal experiments

Bioactive Food Abates Metabolic and Synaptic Alterations by Modulation of Gut Microbiota in a Mouse Model of Alzheimer’s Disease – Tauqeerunnisa Syeda – Journal of Alzheimer’s Disease

Extract of the Microalga Nitzschia laevis Prevents High-Fat-Diet Induced Obesity in Mice by Modulating the Composition of Gut Microbiota – Bingbing Guo

Effects of Taste Signaling Protein Abolishment on Gut Inflammation in an Inflammatory Bowel Disease Mouse Model – Ya-Wen Du – Journal of Visualized Experiments

Animal microbiome

Use of next generation sequencing to investigate the microbiota of experimentally induced wounds and the effect of bandaging in horses – Louis J Kamus – PLOS ONE

Plant, root, and soil microbiome

The chirality of imazethapyr herbicide selectively affects the bacterial community in soybean field soil – Hao Wu – Environmental Science and Pollution Research

Genome‐Wide Association studies on the phyllosphere microbiome: embracing complexity in host‐microbe interactions – Kathleen Beilsmith – The Plant Journal

Invasive plants differentially affect soil biota through litter and rhizosphere pathways: a meta‐analysis – Pei Zhang – Ecology Letters

Analysis of the community composition and bacterial diversity of the rhizosphere microbiome across different plant taxa – Shaonan Lei – MicrobiologyOpen

Spatial and temporal variation of fungal endophytic richness and diversity associated to the phyllosphere of olive cultivars – Patrick Materatski – Fungal Biology

Water and extremophile microbiome

Pre-print: Metagenomic Insights Unveil the Dominance of Undescribed Actinobacteria in Pond Ecosystem of an Indian Shrine – Radhakrishnan Manikkam – bioRxiv

Built environment

A procedure for identifying chemical and biological risks for books in historic libraries based on microclimate analysis – Eva Schito – Journal of Cultural Heritage

Food microbiology

Influence of the early bacterial biofilms developed on vats made with seven wood types on PDO Vastedda della valle del Belìce cheese characteristics – Raimondo Gaglio – International Journal of Food Microbiology

Probiotics/prebiotics

Microbial consortia: promising probiotics as plant biostimulants for sustainable agriculture – Sheridan L Woo – Frontiers in Plant Science

Phages and viruses

Fecal virome composition of migratory wild duck species – Luis Alfonso Ramírez-Martínez – PLOS ONE

November 16, 2018

Happy Friday! Today’s digest includes the effects of chewing gum on the oral microbiome, the gill microbiome of mangrove shipworms, and the rumen microbiome of dairy cows. Enjoy!

Human oral microbiome

Effects of xylitol-containing chewing gum on the oral microbiota – Takeuchi – Journal of Oral Science

Human gut microbiome

Gut microbiome transition across a lifestyle gradient in Himalaya – Jha – PLoS Biology

Fecal chromogranins and secretogranins are linked to the fecal and mucosal intestinal bacterial composition of IBS patients and healthy subjects – Sundin – Scientific Reports

Animal experiments

Specific Members of the Gut Microbiota are Reliable Biomarkers of Irradiation Intensity and Lethality in Large Animal Models of Human Health – Carbonero – Radiation Research

Gut microbiota development in mice is affected by hydrogen peroxide produced from amino acid metabolism during lactation – Shigeno – FASEB Journal

Commensal bacteria contribute to insulin resistance in aging by activating innate B1a cells – Bodogai – Science Translational Medicine

Estrogen-mediated gut microbiome alterations influence sexual dimorphism in metabolic syndrome in mice – Kaliannan – Microbiome

Effects of Intraoperative Vagal Nerve Stimulation on the Gastrointestinal Microbiome in a Mouse Model of Amyotrophic Lateral Sclerosis – Haney – Comparative Medicine

Animal microbiome

Assessing the Microbiota of Black Soldier Fly Larvae (Hermetia illucens) Reared on Organic Waste Streams on Four Different Locations at Laboratory and Large Scale – Wynants – Microbial Ecology

The gill-associated microbiome is the main source of wood plant polysaccharide hydrolases and secondary metabolite gene clusters in the mangrove shipworm Neoteredo reynei – Brito – PLoS One

Illumina sequencing analysis of the ruminal microbiota in high-yield and low-yield lactating dairy cows – Tong – PLoS One

Plant, root, and soil microbiome

Rootstocks shape the rhizobiome: Rhizosphere and endosphere bacterial communities in the grafted tomato system – Poudel – Applied and Environmental Microbiology

Water and extremophile microbiome

Aquatic ecotoxicity of an antidepressant, sertraline hydrochloride, on microbial communities – Yang – Science of The Total Environment

Probing the ecological and evolutionary history of a thermophilic cyanobacterial population via statistical properties of its microdiversity – Rosen – PLoS One

Built environment

Activated sludge bacterial communities of typical wastewater treatment plants: distinct genera identification and metabolic potential differential analysis – Zhang – AMB Express

Analysis of bacteria stress responses to contaminants derived from shale energy extraction – Santos – Environmental Science: Processes & Impacts

Probiotics/prebiotics

Gut microbiota of preterm infants supplemented with probiotics: sub-study of the ProPrems trial – Plummer – BMC Microbiology

November 13, 2018

Today’s Digest features several soil and environmental microbiome papers, including the effect of fire on soil ecosystems, insights into the freshwater microbiome associated with the world’s largest mining disaster, applications of soils in forensics, and chemical leaching from LCD screens due to synergistic bacteria. Plus, check out some animal work in marine invertebrates (Sea stars and Ascidians) as well as minks, flying squirrels, and bees!

Pregnancy and early life
The profile of human milk metabolome, cytokines and antibodies in inflammatory bowel diseases versus healthy mothers and potential impact on the newborn – Xuanyi Meng -Journal of Crohn’s and Colitis

Human multi-site microbiome
Shared gut, but distinct oral microbiota composition in primary Sjögren’s syndrome and systemic lupus erythematosus – Taco A. van der Meulen – Journal of Autoimmunity

Urine Bacteria-Derived Extracellular Vesicles and Allergic Airway Diseases in Children – Mona Samra – International Archives of Allergy and Immunology

Review: Repertoire of bacterial species cultured from the human oral cavity and respiratory tract – Maxime DM Fonkou – Future Microbiology

Gut-brain axis
Schizophrenia and gut-flora related epigenetic factors – Chuanjun Zhuo – Progress in Neuro-Psychopharmacology and Biological Psychiatry

The structure of resilience in irritable bowel syndrome and its improvement through hypnotherapy: Cross-sectional and prospective longitudinal data – Johannes Peter – PLOS One

Fermented foods, the gut and mental health: a mechanistic overview with implications for depression and anxiety – Hajara Aslam – Nutritional Neuroscience

Chronic alcohol exposure induced gut microbiota dysbiosis and its correlations with neuropsychic behaviors and brain BDNF/Gabra1 changes in mice – Zheng Xu – Biofactors

Microbial treatment: the potential application for Parkinson’s disease – Xin Fang – Neurological Sciences

Multiple Sclerosis-Associated Changes in the Composition and Immune Functions of Spore-Forming Bacteria. – Egle Cekanaviciute – mSystems

Human gut microbiome
The effect of drinking water pH on the human gut microbiota and glucose regulation: results of a randomized controlled cross-over intervention – Tue H. Hansen – Scientific Reports

Composition of gut microbiota and its association with body mass index and lifestyle factors in a cohort of 7–18 years old children from the American Gut Project – Jinbing Bai – Pediatric Obesity

Long-term impact of oral vancomycin, ciprofloxacin and metronidazole on the gut microbiota in healthy humans. – Bastiaan W Haak – Journal of Antimicrobial Chemotherapy

Helicobacter pylori Infection: New Facts in Clinical Management. – Peter Malfertheiner – Current Treatment Options in Gastroenterology

Animal experiments
The protective effects of fecal microbiota transplantation in an experimental model of necrotizing enterocolitis – Christian Prado – Journal of Pediatric Surgery

Intestinal Snakeskin Limits Microbial Dysbiosis during Aging and Promotes Longevity – Anna M. Salazar – iScience

Animal microbiome
Microbiome shifts with onset and progression of Sea Star Wasting Disease revealed through time course sampling – Melanie M. Lloyd – Scientific Reports

Core and Dynamic Microbial Communities of Two Invasive Ascidians: Can Host–Symbiont Dynamics Plasticity Affect Invasion Capacity?– Hila Dror – Microbial Ecology

Fecal bacterial microbiota of Canadian commercial mink (Neovison vison): Yearly, life stage, and seasonal comparisons – Nicole R. Compo – PLOS One

Variations in Gut Microbiota of Siberian Flying Squirrels Correspond to Seasonal Phenological Changes in Their Hokkaido Subarctic Forest Ecosystem – Po-Yu Liu – Microbial Ecology

Influence of Feeding Type and Nosema ceranae Infection on the Gut Microbiota of Apis cerana Workers – Shao K. Huang – mSystems

Host selectively contributes to shaping intestinal microbiota of carnivorous and omnivorous fish – Kristian Daly – The Journal of General and Applied Microbiology

Plant, root, and soil microbiome
Fire modulates ecosystem functioning through the phylogenetic structure of soil bacterial communities – Eduardo Pérez-Valera – Soil Biology and Biochemistry

Assessment of soil microbial communities involved in cellulose utilization at two contrasting Alpine forest sites – José A. Siles – Soil Biology and Biochemistry

Experimental Testing of Dispersal Limitation in Soil Bacterial Communities with a Propagule Addition Approach – Fen-Guo Zhang – Microbial Ecology

Influence of different biological control agents and compost on total and nitrification driven microbial communities at rhizosphere and soil level in a lettuce – Fusarium oxysporum f. sp. lactucae pathosystem – Maria Alexandra Cucu – Journal of Applied Microbiology

Assessment of 16S rRNA gene primers for studying bacterial community structure and function of aging flue-cured tobaccos. – Fan Wang – AMB Express

Changes in bacterial diversity and catabolic gene abundance during the removal of dimethylphenol isomers in laboratory-scale constructed wetlands. – Mónica A. Vásquez Piñeros – Applied Microbiology and Biotechnology

Abiotic factors determine functional outcomes of microbial inoculation of soils from a metal contaminated brownfield – Jay Prakash Singh – Ecotoxicology and Environmental Safety

Applying microbial biogeography in soil forensics – Habteab Habtom – Forensic Science International: Genetics

eDNA metabarcoding supporting community assessment of environmental stressor in a field-based sediment microcosm study – Jianghua Yang – Environmental Science and Technology

Water and extremophile microbiome
Analysis of the diversity of aerobic, thermophilic endospore-forming bacteria in two Algerian hot springs using cultural and non-cultural methods – Mohamed Amine Gomri – Annals of Microbiology

Anaerobic biological treatment of industrial saline wastewater: Fixed bed Reactor performance and analysis of the microbial community structure and abundance – Mariem Jeddi – Environmental Technology

Microbiome triggered transformations of trace organic chemicals in the presence of effluent organic matter in managed aquifer recharge (MAR) systems – Karin Hellauer – Environmental Science and Technology

Insights on the freshwater microbiomes metabolic changes associated with the world’s largest mining disaster – Marcelle C. Cordeiro – Science of the Total Environment

Microbial Functional Responses to Cholesterol Catabolism in Denitrifying Sludge – Sean Ting-Shyang Wei – mSystems

Built environment
Leaching of indium from end-of-life LCD panels via catalysis by synergistic microbial communities – Yaling Xie – Science of the Total Environment

Probiotics/Prebiotics
Probiotic and synbiotic therapy in the critically ill: State of the art – James M. Davison – Nutrition

Butyrate Producers as Potential Next-Generation Probiotics: Safety Assessment of the Administration of Butyricicoccus pullicaecorum to Healthy Volunteers. – Leen Boesmans – mSystems

Divergent short-chain fatty acid production and succession of colonic microbiota arise in fermentation of variously-sized wheat bran fractions – Yunus E. Tuncil – Scientific Reports

Bioinformatics
Machine Learning Reveals Missing Edges and Putative Interaction Mechanisms in Microbial Ecosystem Networks – Demetrius DiMucci – mSystems

Techniques
A tridecaptin-based fluorescent probe for differential staining of Gram-negative bacteria. – Wei Wang – Analytical and Bioanalytical Chemistry

High-Throughput Miniaturized 16S rRNA Amplicon Library Preparation Reduces Costs while Preserving Microbiome Integrity – Jeremiah J. Minich – mSystems

Book Chapter: Activity-Based Protein Profiling—Enabling Multimodal Functional Studies of Microbial Communities – Christopher Whidbey – Current Topics in Microbiology and Immunology