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Updated: May 31, 2026

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

PGAT: a multistrain analysis resource for microbial genomes.

M J Brittnacher¹, C Fong, H S Hayden

¹Department of Microbiology, University of Washington, Seattle, WA 98195, USA. mbrittna@uw.edu

Bioinformatics (Oxford, England)

|July 19, 2011

Summary

This summary is machine-generated.

The Prokaryotic-genome Analysis Tool (PGAT) is a web-based application for comparing microbial genomes. It aids in discovering genetic differences linked to observed phenotypes by analyzing gene content and sequence variations.

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Microbiota Analysis Using Two-step PCR and Next-generation 16S rRNA Gene Sequencing

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Published on: October 15, 2019

Area of Science:

Microbiology
Bioinformatics
Genomics

Background:

The Prokaryotic-genome Analysis Tool (PGAT) is a web-based database application.
It facilitates the comparison of gene content and sequence across multiple microbial genomes.
This aids in discovering genetic differences that may explain observed phenotypes.

Purpose of the Study:

To introduce and describe the functionalities of the Prokaryotic-genome Analysis Tool (PGAT).
To highlight PGAT's utility in comparative microbial genomics.
To provide a platform for researchers to identify genetic variations.

Main Methods:

PGAT supports database queries to identify gene presence/absence across genomes.
It allows comparison of sequence polymorphisms in orthologous genes.
Multigenome display of regions surrounding query genes and metabolic pathway gene distribution comparison are supported.

Main Results:

PGAT enables identification of genes present or absent in user-selected genomes.
Sequence polymorphisms in orthologous genes can be compared.
Comparative analysis of metabolic pathways and manual community annotation are facilitated.

Conclusions:

PGAT is a valuable tool for comparative microbial genomics.
The application aids in the discovery of genetic variations influencing phenotypes.
PGAT supports comprehensive analysis through various query and display functions.