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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
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A field guide to whole-genome sequencing, assembly and annotation
Robert Ekblom1, Jochen B W Wolf1
1Department of Evolutionary Biology, Uppsala University Uppsala, Sweden.
Evolutionary Applications
|January 2, 2015
Summary
Individual research groups can now perform de novo genome sequencing for any organism. Careful planning is essential for successful genome projects, especially for complex genomes, to address ecological and evolutionary questions.
Area of Science:
- Genomics
- Bioinformatics
- Conservation Genetics
Background:
- Historically, genome sequencing was limited to model organisms and required large consortia.
- Advances in high-throughput sequencing and bioinformatics have democratized genome sequencing.
- Individual research groups can now generate de novo draft genomes for diverse organisms.
Purpose of the Study:
- To review the current state of genome sequencing technology and its applications.
- To provide a practical, step-by-step guide to genome sequencing, assembly, and annotation.
- To guide researchers in planning genome projects, particularly for large and complex genomes.
Main Methods:
- Review of current high-throughput sequencing technologies.
- Overview of bioinformatic tools for genome assembly and annotation.
- Step-by-step workflow for de novo genome sequencing projects.
Main Results:
- Genome sequencing is now accessible to smaller research groups in eco-evolutionary and conservation fields.
- The process involves careful planning regarding organism choice and desired genome quality.
- Guidance is provided for handling large and complex genomes.
Conclusions:
- De novo genome sequencing is achievable for a wide range of organisms by individual research groups.
- Thorough planning and consideration of the biological question are crucial before initiating a genome project.
- This tutorial offers practical insights for researchers undertaking whole-genome sequencing, especially in conservation genetics.
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