Human and General Microbiome

Linking microbial genes to plasma and stool metabolites uncovers host-microbial interactions underlying ulcerative colitis disease course – Melanie Schirmer – Cell Host & Microbe

Incorporating metabolic activity, taxonomy and community structure to improve microbiome-based predictive models for host phenotype prediction – Mahsa Monshizadeh – Gut Microbes

Microbiota and mucosal gene expression of fecal microbiota transplantation or placebo treated patients with chronic pouchitis – Anna K Hartikainen – Gut Microbes

A robust microbiome signature for autism spectrum disorder across different studies using machine learning – Lucia N Peralta-Marzal – Scientific Reports

Nasal lavage microbiome, but not nasal swab microbiome, correlates with sinonasal inflammation in children with cystic fibrosis – Jaehi Chung – Journal of Cystic Fibrosis

A Gpr35-tuned gut microbe-brain metabolic axis regulates depressive-like behavior – Lingsha Cheng – Cell Host & Microbe

The salivary microbiota of patients with acute lower respiratory tract infection-A multicenter cohort study – Matthew B Rogers – PloS One

The endometrial microbiota and early pregnancy loss – Joshua Odendaal – Human Reproduction

Multi-omics of the gut microbial ecosystem in patients with microsatellite-instability-high gastrointestinal cancer resistant to immunotherapy – Siyuan Cheng – Cell Reports. Medicine

The microbial metabolite urolithin A reduces Clostridioides difficile toxin expression and toxin-induced epithelial damage – Sweta Ghosh – mSystems

Impact of Periodontitis on the Leakage of Oral Bacteria to the Gut – E Buetas – Journal of Dental Research 

Review: Changes in the fecal microbiota of breast cancer patients based on 16S rRNA gene sequencing: a systematic review and meta-analysis – Biqing Luan – Clinical & Translational Oncology

Review: Bacteroides and related species: The keystone taxa of the human gut microbiota – Jae Hyun Shin – Anaerobe

Review: Enhancing microbiome research in sub-Saharan Africa – Kolawole I Ayeni – Trends in Microbiology

Animal Microbiome (Model and non-model organisms)

Early microbial intervention reshapes phenotypes of newborn Bos taurus through metabolic regulations – Yizhao Shen – GigaScience

Gut microbiota variations in wild yellow baboons (Papio cynocephalus) are associated with sex and habitat disturbance – Marina Bambi – Scientific Reports

Genetic mutation in Escherichia coli genome during adaptation to the murine intestine is optimized for the host diet – Tomoya Tsukimi – mSystems

Candidatus Methanosphaera massiliense sp. nov., a methanogenic archaeal species found in a human fecal sample and prevalent in pigs and red kangaroos – Virginie Pilliol – Microbiology Spectrum

Plant and Soil Microbiome

A novel plant growth-promoting rhizobacterium, Rhizosphaericola mali gen. nov., sp. nov., isolated from healthy apple tree soil – Han Sol Kim – Scientific Reports

Manipulation of the seagrass-associated microbiome reduces disease severity – Olivia J Graham – Environmental Microbiology

Microbiome Analysis: Tools, Techniques and Resources

Assessment of DNA extraction methods for human gut mycobiome analysis – Piyapat Rintarhat – Royal Society Open Science

NanoDeep: a deep learning framework for nanopore adaptive sampling on microbial sequencing – Yusen Lin – Briefings in Bioinformatics

BactInt: A domain driven transfer learning approach for extracting inter-bacterial associations from biomedical text – Krishanu Das Baksi – Computational Biology and Chemistry

The African Human Microbiome Portal: a public web portal of curated metagenomic metadata – Anmol Kiran – Database 

MK-BMC: a Multi-Kernel framework with Boosted distance metrics for Microbiome data for Classification – Huang Xu – Bioinformatics