April 28 ,2026

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Plant microbiome

What do we know about the seed microbiome? – Xiangning Qi – microbiome

Human gut microbiome

Porphyromonas gingivalis induces intestinal inflammation through gingipain-dependent gut microbiome dysbiosis – Ming Li – microbiome

Tryptophan metabolism mediated by the gut microbiota inhibits pyroptosis via the AhR signaling pathway to maintain intestinal epithelial homeostasis Mengqi Liu – microbiome

Marine microbiome

Coral color morphs exhibit distinct microbial and proteomic profiles linked to stress and immune mechanisms in a changing ocean – Nathalia Delgadillo-Ordoñez – microbiome

Environmental microbiome

Microbial decomposer diversity and metabolic function during the decomposition of brine shrimp carcasses in a saline lake – Bao-Zhu Fang – microbiome

April 17,2026

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See you next week at MVIF!

#MVIF 48 starts next week! Free registration: cassyni.com/s/mvif-48⭐️ Highlights:🇺🇸 Rachel R. Rock🇺🇸 @pamferretti.bsky.social ⭐️ Keynote:🇦🇺 @pam-engelberts.bsky.social and @jamesvolmer.bsky.social ⭐️ Talks: 🇨🇳 Linxing Chen🇨🇳 Zhemin Zhou🇦🇺 Hoai-An Nguyen

— Microbiome Virtual International Forum (@microbiomevif.bsky.social) 2026-04-13T11:02:11.436Z


Gut microbiome

Associations of the gut microbiome and cardiometabolic risk in adolescence: the HOME study – Jennifer L. Arzu – BMC Medical Genomics 

Insect Gut Microbiota as a Reservoir of Industrially Relevant Enzymes: A Comprehensive Review – Aswin Viswan – Microbial Ecology

Respiratory Microbiome

The commensal microbiome in respiratory tract tumors: From oncogenic mechanisms to clinical translation – Jiale Yu – Journal of Advanced Research

Bacteria of the lung microbiome and health biomarkers in chronic airway disease: a systematic review and meta-analysis – Lucia Grassi – npj Biofilms Microbiomes

Animal Microbiome

Multi-omics revealed the effects of rumen to blood path on early lactation performance in transition dairy cows – Guangfu Tang – Microbiome

Spiroplasma Display an Intricate Continuum of Infection Heterogeneity and Persistence in Myrmica Ants – Diego Castillo Franco – Molecular Ecology

Oral Microbiome

Loss of salivary agglutinin induces changes in the salivary microbiome and accelerates development of oral cancer – Marcell Costa de Medeiros – Microbiome

Water Microbiome

Ecological water replenishment reshapes the river microbiome along an urban-rural gradient: Enhanced diversity but compromised stability – Hongyuan Tian – Journal of Hydrology: Regional Studies

Soil Microbiome

Reduced legacy precipitation decreases microbial community growth efficiency and alters soil organic carbon in a California grassland – Linnea K. Hernandez – Microbiome

Impact of microbial consortia and fertilization regimes on the soil microbiome in maize field trials – Nils Kleinbölting – Scientific Reports

Plant Microbiome

Phenotypic resistance profiles and resistome variations between endophytic and epiphytic bacteria in apple fruits – Denis Kiplimo – Environmental Microbiome

Plant spatial compartmentalization buffers bacteriome structure and function under antibiotic stress – Caryn Kgokonyane Lenonyane – Scientific Reports

Bioinformatics

Pangenome-based design of strain-specific primers enables precise monitoring of bacteria in human microbiome intervention trials – Tom Eilers – Scientific Reports

Predicted meta-omics: A potential solution to multi-omics data scarcity in microbiome studies – Bianca-Maria Cosma – PLOS One

Genomic characterization of Comamonas kerstersii isolated from diarrheal patients in Bangladesh – Noshin Ibnat Rib – PLOS One

I had the joy of giving a kindergarten workshop: “Bacteria in and around us!” 🦠✨To spark their imagination and start our discussion, I showed them the beautiful @contamclub.bsky.social 2026 calendar, full of vividly colored and uniquely shaped bacterial colonies.1/3

— Svetlana Ugarcina Perovic (@svetlanaup.bsky.social) 2026-04-16T10:46:01.481Z

March 31,2026

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Human Microbiome

The interplay between Peptostreptococcus and Fusobacterium as novel signatures in colorectal cancer recurrence – Yunhui Zhang – microbime

Dysbiosis of the nasal microbiome is associated with prospective acute exacerbation of COPD – Cristian Roca – microbiome

Water–vapor treatment of shower systems in healthcare facilities: reshaping built-environment microbiomes to improve Legionella control and protect at-risk patients – Tian You – microbiome

Animal Microbiome

Limosilactobacillus reuteri enhances production performance and ovarian function via modulation of the gut-ovary axis in laying hens – Yanchao Geng – microbiome

Heat stress suppresses lactation through potential rumen-mammary communication mediated by extracellular vesicles: integrated analysis of microbiome, metabolome, and miRNA profiles – Qi Huang – microbiome

Characterization of age-related changes in the gut microbiome and metabolome of Kunming dogs and their associations with police performance – Le Xu – microbiome

plant microbiome

Differential contributions of an antimicrobial effector from Verticillium dahliae to virulence and tomato microbiota assembly across natural soils – Wilko Punt – microbiome

Environmental & Data Microbiome

Microbiome Datahub: an open-access platform integrating environmental metadata, taxonomy, and functional annotation for comprehensive metagenome-assembled genome datasets – Hiroshi Mori – mi9crobiome

March 20, 2026

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See you next week at MVIF!

See you next week at #MVIF 47! Heads up ⏰ due to daylight saving time, start times shift by 1 hour in some regions:1 hour earlier for Atlantic, 1 hour later for Pacific!

— Microbiome Virtual International Forum (@microbiomevif.bsky.social) 2026-03-16T09:09:52.170Z

Gut microbiome

Gut microbiota modulation via repeated donor fecal transplantation improves motor and gastrointestinal symptoms in drug-naïve Parkinson’s disease: a randomized phase 2 trial – Rui Zhang – Signal Transduction and Targeted Therapy 

Clinical Review: Advances in the pathophysiology, diagnosis, and management of celiac disease – John B Doyle – BMJ

Circulating gut microbial metabolites and risk of coronary heart disease: A prospective multi-stage metabolomics study – Yulu Zheng – Plos Medicine

Nasal microbiome

Composition and dynamics of the adult nasal microbiome – Cindy M. Liu – Microbiome

Respiratory tract microbiome

Mass azithromycin distribution and antibiotic resistance in the gut and nasopharynx: a cluster-randomized trial – Thuy Doan – Nature Medicine 

Animal microbiome

Microbial communities associated with two populations of the sponge Chondrilla nucula under present and projected climate conditions in the Aegean Sea – Gioti Anastasia – ARPHA Preprints

Comparative analysis of stress markers, metabolic health, and gut microbiota in healthy and disabled dogs in long-term shelters in Thailand – Adul Saengthong – Plos One

Priority effects drive strain-level community composition of honeybee gut microbiota – Aiswarya Prasad – The ISME Journal

Animal experiments

Estropausal gut microbiota transplant improves measures of ovarian function in adult mice – Minhoo Kim – Nature Aging 

Plant, root, soil microbiome

Breeding effects on the root-associated microbiome of Zea mays L. are linked to plant-induced variation in soil water potentials – Nicolas Tyborski – ISME Communications

🤩 Now out in @isme-microbes.bsky.social Comms!#NicolasTyborski and our wonderful #Rhizotraits team unravel how old landraces and modern varieties of maize distinctly modulate their #rhizosphere #microbiomes under drought via soil water potentials!🌽🥵🦠Thanks to #BayCEER #Rhizo4Bio #bmftr_bund

— Tillmann Lueders (@luederslab.bsky.social) 2026-03-19T14:42:21.506Z

Food microbiome

Leveraging publicly available datasets and machine learning approaches for predicting the health benefits of fermented foods – Elizabeth A. McDaniel – bioRxiv

Bioinformatics

MATRIX: Rapid Quantification of Total and Active Microbial Cells with Single Cell Phenotypes for Environmental Microbiomes – Milena Gonzalo – bioRxiv

So thrilled to share episode 2 of #MVIFconversations with you all!Getting to sit down with @bykriscampbell.bsky.social was such a privilege! If you're curious about where microbiome science is headed and why rigorous science communication matters more than ever, this one's for you.1/2

— Svetlana Ugarcina Perovic (@svetlanaup.bsky.social) 2026-02-24T09:48:59.589Z

March 19, 2026

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Gut microbiome

Antibiotic use and gut microbiome composition links from individual-level prescription data of 14,979 individuals – Gabriel Baldanzi – Nature Medicine

Spatial transcriptomics maps host–gut microbiome biogeography at high resolution – Ioannis Ntekas – Nature Microbiology

Respiratory Microbiome

Empiric azithromycin alters the upper respiratory microbiome and resistome without anti-inflammatory benefit in COVID-19 – Abigail Glascock – Nature Microbiology

Dysbiosis of the nasal microbiome is associated with prospective acute exacerbation of COPD – Cristian Roca – Microbiome

Animal Microbiome

Towards standardization in pig microbiome research based on a comprehensive twenty-year review – Samuel Onyilokwu Enokela – Animal Microbiome

Longitudinal source-sink dynamics of fecal litter and farm indoor environmental resistomes in broiler chicken and Cherry Valley ducks – Peter Fauszt –  Animal Microbiome

Oral Microbiome

Denture-associated oral microbiome in dentate and edentulous older adults living in long-term care facilities – Muhammed Manzoor – Journal of Oral Microbiology

Shotgun metagenomic analysis of the tongue-coating microbiome reveals oral microbes and their functions in older adults with dementia – Jun Hyung Cha – Journal of Oral Microbiology

Water Microbiome

Water mass specific genes dominate the Southern Ocean microbiome – Emile Faure – Nature Communications

Plant Microbiome

Impacts of climate extremes on plant pathogens, microbiomes and plant health – Chao Xiong – Nature Reviews Microbiology

Heritability of the Pinus radiata root microbiome – Natalie Graham – Frontiers in Plant Science

Bioinformatics

DynaBiome: interpretable unsupervised learning of gut microbiome dysbiosis via temporal deep models – Awais Qureshi – BMC Bioinformatics

RP3Net: a deep learning model for predicting recombinant protein production in Escherichia coli – Evgeny Tankhilevich – Bioinformatics

MetaFX: feature extraction from whole-genome metagenomic sequencing data – Artem Ivanov – Bioinformatics

March 3rd ,2026

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Human Microbiome

Early risperidone exposure impairs cognitive function by perturbation of the gut microbiome and bile acids/tyrosine-PTP1B axis – Huaiyu Ye – microbiome

Human DNA levels in feces reflect gut inflammation and associate with presence of gut species in IBD patients across the age spectrum -Chiara Mazzoni – microbiome

Animal Microbiome

Probiotic efficacy of Bacillus amyloliquefaciens TL106 from Tibetan pigs in metabolic syndrome: modulation of gut microbiota and metabolic in sows and suckling piglets – Wangyuan Yao – microbiome

Enhancing the fiber degradation efficiency in dairy cattle rumen through engineered bacterial communities – Jiayi Zhang – microbiome

Gut T cell-microbiota crosstalk orchestrates antibacterial immunity and mucosal homeostasis in teleost – Ming Geng – microbiome

Plant Microbiome

Host-driven evolution shapes the polysaccharide utilization profiles of alga-associated Flavobacteriaceae – Guanjing Cai – microbiome

Ecology-guided Bacillus SynCom from a rice–duckweed core reveals division of labor for concurrent growth promotion and sheath blight suppression – Yingjie Song – microbiome

Mikania micrantha invasion restructures rhizosphere nitrogen cycling through enzyme activation, microbial recruitment, and allelopathic regulation – Ruonan Wang – microbiome

Marine and Aquatic Environmental Microbiome

Reconstruction of coral holobionts and elucidation of the causal relationships among symbiodiniaceae, bacteria, and coral through single-cell raman spectroscopy metabolomics – Yang Shu – microbiome

Unlocking the unexplored AMPSphere in marine rare species – Shen Fan – microbiome

Potential survival strategies of novel comammox and nitrite-oxidizing Nitrospira synthesizing osmoprotectants in a wastewater microbiome treating high-ammonia brackish landfill leachate – Shohei Yasuda – microbiome

Stress-induced enrichment of Pseudomonas sp. stimulates the adaptive response of Auxenochlorella pyrenoidosa and antibiotic-resistant proliferation -Qian Liu – microbiome

Built Environment and Cultural Heritage Microbiome

Unraveling the microbiomes contributing to biodeterioration dynamics of limestone heritage at the Longmen Grottoes archeological site – Xiaoying Zhang – microbiome

February 26 , 2026

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Gut Microbiome

Association between the gut microbiome and plasma metabolites linked to vocalization-based temperament in Merino sheep – Luoyang Ding – microbiome

Cross-kingdom genomic variation in chicken gut microbiomes: insights from China’s diverse local breeds – Jiayu Zhang – microbiome

Microbiota-derived propionate suppresses Salmonella virulence gene expression via LuxS quorum sensing – Qianyun Zhang – microbiome

rumen microbiome

Comparative analysis of rumen metagenomes with dietary supplementation of 3-nitrooxypropanol revealed divergent modes of action in hydrogen metabolism and reductant pathways between beef and dairy cattle – Youyoung Choi – microbiome

February 13, 2026

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Gut microbiome

Host factors dictate gut microbiome alterations in chronic kidney disease more strongly than kidney function – H. Krukowski – Nature Microbiology

Baby-to-baby strain transmission shapes the developing gut microbiome – Liviana Ricci – Nature

Animal Microbiome

Microbiome by transcriptome interactions triggered by a switch to an alternative diet in Nellore cattle – Anna Carolina Fernandes – Scientific Reports

Maternal supplementation with rumen-protected arginine reshapes the ileal microbiome and enhances neonatal lamb growth – Xiangjian Peng –  Animal Microbiome

Oral Microbiome

Stimuli-responsive, antimicrobial-loaded nanocarriers for oral biofilm control and microbiome restoration – Ding Chen – International Journal of Oral Science

Modulating the oral microbiome with dental biomaterials: A review of challenges, advances, and future perspectives – Woojin Choi – Biomaterials

Plant Microbiome

Large-scale multi-omics unveils host–microbiome interactions driving root development and nitrogen acquisition – Nannan Li – Nature Plants

Ecological composite fertilizer application enhances wheat yield and optimizes rhizosphere microbial community under reduced fertilization – Yu Wang – Frontiers in Plant Science

Bioinformatics

argNorm: normalization of antibiotic resistance gene annotations to the Antibiotic Resistance Ontology (ARO) – Svetlana Ugarcina Perovic – Bioinformatics

A negative binomial latent factor model for paired microbiome sequencing data – Hyotae Kim – BMC Bioinformatics

January 29, 2026

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Animal microbiome

Host genetic background and environment have different effects on the establishment and structure of the adult worker honey bee gut microbiota – Breven Stark – PLOS ONE

Microbiota discovered in scorpion venom – Barbara Murdoch – PLOS ONE

Animal experiments / Disease models

Intestinal decontamination with rifaximin attenuates LSEC dysfunction and liver fibrosis in mice – Tingting Su – PLOS ONE

Periplaneta americana extract ameliorates recurrent oral ulcers in rats by enhancing the intestinal epithelial barrier and regulating gut microbiota – Kailing Li – PLOS ONE

Formononetin ameliorates SP-induced urticaria in mice via suppressing TAK1/MAK signaling pathway -Yan Wu –PLOS ONE

Lipopolysaccharide induced mouse depression model can better simulate changes in peripheral blood FFAs in alMDD -Jincai Pan –PLOS ONE

Human microbiome (gut & reproductive)

Stool and vaginal microbiome profiles patterns among Black and White endometrial cancer survivors: A pilot study in North Carolina – Mu Jin – PLOS ONE

Infection, immunity & host–microbe interactions

Examining the role of IgA in a persistent model of Staphylococcus aureus colonization – Yunys Perez-Betancourt – PLOS Pathogens

Diversify and conquer: How effector diversity is shaped by host–microbe co-evolution -Marion C Müller – PLOS Pathogens

Oo-No: Ophidiomyces ophidiicola–bacterial interactions and the role of skin lipids in development of ophidiomycosis – Jason W Dallas – PLOS Pathogens

Probiotics & food microbiology

In-vitro evaluation of probiotic potential of gut microbes isolated from retail chicken – Sangram Biswas – PLOS ONE

Antimicrobial resistance & clinical microbiology

Extended-spectrum β-lactamase and carbapenemase-producing Enterobacterales among adult patients and their family members at Tikur Anbessa Specialized Hospital, Addis Ababa, Ethiopia – Dessie Abera – PLOS ONE

Microbiome methods & bioinformatics

PCR bias impacts microbiome ecological analyses – Dharmik R Rathod – PLOS Computational Biology

CoSMIC: A hybrid approach for large-scale, high-resolution microbial profiling of novel niches – Maor Knafo – PLOS ONE

Environmental & applied microbiology

Developing a simple, cost-effective proof-of-concept vaccine candidate against EHEC for cattle – Cecilia M Duarte – PLOS ONE

Preventive effect of bentonite against pyoderma via direct binding capability of staphylococci – Mao Kaneki – PLOS ONE

Ultraviolet light and polyethylene glycol as environmental cleaning agents to reduce contamination of Pseudogymnoascus destructans in bat hibernacula – Alyssa J Stulberg – PLOS ONE

Water, pollution & human exposure

Micro- and nanoplastics in biological samples following a drinking water intervention in Barcelona, Spain – Emma Calikanzaros – PLOS Water

Human disease & biomarkers

Evidence of an allostatic response by intestinal tissues following induction of joint inflammation – Meghan M Moran – PLOS ONE

Multi-modal data to identify key factors influencing lung injury in ARDS patients undergoing invasive mechanical ventilation: A prospective multi-center observational study protocol – Zhimei Duan – PLOS ONE

Integrative genomic analysis reveals DHX58 as a key player in gastric cancer – Yan Li – PLOS ONE

Identifying biomarkers for diagnosis and disease activity monitoring in PSC-IBD and UC through proteomic profiling: A prospective study protocol – Ondrej Fabian – PLOS ONE

S100-alarmins, antenatal corticosteroids and the risk of late-onset sepsis in preterm infants – Gloria Kessler – PLOS ONE

Exploring the role of the key gene TNFAIP3 between periodontitis and influenza A through bioinformatic analysis and molecular docking – Mingxiang Xu – PLOS ONE

GC-MS based bioactive profiling of Phyllanthus niruri and its antibacterial potential – Zubair Khalid Labu – PLOS ONE

January 28, 2026

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Reproductive / Urogenital Microbiome & Host–Pathogen Interactions

The interactive relationship between Fusobacterium necrophorum, Bacteroides pyogenes, and Porphyromonas levii in driving inflammatory uterine disease – Dianjun Cao – microbiome

 Gut Microbiome, Diet, and Host Health

Total and different types of olive oil consumption, gut microbiota, and cognitive function changes in older adults –Jiaqi Ni – microbiome

Environmental Microbiome & Antimicrobial Resistance (Resistome)

Beyond borders: plasmids drive a shared antibiotic resistome in European urban water systems

– Wanli He – microbiome

Spatial and temporal patterns of public transit aerobiomes – Russell J. S. Or – microbiome

Food Chain, Meat Microbiome & Resistome Dynamics

Microbiome and resistome successions in pig carcasses and fresh pork meat throughout slaughtering, processing and shelf-life – Elena Fernández-Trapote – microbiome

Microbiome–Immune System Interactions

Commensal microbe-derived butyrate enhances T follicular helper cell function to boost mucosal vaccine efficacy – Haeun Ko – microbiome

Animal microbiome

A culturomics approach reveals cross-feeding capacity of intestinal pig bacteria upon release of inositol from phytate – Lena-Sophie Paul – microbiome