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Genome Annotation and Assembly

Genome Annotation and Assembly

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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Updated: Sep 20, 2025

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

Generating Complete Genome Assemblies of Candida auris.

Terrance P Shea¹, Christina A Cuomo²

¹Infectious Disease and Microbiome Program, Broad Institute of MIT and Harvard, Cambridge, MA, USA.

Methods in Molecular Biology (Clifton, N.J.)

|June 8, 2022

Summary

Generating high-quality genome assemblies for Candida auris (C. auris) is crucial for understanding its evolution and epidemiology. This study details a protocol for creating complete C. auris genome sequences, aiding future research on this fungal pathogen.

Keywords:

Candida auris Fungal genome Hybrid assembly methods Whole genome assembly

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Last Updated: Sep 20, 2025

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Area of Science:

Microbiology
Genomics
Mycology

Background:

High-quality genome assemblies are foundational for studying the emerging fungal pathogen Candida auris.
Reference genomes enable investigations into C. auris evolution, epidemiology, and global emergence.
Comparative genomics of C. auris clades reveal variations in gene content and genomic structure.

Purpose of the Study:

To provide a detailed protocol for generating complete genome assemblies of Candida auris.
To facilitate standardized and high-quality genomic data generation for C. auris research.

Main Methods:

The study outlines a comprehensive protocol for genome sequencing and assembly.
Methods focus on achieving complete and accurate genome sequences for C. auris isolates.

Main Results:

A detailed protocol for generating complete C. auris genome assemblies is presented.
The protocol is designed to yield high-quality reference genomes.

Conclusions:

The availability of this protocol will advance genomic studies of Candida auris.
Accurate genome assemblies are essential for tracking outbreaks and understanding the emergence of C. auris.