The Bitome: Digitized genomic features reveal fundamental genome organization

Cameron R. Lamoureux, Kumari Sonal Choudhary, Zachary A. King, Troy E. Sandberg, Ye Gao, Anand V. Sastry, Patrick V. Phaneuf, Donghui Choe, Byung Kwan Cho, Bernhard O. Palsson*

*Corresponding author for this work

Research output: Contribution to journalArticlepeer-review

1 Citation (Scopus)

Abstract

A genome contains the information underlying an organism's form and function. Yet, we lack formal framework to represent and study this information. Here, we introduce the Bitome, a matrix composed of binary digits (bits) representing the genomic positions of genomic features. We form a Bitome for the genome of Escherichia coli K-12 MG1655. We find that: (i) genomic features are encoded unevenly, both spatially and categorically; (ii) coding and intergenic features are recapitulated at high resolution; (iii) adaptive mutations are skewed towards genomic positions with fewer features; and (iv) the Bitome enhances prediction of adaptively mutated and essential genes. The Bitome is a formal representation of a genome and may be used to study its fundamental organizational properties.

Original languageEnglish
Pages (from-to)10157-10163
Number of pages7
JournalNucleic Acids Research
Volume48
Issue number18
DOIs
Publication statusPublished - 9 Oct 2020

Bibliographical note

Publisher Copyright:
© 2020 The Author(s) 2020. Published by Oxford University Press on behalf of Nucleic Acids Research.

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