Wekemo Bioincloud: A user‐friendly platform for meta‐omics data analyses

iMeta, Год журнала: 2024, Номер 3(1)

Опубликована: Фев. 1, 2024

The increasing application of meta-omics approaches to investigate the structure, function, and intercellular interactions microbial communities has led a surge in available data. However, this abundance human environmental microbiome data exposed new scalability challenges for existing bioinformatics tools. In response, we introduce Wekemo Bioincloud-a specialized platform -omics studies. This offers comprehensive analysis solution, specifically designed alleviate tool selection users face expanding sets. As now, Bioincloud been regularly equipped with 22 workflows 65 visualization tools, establishing itself as user-friendly widely embraced studying diverse Additionally, enables online modification vector outputs, registration-independent personalized dashboard system ensures privacy traceability. is freely at https://www.bioincloud.tech/.

Язык: Английский

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Gut microbiome-targeted therapies for Alzheimer’s disease

Gut Microbes, Год журнала: 2023, Номер 15(2)

Опубликована: Ноя. 7, 2023

The advent of high­throughput ‘omics’ technologies has improved our knowledge gut microbiome in human health and disease, including Alzheimer’s disease (AD), a neurodegenerative disorder. Frequent bidirectional communications mutual regulation exist between the gastrointestinal tract central nervous system through gut-brain axis. A large body research reported close association microbiota AD development, restoring healthy may curb or even improve symptoms progression. Thus, modulation become novel paradigm for clinical management AD, emerging effort focused on developing potential strategies preventing and/or treating disease. In this review, we provide an overview connection causal relationship dysbiosis mechanisms driving progression, successes challenges implementing available microbiome-targeted therapies (including probiotics, prebiotics, synbiotics, postbiotics, fecal transplantation) preventive therapeutic preclinical intervention studies AD. Finally, discuss future directions field.

Язык: Английский

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Selection of appropriate probiotic yeasts for use in dairy products: a narrative review

Food Production Processing and Nutrition, Год журнала: 2025, Номер 7(1)

Опубликована: Янв. 14, 2025

Abstract Yeasts, with a history of approximately 5,000 years in food and medicinal applications, play vital role various industries. The advantages these microorganisms include probiotic effects, phytate biodegradation, mycotoxin breakdown, adsorption capabilities. Traditionally, research on probiotics has primarily focused lactic acid bacteria bifidobacteria; however, there is growing global interest incorporating yeast as supplement. Notably, species such Saccharomyces , Candida Debaryomyces Yarrowia Kluyveromyces have been identified for their potential. These yeasts are commonly introduced into dairy products, including kefir, yogurt, kumis, cheese. However, the compatibility matrices, well factors influencing viability functionality, remains critical area study. Ongoing exploring techniques to enhance during processing, given that different strains may exhibit varying survival rates properties. Consequently, represent promising avenue augmenting health benefits products. This development prompts essential discussions regarding selecting suitable specific applications. paper comprehensively examines historical discovery, types, properties, applications It aims shed light effects while addressing challenges associated appropriate optimize enhancement Graphical

Язык: Английский

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Early life gut microbiome and its impact on childhood health and chronic conditions

Gut Microbes, Год журнала: 2025, Номер 17(1)

Опубликована: Фев. 7, 2025

The development of the gut microbiome is crucial to human health, particularly during first three years life. Given its role in immune development, disturbances establishment process may have long term consequences. This review summarizes evidence for these claims, highlighting compositional changes this critical period life as well factors that affect development. Based on and animal data, we conclude early-life a determinant long-term impacting physiological, metabolic, processes. field faces challenges. Some challenges are technical, such lack standardized stool collection protocols, inconsistent DNA extraction methods, outdated sequencing technologies. Other methodological: small sample sizes, longitudinal studies, poor control confounding variables. To address limitations, advocate more robust research methodologies better understand microbiome's health disease. Improved methods will lead reliable studies deeper understanding impact outcomes.

Язык: Английский

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Probiotic Incorporation into Yogurt and Various Novel Yogurt-Based Products

Applied Sciences, Год журнала: 2022, Номер 12(24), С. 12607 - 12607

Опубликована: Дек. 8, 2022

Probiotics are commonly added to yogurt provide many health benefits for the consumer. A description is provided some used probiotics in yogurt. GRAS (generally recognized as safe) list of probiotic bacteria that can be or similar types products provided. Additionally, prebiotics, synbiotics (combination prebiotics and probiotics), postbiotics, paraprobiotics, psychobiotics Probiotic come various forms addition spoonable yogurt, an ingredient other food products. Many useful functional ingredients applied The safety must addressed, especially critically ill patients susceptible populations. survive within throughout its entire shelf-life gastrointestinal tract after consumption by consumer benefits, techniques maintain survival Furthermore, Greek acid whey. opportunities exist adding a wide variety yogurt-based

Язык: Английский

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Probiotics to improve the gut microbiome in premature infants: are we there yet?

Gut Microbes, Год журнала: 2023, Номер 15(1)

Опубликована: Апрель 30, 2023

Gut microbiome maturation in infants born prematurely is uniquely influenced by the physiological, clinical, and environmental factors surrounding preterm birth early life, leading to altered patterns of microbial succession relative term during first months life. These differences composition are implicated acute clinical conditions that disproportionately affect infants, including necrotizing enterocolitis (NEC) late-onset sepsis (LOS). Probiotic supplementation initiated life an effective prophylactic measure for preventing NEC, LOS, other concerns relevant infants. In parallel, reported benefits probiotics on gut microbiome, metabolome, immune function beginning emerge. This review summarizes current literature influence outlines potential mechanisms which these effects exerted, highlights important considerations determining best practices probiotic use premature

Язык: Английский

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Development of early life gut resistome and mobilome across gestational ages and microbiota-modifying treatments

EBioMedicine, Год журнала: 2023, Номер 92, С. 104613 - 104613

Опубликована: Май 15, 2023

Gestational age (GA) and associated level of gastrointestinal tract maturation are major factors driving the initial gut microbiota composition in preterm infants. Besides, compared to term infants, premature infants often receive antibiotics treat infections probiotics restore optimal microbiota. How GA, antibiotics, modulate microbiota's core characteristics, resistome mobilome, remains nascent.We analysed metagenomic data from a longitudinal observational study six Norwegian neonatal intensive care units describe bacterial varying GA receiving different treatments. The cohort consisted probiotic-supplemented antibiotic-exposed extremely (n = 29), very 25), antibiotic-unexposed 8), full-term 10) stool samples were collected on days life 7, 28, 120, 365, DNA extraction was followed by shotgun metagenome sequencing bioinformatical analysis.The top predictors hospitalisation length GA. Probiotic administration rendered more alike day 7 ameliorated GA-driven loss interconnectivity stability. hospitalisation, both microbiota-modifying treatments (antibiotics probiotics) contributed an elevated carriage mobile genetic elements controls. Finally, Escherichia coli with highest number antibiotic-resistance genes, Klebsiella pneumoniae aerogenes.Prolonged probiotic intervention contribute dynamic alterations characteristics relevant infection risk.Odd-Berg Group, Northern Norway Regional Health Authority.

Язык: Английский

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Therapeutic Potential of Gut Microbiota and Its Metabolite Short-Chain Fatty Acids in Neonatal Necrotizing Enterocolitis

Life, Год журнала: 2023, Номер 13(2), С. 561 - 561

Опубликована: Фев. 16, 2023

Short chain fatty acids (SCFAs), the principle end-products produced by anaerobic gut microbial fermentation of complex carbohydrates (CHO) in colon perform beneficial roles metabolic health. Butyrate, acetate and propionate are main SCFA metabolites, which maintain homeostasis host immune responses, enhance barrier integrity reduce inflammation via a range epigenetic modifications DNA/histone methylation underlying these effects. The infant microbiota composition is characterized higher abundances SCFA-producing bacteria. A large number vitro/vivo studies have demonstrated therapeutic implications bacteria inflammatory diseases, such as obesity asthma, but application its metabolite SCFAs to necrotizing enterocolitis (NEC), an acute necrosis distal small intestine/colon affecting premature newborns, scarce. Indeed, health effects attributed neonatal NEC still be understood. Thus, this literature review aims summarize available evidence on potential using PubMed/MEDLINE database.

Язык: Английский

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Depletion of butyrate-producing microbes of the Firmicutes predicts nonresponse to FMT therapy in patients with recurrent Clostridium difficile infection

Gut Microbes, Год журнала: 2023, Номер 15(1)

Опубликована: Июль 19, 2023

Approximately 10% of individuals diagnosed with Clostridium difficile infection (CDI) show the resistance to fecal microbiota transplantation (FMT), underlying mechanisms remaining elusive. Deciphering intricate microbiome profile within this particular subset FMT-refractory patients via clinical FMT investigations assumes paramount importance, as it holds key designing targeted therapeutic interventions tailored for CDI, particularly recurrent CDI (rCDI). A cohort twenty-three afflicted rCDI, exhibiting congruent baselines, was meticulously selected FMT. Rigorous screening thousands healthy identified ten donors who met stringent health standards, while a total 171 stool samples were collected serve controls. To assess influence dynamics on efficacy, from four over continuous period twenty-five weeks. After treatment, seven exhibited an inadequate response These non-remission displayed significant reduction in α-diversity indexes. Meanwhile, prior FMT, abundance butyrate-producing Firmicutes bacteria, including Christensenellaceae_R_7_group, Ruminococcaceae_unclassified, Coprococcus_2, Fusicatenibacter, Oscillospira, and Roseburia, depleted patients. Moreover, Burkholderiales_unclassified, Oscillospira failed colonize both pre- post-treatment. Conversely, favorable higher relative Veillonella whereas its depletion commonly observed individuals. Genera interactions lower effectiveness more similar those patients, frequently these donors. Older not conducive colonization Veillonella, consistent their poor prognosis after rCDI distinct characteristics that hindered beneficial microbes. findings hold promise advancing precision therapy

Язык: Английский

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Effects of Perinatal Antibiotic Exposure and Neonatal Gut Microbiota

Antibiotics, Год журнала: 2023, Номер 12(2), С. 258 - 258

Опубликована: Янв. 28, 2023

Antibiotic therapy is one of the most important strategies to treat bacterial infections. The overuse antibiotics, especially in perinatal period, associated with long-lasting negative consequences such as spread antibiotic resistance and alterations composition function gut microbiota, both which negatively affect human health. In this review, we summarize recent evidence about influence treatment on neonatal microbiota subsequent effects health infant. We also analyze possible microbiome-based approaches for re-establishment healthy neonates.

Язык: Английский

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