PlasmidHostFinder: Prediction of Plasmid Hosts Using Random Forest-Reference-Cited by-同舟云学术

PlasmidHostFinder: Prediction of Plasmid Hosts Using Random Forest

Published:2022-04-26 Issue:2 Volume:7 Page:
ISSN:2379-5077
Container-title:mSystems
language:en
Short-container-title:mSystems

Author:

Aytan-Aktug Derya¹^ORCID,Clausen Philip T. L. C.¹^ORCID,Szarvas Judit¹,Munk Patrick¹,Otani Saria¹^ORCID,Nguyen Marcus²³,Davis James J.²³⁴^ORCID,Lund Ole¹^ORCID,Aarestrup Frank M.¹^ORCID

Affiliation:

1. National Food Institute, Technical University of Denmark, Kgs. Lyngby, Denmark

2. Consortium for Advanced Science and Engineering, University of Chicago, Chicago, Illinois, USA

3. Data Science and Learning Division, Argonne National Laboratory, Argonne, Illinois, USA

4. Northwestern Argonne Institute for Science and Engineering, Evanston, Illinois, USA

Abstract

Antimicrobial resistance is a global health threat to humans and animals, causing high mortality and morbidity while effectively ending decades of success in fighting against bacterial infections. Plasmids confer extra genetic capabilities to the host organisms through accessory genes that can encode antimicrobial resistance and virulence.

Funder

Novo Nordisk Fonden

HHS | NIH | National Institute of Allergy and Infectious Diseases

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.01180-21

Reference41 articles.

1. Beyond horizontal gene transfer: the role of plasmids in bacterial evolution

2. Ordering the mob: Insights into replicon and MOB typing schemes from analysis of a curated dataset of publicly available plasmids

3. In Silico Detection and Typing of Plasmids using PlasmidFinder and Plasmid Multilocus Sequence Typing

4. Expansion of a Plasmid Classification System for Gram-Positive Bacteria and Determination of the Diversity of Plasmids in Staphylococcus aureus Strains of Human, Animal, and Food Origins

5. Plasmid Classification in an Era of Whole-Genome Sequencing: Application in Studies of Antibiotic Resistance Epidemiology

Cited by 8 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. Predicting the bacterial host range of plasmid genomes using the language model-based one-class SVM algorithm;2024-08-28

2. Microbial evolution through horizontal gene transfer by mobile genetic elements;Microbial Biotechnology;2024-01

3. Machine Learning Suggests That Small Size Helps Broaden Plasmid Host Range;Genes;2023-11-05

4. Plasmid permissiveness of wastewater microbiomes can be predicted from 16S rRNA sequences by machine learning;Bioinformatics;2023-06-22

5. Inference of the Life Cycle of Environmental Phages from Genomic Signature Distances to Their Hosts;Viruses;2023-05-19