Characterising genome architectures using genome decomposition analysis

Aunin, E., Berriman, M. and Reid, A. J. (2022) Characterising genome architectures using genome decomposition analysis. BMC Genomics, 23, 398. (doi: 10.1186/s12864-022-08616-3) (PMID:35610562) (PMCID:PMC9131526)

Abstract

Genome architecture describes how genes and other features are arranged in genomes. These arrangements reflect the evolutionary pressures on genomes and underlie biological processes such as chromosomal segregation and the regulation of gene expression. We present a new tool called Genome Decomposition Analysis (GDA) that characterises genome architectures and acts as an accessible approach for discovering hidden features of a genome assembly. With the imminent deluge of high-quality genome assemblies from projects such as the Darwin Tree of Life and the Earth BioGenome Project, GDA has been designed to facilitate their exploration and the discovery of novel genome biology. We highlight the effectiveness of our approach in characterising the genome architectures of single-celled eukaryotic parasites from the phylum Apicomplexa and show that it scales well to large genomes.

• Item Type: Articles
• Additional Information: This work was supported by Wellcome (grant 206194/Z/17/Z; https://wellcome.ac.uk/).
• Keywords: Genome architecture, chromosome structure, genome assembly, parasites, apicomplexa, plasmodium.
• Status: Published
• Refereed: Yes
• Glasgow Author(s) Enlighten ID: Berriman, Professor Matt
• Authors: Aunin, E., Berriman, M., and Reid, A. J.
• College/School: College of Medical Veterinary and Life Sciences > School of Infection & Immunity
• Journal Name: BMC Genomics
• Publisher: Biomed Central
• ISSN: 1471-2164
• ISSN (Online): 1471-2164
• Copyright Holders: Copyright © 2022 The Authors
• First Published: First published in BMC Genomics 23: 398
• Publisher Policy: Reproduced under a Creative Commons License