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Bacillus subtilis, the model Gram-positive bacterium: 20 years of annotation refinement

Lookup NU author(s): Professor Colin Harwood

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This work is licensed under a Creative Commons Attribution 4.0 International License (CC BY 4.0).

Abstract

Genome annotation is, nowadays, performed via automatic pipelines that cannot discriminate between right or wrong annotations. Given their important in increasing the accuracy of the genome annotations of other organisms, it is critical that the annotations of model organisms reflect the current annotation gold standard. The genome of Bacillus subtilis strain 168 was sequenced twenty years ago. Using a combination of inductive, deductive and abductive reasoning, we present a unique, manually curated annotation, essentially based on experimental data. This reveals how this bacterium lives in a plant niche, while carrying a paleome operating system common to Firmicutes and Tenericutes. Dozens of new genomic objects and an extensive literature survey have been included for the sequence available at the INSDC (AccNum AL009126.3). We also propose an extension to Demerec’s nomenclature rules that will help investigators connect to this type of curated annotation via the use of common gene names.

Publication metadata

Author(s): Borriss R, Danchin A, Harwood CR, Médigue C, Rocha EPC, Sekowska A, Vallenet D

Publication type: Article

Publication status: Published

Journal: Microbial Biotechnology

Year: 2018

Volume: 11

Issue: 1

Pages: 3-17

Print publication date: 01/01/2018

Online publication date: 26/12/2017

Acceptance date: 05/12/2017

Date deposited: 01/01/2018

ISSN (electronic): 1751-7915

Publisher: Wiley-Blackwell

URL: https://doi.org/10.1111/1751-7915.13043

DOI: 10.1111/1751-7915.13043

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