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© Research
Publication : Microbial biotechnology

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

Scientific Fields
Diseases
Organisms
Applications
Technique

Published in Microbial biotechnology - 01 Jan 2018

Borriss R, Danchin A, Harwood CR, Médigue C, Rocha EPC, Sekowska A, Vallenet D

Link to Pubmed [PMID] – 29280348

Microb Biotechnol 2018 01;11(1):3-17

Genome annotation is, nowadays, performed via automatic pipelines that cannot discriminate between right and wrong annotations. Given their importance 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.

https://www.ncbi.nlm.nih.gov/pubmed/29280348