Forecasting Staphylococcus aureus Infections Using Genome-Wide Association Studies, Machine Learning, and Transcriptomic Approaches-Reference-Cited by-同舟云学术

Forecasting Staphylococcus aureus Infections Using Genome-Wide Association Studies, Machine Learning, and Transcriptomic Approaches

Published:2022-08-30 Issue:4 Volume:7 Page:
ISSN:2379-5077
Container-title:mSystems
language:en
Short-container-title:mSystems

Author:

Sassi Mohamed¹,Bronsard Julie¹,Pascreau Gaetan¹,Emily Mathieu²,Donnio Pierre-Yves¹³,Revest Matthieu¹⁴,Felden Brice¹,Wirth Thierry⁵⁶,Augagneur Yoann¹^ORCID

Affiliation:

1. Inserm, BRM (Bacterial Regulatory RNAs and Medicine)—UMR_S 1230, Rennes, France

2. Institut Agro, CNRS, Université de Rennes, IRMAR (Institut de Recherche Mathématique de Rennes)—UMR 6625, Rennes, France

3. Service de Bactériologie-Hygiène Hospitalière, CHU Rennes, Rennes, France

4. Service des Maladies Infectieuses et Réanimation Médicale, CHU Rennes, Rennes, France

5. Institut de Systématique, Evolution, Biodiversité (ISYEB), UMR-CNRS 7205, Muséum National d'Histoire Naturelle, Université Pierre et Marie Curie, Université des Antilles, Ecole Pratique des Hautes Etudes, Sorbonne Universités, Paris, France

6. École Pratique des Hautes Études (EPHE), PSL University, Paris, France

Abstract

Predicting the outcome of bacterial colonization and infections, based on extensive genomic and transcriptomic data from a given pathogen, would be of substantial help for clinicians in treating and curing patients. In this report, genome-wide association studies and random forest algorithms have defined gene combinations that differentiate human from animal strains, colonization from diseases, and nonsevere from severe diseases, while it revealed the importance of IGRs and CDS, but not small RNAs (sRNAs), in anticipating an outcome.

Funder

Agence Nationale de la Recherche

French Ministry of Defense | Direction Générale de l'Armement

Conseil Régional de Bretagne

BIOSIT

Publisher

American Society for Microbiology

Subject

Computer Science Applications,Genetics,Molecular Biology,Modeling and Simulation,Ecology, Evolution, Behavior and Systematics,Biochemistry,Physiology,Microbiology

Link

https://journals.asm.org/doi/pdf/10.1128/msystems.00378-22

Reference87 articles.

1. Co-evolutionary aspects of human colonisation and infection by Staphylococcus aureus

2. Is the Colonisation of Staphylococcus aureus in Pets Associated with Their Close Contact with Owners?

3. Staphylococcus aureusInfections

4. Staphylococcus aureusBacteremia: Epidemiology, Pathophysiology, and Management Strategies

5. Staphylococcus aureus Infections: Epidemiology, Pathophysiology, Clinical Manifestations, and Management

Cited by 4 articles. 订阅此论文施引文献订阅此论文施引文献，注册后可以免费订阅5篇论文的施引文献，订阅后可以查看论文全部施引文献

1. Identification of Mutation Combinations in Genome-Wide Association Studies: Application for Mycobacterium tuberculosis;Pattern Recognition and Image Analysis;2024-06

2. Average Nucleotide Identity basedStaphylococcus aureusstrain grouping allows identification of strain-specific genes in the pangenome;2024-02-01

3. Genomics of Invasive Cutibacterium acnes Isolates from Deep-Seated Infections;Microbiology Spectrum;2023-04-13

4. Multiple hypervirulent methicillin-sensitiveStaphylococcus aureuslineages contribute towards poor patient outcomes in orthopedic device-related infections;2022-10-22