AIMC Topic: RNA, Ribosomal, 16S

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Survival and Metabolic Activity of Pediocin Producer Pediococcus acidilactici UL5: Its Impact on Intestinal Microbiota and Listeria monocytogenes in a Model of the Human Terminal Ileum.

Microbial ecology
Pediococcus acidilactici UL5 is a promising probiotic candidate due to its high survival rate under gastric and duodenal conditions and to its ability to produce the antilisterial bacteriocin pediocin PA-1. Its survival, metabolic activity, and impac...

16S classifier: a tool for fast and accurate taxonomic classification of 16S rRNA hypervariable regions in metagenomic datasets.

PloS one
The diversity of microbial species in a metagenomic study is commonly assessed using 16S rRNA gene sequencing. With the rapid developments in genome sequencing technologies, the focus has shifted towards the sequencing of hypervariable regions of 16S...

Microbial dysbiosis and its diagnostic potential in androgenetic alopecia: insights from multi-kingdom sequencing and machine learning.

mSystems
Androgenetic alopecia (AGA), the most common form of hair loss, has been linked to dysbiosis of the scalp microbiome. In this study, we collected microbiome samples from the frontal baldness and occipital regions of patients with varying stages of AG...

Impact of Blastocystis carriage and colonization intensity on gut microbiota composition in a non-westernized rural population from Colombia.

PLoS neglected tropical diseases
BACKGROUND: The role of Blastocystis, a common intestinal parasitic protist of humans and other animals, in human health and disease remains elusive. Recent studies suggest a connection between Blastocystis colonization, healthier lifestyles, and hig...

Machine learning algorithms reveal gut microbiota signatures associated with chronic hepatitis B-related hepatic fibrosis.

World journal of gastroenterology
BACKGROUND: Hepatic fibrosis (HF) represents a pivotal stage in the progression and potential reversal of cirrhosis, underscoring the importance of early identification and therapeutic intervention to modulate disease trajectory.

Using gut microbiome metagenomic hypervariable features for diabetes screening and typing through supervised machine learning.

Microbial genomics
Diabetes mellitus is a complex metabolic disorder and one of the fastest-growing global public health concerns. The gut microbiota is implicated in the pathophysiology of various diseases, including diabetes. This study utilized 16S rRNA metagenomic ...

Identification of putative coral pathogens in endangered Caribbean staghorn coral using machine learning.

Environmental microbiology
Coral diseases contribute to the rapid decline in coral reefs worldwide, and yet coral bacterial pathogens have proved difficult to identify because 16S rRNA gene surveys typically identify tens to hundreds of disease-associate bacteria as putative p...

Biomarker Identification for Preterm Birth Susceptibility: Vaginal Microbiome Meta-Analysis Using Systems Biology and Machine Learning Approaches.

American journal of reproductive immunology (New York, N.Y. : 1989)
PROBLEM: The vaginal microbiome has a substantial role in the occurrence of preterm birth (PTB), which contributes substantially to neonatal mortality worldwide. However, current bioinformatics approaches mostly concentrate on the taxonomic classific...

DSNetax: a deep learning species annotation method based on a deep-shallow parallel framework.

Briefings in bioinformatics
Microbial community analysis is an important field to study the composition and function of microbial communities. Microbial species annotation is crucial to revealing microorganisms' complex ecological functions in environmental, ecological and host...

Coracle-a machine learning framework to identify bacteria associated with continuous variables.

Bioinformatics (Oxford, England)
SUMMARY: We present Coracle, an artificial intelligence (AI) framework that can identify associations between bacterial communities and continuous variables. Coracle uses an ensemble approach of prominent feature selection methods and machine learnin...