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Evolutionary Relationships through Genome Comparisons

Evolutionary Relationships through Genome Comparisons

Genome comparison is one of the excellent ways to interpret the evolutionary relationships between organisms. The basic principle of genome comparison is that if two species share a common feature, it is likely encoded by the DNA sequence conserved between both species. The advent of genome sequencing technologies in the late 20th century enabled scientists to understand the concept of conservation of domains between species and helped them to deduce evolutionary relationships across diverse...

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Related Experiment Video

Updated: Jun 7, 2025

Multi-locus Variable-number Tandem-repeat Analysis of the Fish-pathogenic Bacterium Yersinia ruckeri by Multiplex PCR and Capillary Electrophoresis

Multi-locus Variable-number Tandem-repeat Analysis of the Fish-pathogenic Bacterium Yersinia ruckeri by Multiplex PCR and Capillary Electrophoresis

Published on: June 17, 2019

Development of a Providencia stuartii multilocus sequence typing scheme.

Gabriele Arcari^1,2, Alice De Francesco³, Riccardo Polani³

¹Department of Medicine and Technological Innovation, University of Insubria, Varese, Italy.

Frontiers in Microbiology

|November 15, 2024

Summary

Providencia stuartii is an emerging multidrug-resistant pathogen. This study redefines its taxonomy using genomic data and develops new typing schemes for better tracking of infections.

Keywords:

MLST Providencia stuartii allele gene phylogenomics

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Last Updated: Jun 7, 2025

Multi-locus Variable-number Tandem-repeat Analysis of the Fish-pathogenic Bacterium Yersinia ruckeri by Multiplex PCR and Capillary Electrophoresis

Multi-locus Variable-number Tandem-repeat Analysis of the Fish-pathogenic Bacterium Yersinia ruckeri by Multiplex PCR and Capillary Electrophoresis

Published on: June 17, 2019

Guided Protocol for Fecal Microbial Characterization by 16S rRNA-Amplicon Sequencing

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Published on: March 19, 2018

Heuristic Mining of Hierarchical Genotypes and Accessory Genome Loci in Bacterial Populations

Heuristic Mining of Hierarchical Genotypes and Accessory Genome Loci in Bacterial Populations

Published on: December 7, 2021

Area of Science:

Microbiology
Genomics
Taxonomy

Background:

The *Providencia* genus is gaining clinical importance due to antibiotic resistance.
Genomic and taxonomic understanding of *Providencia* is currently being revised.
Multidrug resistance in *Providencia* species necessitates updated characterization.

Purpose of the Study:

To outline and characterize the *P. stuartii* species using genomic approaches.
To establish robust genomic definitions for *P. stuartii*.
To develop novel typing schemes for *P. stuartii*.

Main Methods:

Retrieved *Providencia* genomes from GenBank.
Performed genome-based species definition using average nucleotide identity (ANI) and alignment-free methods.
Devised MultiLocus Sequence Typing (MLST) and core-genome MLST (cgMLST) schemes.

Main Results:

Defined genomes reliably identifiable as *P. stuartii*.
Developed a 7-locus MLST scheme.
Developed a 2,296-locus cgMLST scheme.

Conclusions:

This work provides a framework for understanding *P. stuartii*.
*P. stuartii* should be recognized as an emerging multidrug-resistant pathogen.
The developed typing schemes will aid in tracking *Providencia* infections.