OOIR: Observatory of International Research

Papers

(The median citation count of Gut Pathogens is 3. The table below lists those papers that are above that threshold based on CrossRef citation counts [max. 250 papers]. The publications cover those that have been published in the past four years, i.e., from 2021-08-01 to 2025-08-01.)

Article	Citations
A fatal case of Vibrio cholerae-associated diarrhea and bacteremia in a 30-year-old carrier of beta-thalassemia	179
Clonal and horizontal transmission of carbapenem-resistant Enterobacterales strains and genes via flies	88
Dietary patterns drive loss of fiber-foraging species in the celiac disease patients gut microbiota compared to first-degree relatives	49
Significant abundance of bacterial flagellin and expression of its surface localized receptor toll-like receptor 5 and cytokine interleukin-22 in South African infants with poor oral rotavirus vaccine	47
A monoclonal antibody collection for C. difficile typing ?	39
A case–control study of the association between the gut microbiota and colorectal cancer: exploring the roles of diet, stress, and race	37
Assessing the impact of storage time on the stability of stool microbiota richness, diversity, and composition	36
Stunting is associated with persistent and transferable alterations in the gut microbiome	32
The emerging role of neutrophilic extracellular traps in intestinal disease	27
Translocating lipopolysaccharide correlates with the severity of enterovirus A71-induced HFMD by promoting pro-inflammation and viral IRES activity	27
Equol: a metabolite of gut microbiota with potential antitumor effects	27
Intestinal metabolites predict treatment resistance of patients with depression and anxiety	27
Invasion of intestinal cells by Staphylococcus warneri, a member of the human gut microbiota	27
Elucidating antibiofilm as well as photocatalytic disinfection potential of green synthesized nanosilver against multi-drug-resistant bacteria and its photodegradation ability of cationic dyes	26
Comparative genomic characterization of multidrug-resistant Citrobacter spp. strains in Fennec fox imported to China	24
Interaction between PSMD10 and GRP78 accelerates endoplasmic reticulum stress-mediated hepatic apoptosis induced by homocysteine	24
Profile of intestinal fungal microbiota in acute pancreatitis patients and healthy individuals	24
Characteristics of ESBL-positive Klebsiella pneumoniae isolated from paired children with and without diarrhea	24
Retrospective analysis of Clostridioides difficile and other intestinal infections in patients with Crohn’s disease and ulcerative colitis in the tertiary hospital in Poland. POLIBD survey results	24
A prospective investigation into the association between the gut microbiome composition and cognitive performance among healthy young adults	23
Fecal microbiome alterations of mice following immunization with gold nanoparticle vaccines against enterohemorrhagic Escherichia coli	22
A systematic review and meta-analysis of protozoan parasite infections among patients with mental health disorders: an overlooked phenomenon	21
Impact of invasive infections on clinical outcomes in acute pancreatitis: early predictive factors and implications for prophylactic anti-infective therapy	21
Tripartite interplay: immune reconstitution dynamics in AIDS, gut microbiota, and Helicobacter pylori infection: current advances and therapeutic prospects	19
Pathogenetic detection, retrospective and pathogenicity analysis of a fatal case of Vibrio vulnificus in Shenzhen, China	18

The role of non-Helicobacter pylori bacteria in the pathogenesis of gastroduodenal diseases	18
Correction: Diversity and composition of gut microbiota in healthy individuals and patients at different stages of hepatitis B virus-related liver disease	18
Fecal glycoprotein 2 is a marker of gut microbiota dysbiosis and systemic inflammation	17
Potential impact of gut Lactobacillus acidophilus and Bifidobacterium bifidum on hepatic histopathological changes in non-cirrhotic hepatitis C virus patients with different viral load	16
Genomes of Vibrio metoecus co-isolated with Vibrio cholerae extend our understanding of differences between these closely related species	15
Genome insights of Enterococcus raffinosus CX012922, isolated from the feces of a Crohn’s disease patient	15
Helicobacter pylori infection: is there circulating vacuolating cytotoxin A or cytotoxin-associated gene A protein?	15
Recent five-year progress in the impact of gut microbiota on vaccination and possible mechanisms	15
Risk factors and clinical outcomes associated with multiple as opposed to single pathogens detected on the gastrointestinal disease polymerase chain reaction assay	14
16S rRNA sequencing analysis of the oral and fecal microbiota in colorectal cancer positives versus colorectal cancer negatives in Iranian population	14
Prevalence of intestinal parasites and Helicobacter pylori coinfection, and contributing factors among patients with gastrointestinal manifestations at Addis Zemen primary hospital, Northwest Ethiopia	14
Management of dyspepsia and Helicobacter pylori infection: the 2022 Indonesian Consensus Report	14
Antimicrobial growth promoters approved in food-producing animals in South Africa induce shiga toxin-converting bacteriophages from Escherichia coli O157:H7.	14
Dysbiosis of gut microbiota during fecal stream diversion in patients with colorectal cancer	14
The immune-adjunctive potential of recombinant LAB vector expressing murine IFNλ3 (MuIFNλ3) against Type A Influenza Virus (IAV) infection	13
Tissue-specific transcriptomic adaptation in three strains of chickens during coinfections with parasites	13
A triad of gut dysbiosis, dysregulated immunity, and ‘leaky’ gut characterize HCMV associated neonatal cholestasis	13
Metagenomics: a new frontier for routine pathology testing of gastrointestinal pathogens	13
Overview of pathogenic Escherichia coli, with a focus on Shiga toxin-producing serotypes, global outbreaks (1982–2024) and food safety criteria	13
Determinants of Campylobacter species diversity in infants and association with family members, livestock, and household environments in rural Eastern Ethiopia	12
Bacteroides- and Prevotella-enriched gut microbial clusters associate with metabolic risks	12
The use of biomarkers associated with leaky gut as a diagnostic tool for early intervention in autism spectrum disorder: a systematic review	11
The effects of probiotic treatment with Bifidobacterium breve, Bif195 for small intestinal Crohn’s disease and the gut microbiome: results from a randomised, double-blind, placebo-controlled trial	11
Comparative genomics of Campylobacter jejuni from clinical campylobacteriosis stool specimens	11
Salmonella prevalence and serovar distribution in reptiles: a systematic review and meta-analysis	11
Etiology of diarrheal hospitalizations following rotavirus vaccine implementation and association of enteric pathogens with malnutrition among under-five children in India	11
Bacteremia from streptococcus constellatus revealing a gastrointestinal stromal tumor	11
Genomic insights into zoonotic transmission and antimicrobial resistance in Campylobacter jejuni from farm to fork: a one health perspective	10
Investigation and characterization of human gut phageome in advanced liver cirrhosis of defined etiologies	10
Clinical manifestations, risk factors, and prognostic factors of cytomegalovirus enteritis	10
Correction: Recent five-year progress in the impact of gut microbiota on vaccination and possible mechanisms	10
Impact of azithromycin mass drug administration on the antibiotic-resistant gut microbiome in children: a randomized, controlled trial	10
Comparison of antimicrobial resistant Escherichia coli isolated from Irish commercial pig farms with and without zinc oxide and antimicrobial usage	10
High-dose dual therapy for Helicobacter pylori eradication inducing less impact on the gut microbiota	10
Correlation between gut microbiota composition, enteric infections and linear growth impairment: a case–control study in childhood stunting in Pidie, Aceh, Indonesia	9
miR-125a-5p regulates the sialyltransferase ST3GAL1 in murine model of human intestinal campylobacteriosis	9
Dynamic changes in the gut microbiota composition during adalimumab therapy in patients with ulcerative colitis: implications for treatment response prediction and therapeutic targets	9
Timing and clinical risk factors for early acquisition of gut pathogen colonization with multidrug resistant organisms in the intensive care unit	9
Changes in the gut bacterial communities in colon cancer surgery patients: an observational study	9
Genetic evolution and phylogenetic analysis of porcine epidemic diarrhea virus strains circulating in and outside China with reference to a wild type virulent genotype CHYJ130330 reported from Guangdo	9
Genomic characterization of nine Clostridioides difficile strains isolated from Korean patients with Clostridioides difficile infection	9
Effect of probiotic supplementation on gastrointestinal motility, inflammation, motor, non-motor symptoms and mental health in Parkinson’s disease: a meta-analysis of randomized controlled trials	9
Role of fecal calprotectin as a hypoxic intestinal damage biomarker in COVID-19 patients	8
Profiling of the tumor-associated microbiome in patients with hepatocellular carcinoma	8
Epidemiological characteristics and genetic diversity of norovirus infections among outpatient children with diarrhea under 5 years of age in Beijing, China, 2011–2018	8
Whole-genome sequencing analyses and antibiotic resistance situation of 48 Helicobacter pylori strains isolated in Zhejiang, China	8
Development of the gut microbiota during early life in premature and term infants	8
Detrimental relevance of Helicobacter pylori infection with sarcopenia	8
Clostridioides difficile toxin is infrequently detected in inflammatory bowel disease and does not associate with clinical outcomes	8
Elevated plasma and bile levels of corisin, a microbiota-derived proapoptotic peptide, in patients with severe acute cholangitis	8

Case report: Aberrant fecal microbiota composition of an infant diagnosed with prolonged intestinal botulism	8
Risk factors for gut colonization with vancomycin-resistant enterococci among Bulgarian critically ill patients	8
Obesity is not associated with adverse outcomes among hospitalized patients with Clostridioides difficile infection	8
Depletion of core microbiome forms the shared background against diverging dysbiosis patterns in Crohn’s disease and intestinal tuberculosis: insights from an integrated multi-cohort analysis	8
Gut microbiota imbalance in colorectal cancer patients, the risk factor of COVID-19 mortality	8
The gut microbiome, resistome, and mycobiome in preterm newborn infants and mouse pups: lack of lasting effects by antimicrobial therapy or probiotic prophylaxis	8
Prevalence of Helicobacter pylori infection and effectiveness of first-line triple eradication therapy among dyspeptic patients at hospitals in Hawassa City, Ethiopia: a cross-sectional follow-up stud	7
Compositional variation of the human fecal microbiome in relation to azo-reducing activity: a pilot study	7
Correction: Molecular characterization and risk analysis of Giardia duodenalis assemblages in corticosteroid-treated and non-treated patients in Ismailia, Arab Republic of Egypt	7
The influence of Akkermansia muciniphila on intestinal barrier function	7
Bloodstream infection by Lactobacillus rhamnosus in a haematology patient: why metagenomics can make the difference	7
Effect of proton pump inhibitors in infants with esophageal atresia on the gut microbiome: a pilot cohort	7
Gut colonization with vancomicyn-resistant enterococci among patients with hematologic malignancies	7
Exploring the role of intestinal pathogenic bacteria in metronidazole-induced bone loss: focus on Klebsiella variicola	7
Network analysis of gut microbial communities reveal key genera for a multiple sclerosis cohort with Mycobacterium avium subspecies paratuberculosis infection	7
Gastrointestinal parasitic infections: Prevalence and risk factors in West Ismailia, Arab Republic of Egypt	7
Urinary markers of Mycobacterium tuberculosis and dysbiosis in paediatric tuberculous meningitis cases undergoing treatment	7
Fecal microbiota transplantation alleviates immunosuppressant-associated diarrhea and recurrent urinary tract infection in kidney transplant recipients: a retrospective analysis	6
Correction: The beneficial effects of commensal E. coli for colon epithelial cell recovery are related with Formyl peptide receptor 2 (Fpr2) in epithelial cells	6
Effect of bile reflux on gastric juice microbiota in patients with different histology phenotypes	6
Retraction Note to: EV71 virus reduces Nrf2 activation to promote production of reactive oxygen species in infected cells	6
Retraction Note: Detection of SARS-CoV-2 from patient fecal samples by whole genome sequencing	6
The beneficial effects of commensal E. coli for colon epithelial cell recovery are related with Formyl peptide receptor 2 (Fpr2) in epithelial cells	6
A multi-omics study to investigate the progression of the Correa pathway in gastric mucosa in the context of cirrhosis	6
Efficacy of colistin-based combinations against pandrug-resistant whole-genome-sequenced Klebsiella pneumoniae isolated from hospitalized patients in Egypt: an in vitro/vivo comparative study	6
Gut microbiome and gastric cancer: microbial interactions and therapeutic potential	6
The association between Helicobacter pylori infection and the risk for gout in hyperuricemia patients in China – A cross-sectional study	6
Pathogenicity of Arcobacter cryaerophilus in two human intestinal cell lines	6
Comprehensive full genome analysis of norovirus strains from eastern India, 2017–2021	6
Using whole-genome sequencing (WGS) to plot colorectal cancer-related gut microbiota in a population with varied geography	5
Acute gastroenteritis due to Arcobacter butzleri: an emerging pathogen	5
Unveiling the hidden threat: prevalence of Enterocytozoon bieneusi and other intestinal parasitic infections among organ transplant recipients in Southern Iran	5
Metagenomics revealed a correlation of gut phageome with autism spectrum disorder	5
Severe asthma patient with secondary Citrobacter koseri abdominal infection: first case report and review of the literature	5
Virulence and phylogenetic groups of Escherichia coli cultured from raw sewage in Kuwait	5
Selective depletion of Campylobacter jejuni via T6SS dependent functionality: an approach for improving chickens gut health	5
Dietary and lifestyle associations with microbiome diversity	5
Chronic hepatitis B virus infection imbalances short-chain fatty acids and amino acids in the liver and gut via microbiota modulation	5
Bi-directional elucidation of Lactiplantibacillus plantarum (RTA 8) intervention on the pathophysiology of gut-brain axis during Salmonella brain infection	5
High prevalence of carbapenem resistance and clonal expansion of blaNDM gene in Klebsiella pneumoniae isolates in an Iranian referral pediatric hospital	5
Vibrio cholerae O1 associated with recent endemic cholera shows temporal changes in serotype, genotype, and drug-resistance patterns in Bangladesh	4
TRIM32 reduced the recruitment of innate immune cells and the killing capacity of Listeria monocytogenes by inhibiting secretion of chemokines	4
Polymorphism of virulence genes and biofilm associated with in vitro induced resistance to clarithromycin in Helicobacter pylori	4
The gut metagenomics and metabolomics signature in patients with inflammatory bowel disease	4
Structured multicellular intestinal spheroids (SMIS) as a standardized model for infection biology	4
Fecal profiling reveals a common microbial signature for pancreatic cancer in Finnish and Iranian cohorts	4
Differences in epidemiology of enteropathogens in children pre- and post-rotavirus vaccine introduction in Kilifi, coastal Kenya	4
Strain-specific effects of probiotics on depression and anxiety: a meta-analysis	4
CMTM3 protects the gastric epithelial cells from apoptosis and promotes IL-8 by stabilizing NEMO during Helicobacter pylori infection	4
Prevalence of pathogens associated with neonatal gastrointestinal infections: a systematic review and meta-analysis	4
Grape seed and skin extract, a potential prebiotic with anti-obesity effect through gut microbiota modulation	4
Recalcitrant intussusception: exploring potential associations with Helicobacter pylori infection - a case report and literature review	4
Risk factors for peptic ulcer bleeding one year after the initial episode	4
Genome analysis and virulence gene expression profile of a multi drug resistant Salmonella enterica serovar Typhimurium ms202	4
Temporal changes in the positivity rate of common enteric viruses among paediatric admissions in coastal Kenya, during the COVID-19 pandemic, 2019–2022	4
Altered mucosal bacteria and metabolomics in patients with Peutz–Jeghers syndrome	4
Gut microbiota in the early stage of Crohn’s disease has unique characteristics	4
Gut microbiome in gastrointestinal neoplasms: from mechanisms to precision therapeutic strategies	4
Prevalence, antimicrobial susceptibility and virulence gene profiles of Arcobacter species isolated from human stool samples, foods of animal origin, ready-to-eat salad mixes and environmental water	4
Editorial Expression of Concern: Emerging role of bacterial outer membrane vesicle in gastrointestinal tract	4
Mutational landscape of the surface antigen of hepatitis B virus in patients with hepatocellular carcinoma	4
Amoxicillin modulates gut microbiota to improve short-term high-fat diet induced pathophysiology in mice	4
Long-read 16S rRNA amplicon sequencing reveals microbial characteristics in patients with colorectal adenomas and carcinoma lesions in Egypt	4
Relationship between gut microbiome diversity and hepatitis B viral load in patients with chronic hepatitis B	3
TRS-PCR profiles correlate with polymorphisms of the genomic o454-nlpD region, virulence factors repertoire, and phylogenetic groups among uropathogenic Escherichia coli strains isolated from patients	3
Constituents of stable commensal microbiota imply diverse colonic epithelial cell reactivity in patients with ulcerative colitis	3
Washed microbiota transplantation stopped recurrent sepsis in a patient with myelofibrosis: a case report	3
Effect of crude polysaccharide from seaweed, Dictyopteris divaricata (CDDP) on gut microbiota restoration and anti-diabetic activity in streptozotocin (STZ)-induced T1DM mice	3
Production of highly immunogenic and safe Triton X-100 produced bacterial ghost vaccine against Shigella flexneri 2b serotype	3
Lower fecal microbiota transplantation ameliorates ulcerative colitis by eliminating oral-derived Fusobacterium nucleatum and virulence factor	3
The changing relationship between Cholera and interannual climate variables in Kolkata over the past century	3
Intravenous antibiotics in preterm infants have a negative effect upon microbiome development throughout preterm life	3
Strain-resolved metagenomic analysis of the gut as a reservoir for bloodstream infection pathogens among premature infants in Singapore	3
Experimental induction of necrotic enteritis with or without predisposing factors using netB positive Clostridium perfringens strains	3
Hypoxia exacerbates intestinal injury and inflammatory response mediated by myeloperoxidase during Salmonella Typhimurium infection in mice	3
Sero—salivary detection of H. pylori immunoglobulins and parasitic infection among healthcare individuals suffering from gastrointestinal disorders with correlation to personal hygiene	3
Changing serotypes of hand, foot and mouth disease in Shanghai, 2017–2019	3
Occurrence and assemblage distribution of Giardia Duodenalis in symptomatic and asymptomatic patients in southeastern Iran (2019–2022)	3
Heterogeneity of Clostridioides difficile asymptomatic colonization prevalence: a systematic review and meta-analysis	3
Chicken as a carrier of emerging virulent Helicobacter species: a potential zoonotic risk	3