Papers

61,005 results
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Article Tier 2

Application of metagenomic next-generation sequencing in the diagnosis of urinary tract infection in patients undergoing cutaneous ureterostomy

Researchers applied metagenomic next-generation sequencing alongside urine culture to diagnose urinary tract infections in patients with cutaneous ureterostomy. The study found that combining these methods provides more comprehensive diagnostic information, and identified specific cytokines and microorganisms as promising biomarkers for building effective diagnostic models for this patient population.

2023 Frontiers in Cellular and Infection Microbiology 16 citations
Article Tier 2

Global trends and hotspots of gastrointestinal microbiome and toxicity based on bibliometrics

This bibliometric analysis mapped global research trends and hotspots in gastrointestinal microbiome and toxicity studies, finding that modifications to the gut microbiome could offer new directions for treating and mitigating toxic exposures.

2023 Frontiers in Microbiology 8 citations
Article Tier 2

Unleashing multi-omic approaches to address environmental microplastic hazards in marine polychaetes

Researchers used a multi-omic approach (metagenomics and metabolomics) to study how an environmental microplastic mixture affects the gut microbiome and metabolism of marine polychaetes, identifying disruption of specific bacterial taxa and altered metabolite profiles (indoles, flavonoids, terpenes) that indicate physiological stress.

2025 Marine Pollution Bulletin
Article Tier 2

Exploring Protein Functions of Gut Bacteriome and Mycobiome in Thai Infants Associated with Atopic Dermatitis Through Metaproteomic and Host Interaction Analysis

Researchers analyzed gut microbiome protein expression in Thai infants with atopic dermatitis using metaproteomic analysis. The study found reduced abundance of probiotic species and increased pathogenic bacteria and fungi in affected infants, along with stress-related protein expression patterns, suggesting that gut microbial imbalances and their functional interactions may play a role in this allergic skin condition.

2024 International Journal of Molecular Sciences 3 citations
Clinical Trial Tier 1

Causal relationship between gut microbiota and gastrointestinal diseases: a mendelian randomization study

This Mendelian randomization study found genetic evidence supporting a causal relationship between specific gut microbiota compositions and gastrointestinal diseases. The findings suggest that microbiome-related interventions, including microbiome-dependent metabolites, could potentially be developed to treat or manage gastrointestinal conditions.

2024 Journal of Translational Medicine 36 citations
Article Tier 2

Multi-Omics Analysis of the Gut-Liver Axis Reveals the Mechanism of Liver Injury in Colitis Mice

Researchers used multi-omics analysis to reveal that liver injury in colitis mice is linked to intestinal dysbiosis and altered host-microbiota interactions, with gut bacterial shifts correlating to immune and metabolic changes in the liver.

2022 Frontiers in Immunology 32 citations
Article Tier 2

Research trend on the emerging role of the microbiome in idiopathic male infertility

A bibliometric analysis of global research on idiopathic male infertility over two decades found a clear transition from genetic and oxidative stress approaches toward microbiome-centered and multi-omics investigations, reflecting growing interest in the gut-reproductive axis.

2025 Antonie van Leeuwenhoek
Article Tier 2

Deciphering the gut microbiome of grass carp through multi-omics approach

Researchers used multiple layers of molecular data (multi-omics) to map the gut microbiome of grass carp, identifying key bacterial functions and potential targets for improving fish gut health — findings that could benefit aquaculture and our understanding of how gut microbes support digestion in fish.

2024 Microbiome 55 citations
Article Tier 2

Deciphering the gut microbiome of grass carp through multi-omics approach

This multi-omics study profiled the gut microbiome, transcriptome, and metabolome of grass carp to identify microbial species and metabolic pathways that support host metabolism and immunity, providing a foundation for developing microbiome-targeted feed additives as antibiotic alternatives in aquaculture.

2023 3 citations
Article Tier 2

Comparative Analysis of Nasal Microbial Community between Tibetan Sheep with different Ages

Researchers compared nasal microbial communities in adult and young Tibetan sheep using amplicon sequencing, finding that young sheep had greater bacterial diversity at the genus level with 185 genera significantly more abundant, though overall alpha diversity indices were similar between age groups.

2023 Pakistan Veterinary Journal 14 citations
Meta Analysis Tier 1

Clinical and diagnostic values of metagenomic next-generation sequencing for infection in hematology patients: a systematic review and meta-analysis

This meta-analysis of 22 studies found that metagenomic next-generation sequencing (mNGS) had a substantially higher pathogen detection rate than conventional microbiological tests in hematology patients, with pooled sensitivity of 87%. The mNGS results led to antibiotic adjustments in about 50% of cases, demonstrating its clinical value for diagnosing infections in immunocompromised patients.

2023 Research Square (Research Square)
Article Tier 2

The virtual microbiome: A computational framework to evaluate microbiome analyses

Researchers created virtual bacterial populations mimicking real microbiome ecology to test the accuracy of standard microbiome analysis pipelines, finding that gaps in genomic databases significantly compromise microbiome characterization reliability — an issue typically overlooked in microbiome studies.

2023 PLoS ONE 9 citations
Article Tier 2

Analyse métabolomique des communautés microbiennes de la plastisphère dans le continuum fleuve-mer

This study applies metabolomic analysis to characterize the microbial communities of the plastisphere along a river-to-sea continuum, examining how the microbial metabolism associated with plastic-colonizing biofilms changes across the transition from freshwater to marine environments.

2024 SPIRE - Sciences Po Institutional REpository
Article Tier 2

Linear responses of soil microbiomes, metagenomic and metabolomic functioning across ecosystems along water gradients in the Altai region, northwestern China

Researchers analyzed soil microbial communities, their genetic functions, and metabolic profiles across four ecosystems along a water gradient in the Altai region of China. Microbial diversity and carbon and nitrogen cycling functions increased linearly with soil moisture, demonstrating how hydrology shapes ecosystem-level microbial processes.

2023 Research Square (Research Square) 1 citations
Article Tier 2

Microplastic-associated gut microbial profile and antibiotic resistance in preschool children: a multicentre cross-sectional study in China

In a multicentre study of 335 preschool children across three Chinese cities, researchers detected eight types of microplastics in fecal samples at a median concentration of 212.1 micrograms per gram. The study found that microplastic exposure was associated with changes in gut microbiota composition and function, including metabolic pathways related to macronutrients and vitamins, as well as a relationship with antibiotic resistance gene abundance.

2026 EBioMedicine
Article Tier 2

Identification of microplastic-associated microbial communities from various stages of wastewater treatment and recipient surface waters using MALDI-TOF mass spectrometry = Mikroműanyagokhoz társuló mikrobiális közösségek azonosítása a szennyvíztisztítás különböző fázisaiban és a befogadó felszíni vizekben MALDI-TOF MS módszerrel

Researchers used MALDI-TOF mass spectrometry to identify microbial communities colonizing six types of microplastics deployed at multiple stages of wastewater treatment and in receiving surface waters, assessing how MPs serve as vectors for antibiotic-resistant bacteria and resistance genes.

2025 Repository of the Academy's Library (Library of the Hungarian Academy of Sciences)
Article Tier 2

Metagenomics reveals the response of desert steppe microbial communities and carbon-nitrogen cycling functional genes to nitrogen deposition

Researchers used metagenomics to study how nitrogen deposition affects soil microbial communities and carbon-nitrogen cycling in desert steppe ecosystems. The study provides insights into how anthropogenic nitrogen inputs alter microbial functional gene expression, which can influence broader soil ecosystem processes.

2024 Frontiers in Microbiology 13 citations
Article Tier 2

Association between the skin microbiome and MHC class II diversity in an amphibian

Researchers examined how genetic background and MHC class II diversity shape the skin microbiome of amphibians, finding that host genotype influences microbial community composition in ways that may affect disease resistance and environmental adaptation.

2023 1 citations
Article Tier 2

Cross-Platform Comparison of Amino Acid Metabolic Profiling in Three Model Organisms Used in Environmental Metabolomics

Researchers compared NMR and mass spectrometry for amino acid profiling in three model organisms, finding significant platform-dependent differences for environmental studies.

2023 Metabolites 1 citations
Article Tier 2

The Footprint of Microbiome in Pediatric Asthma—A Complex Puzzle for a Balanced Development

This review examines the growing body of evidence linking the human microbiome to the development of pediatric asthma. Researchers found that the composition of bacteria in the gut and respiratory tract during early childhood appears to influence whether children develop asthma. The study suggests that understanding these microbial patterns could open new approaches for preventing or managing asthma in children.

2023 Nutrients 20 citations
Article Tier 2

Urine metabolites and viral pneumonia among children: a case-control study in China

Researchers conducted a case-control study examining urine metabolites in children with viral pneumonia in China, identifying specific metabolites and altered pathways associated with infection. The findings propose new targets for treatment development and antiviral drug discovery.

2023 Translational Pediatrics 4 citations
Article Tier 2

Multi-omics characterisation of Daphnia magna exposed to PFAS and microplastics: transcriptome and gut microbiome datasets

Researchers generated a multi-omics dataset from Daphnia magna exposed to environmentally relevant concentrations of PFOS, PFOA, and PET microplastics, integrating gut microbiome 16S rRNA profiling and whole-organism transcriptomes to enable systems-level investigation of host-microbiome interactions under complex contaminant stress.

2025
Article Tier 2

Postbiotic Sodium Butyrate Mitigates Hypertension and Kidney Dysfunction in Juvenile Rats Exposed to Microplastics

This study reports that sodium butyrate, a postbiotic compound, mitigated microplastic-induced hypertension and kidney dysfunction in juvenile rats by reducing oxidative stress, modulating the gut microbiota, and elevating butyric acid levels.

2025 Antioxidants 4 citations
Article Tier 2

Species-specific Microorganisms in Acid-tolerant Chironomus Larvae Reared in a Neutral pH Range under Laboratory Conditions: Single Dataset Analysis

Researchers systematically compared larval microbiomes of 11 Chironomus midge species from acidic and neutral pH environments using amplicon sequencing, finding that acid-tolerant species exhibited lower microbiome evenness and a biased abundance of specific microorganisms consistent with acid tolerance mechanisms.

2023 Microbes and Environments 4 citations