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Genome Annotation and Assembly

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The genome refers to all of the genetic material in an organism. It can range from a few million base pairs in microbial cells to several billion base pairs in many eukaryotic organisms. Genome assembly refers to the process of taking the DNA sequencing data and putting it all back together in a correct order to create a close representation of the original genome. This is followed by the identification of functional elements on the newly assembled genome, a process called genome annotation.

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Related Experiment Video

Updated: May 14, 2026

Hybrid De Novo Genome Assembly for the Generation of Complete Genomes of Urinary Bacteria using Short- and Long-read Sequencing Technologies

Hybrid De Novo Genome Assembly for the Generation of Complete Genomes of Urinary Bacteria using Short- and Long-read Sequencing Technologies

Published on: August 20, 2021

QUAST: quality assessment tool for genome assemblies.

Alexey Gurevich¹, Vladislav Saveliev, Nikolay Vyahhi

¹Algorithmic Biology Laboratory, St. Petersburg Academic University, Russian Academy of Sciences, St. Petersburg, Russia. gurevich@bioinf.spbau.ru

Bioinformatics (Oxford, England)

|February 21, 2013

Summary

Evaluating genome assemblies is challenging, especially for new species. QUAST is a new tool that provides comprehensive quality assessment for genome assemblies, with or without a reference genome.

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Last Updated: May 14, 2026

Hybrid De Novo Genome Assembly for the Generation of Complete Genomes of Urinary Bacteria using Short- and Long-read Sequencing Technologies

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Published on: May 9, 2017

Area of Science:

Genomics
Bioinformatics
Computational Biology

Background:

Genome assembly algorithms have limitations, leading to imperfect outputs.
Existing assembly comparison methods lack a recognized benchmark and struggle with unsequenced species.
Evaluating genome assembly quality is crucial for genomic research.

Purpose of the Study:

To introduce QUAST, a novel quality assessment tool for genome assemblies.
To provide a robust method for evaluating and comparing genome assemblers.
To address the challenge of assessing assemblies for previously unsequenced species.

Main Methods:

QUAST evaluates genome assemblies using novel metrics and ideas.
The tool can assess assemblies with or without a reference genome.
QUAST generates detailed reports, tables, and plots for analysis.

Main Results:

QUAST was used to compare several genome assemblers on three datasets.
The tool offers improvements over existing assembly comparison software.
Comprehensive reports and interactive visualizations are available.

Conclusions:

QUAST provides a valuable tool for genome assembly evaluation and comparison.
The software aids researchers in assessing assembly quality and making informed decisions.
QUAST supports both reference-based and reference-free assembly assessments.