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Genome Annotation and Assembly

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Related Experiment Video

Updated: Feb 9, 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

Genome Assembly.

Alicia Clum¹

¹United States Department of Energy Joint Genome Institute, Walnut Creek, CA, USA. aclum@lbl.gov.

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

|June 8, 2018

Summary

This summary is machine-generated.

This study provides recommendations for genome assembly using various sequencing technologies and details organelle assembly methods. It also reviews essential quality control procedures for accurate genome construction.

Keywords:

Assembly Contigs Genomics Overlap–layout–consensus Ploidy Scaffolds Sequencing String graph de Bruijn graph k-mer

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Last Updated: Feb 9, 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: August 20, 2021

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Area of Science:

Genomics
Bioinformatics
Computational Biology

Background:

Genome assembly is crucial for understanding genetic information, involving the reconstruction of complete genomes from short DNA sequences.
Contigs represent contiguous stretches of DNA, while scaffolds link these contigs with known order and orientation but unknown sequences in gaps.

Purpose of the Study:

To provide updated recommendations for genome assembly across diverse sequencing technologies.
To describe methodologies for organelle genome assembly.
To review and guide assembly quality control processes.

Main Methods:

Comparative analysis of different sequencing technologies for genome assembly.
Description of established and emerging organelle genome assembly pipelines.
Utilizing various metrics and visualization tools for assembly quality assessment.

Main Results:

Guidelines tailored for specific sequencing platforms (e.g., short-read, long-read, hybrid).
A comprehensive overview of strategies for successful organelle genome assembly.
Identification of key quality control checkpoints and best practices.

Conclusions:

Effective genome assembly requires careful consideration of sequencing technology and assembly strategy.
Accurate organelle genome assembly is achievable with appropriate methods.
Rigorous quality control is indispensable for reliable genome assemblies.