Manual curation and reannotation of the genomes of Clostridium difficile 630Δerm and C. difficile 630.

Abstract:

PURPOSE:We resequenced the genome of Clostridium difficile 630Δerm (DSM 28645), a model strain commonly used for the generation of insertion mutants. METHODOLOGY:The genome sequence was obtained by a combination of single-molecule real-timeand Illumina sequencing technology. RESULTS:Detailed manual curation and comparison to the previously published genomic sequence revealed sequence differences including inverted regions and the presence of plasmid pCD630. Manual curation of our previously deposited genome sequence of the parental strain 630 (DSM 27543) led to an improved genome sequence. In addition, the sequence of the transposon Tn5397 was completely identified. We manually revised the current manual annotation of the initial sequence of strain 630 and modified either gene names, gene product names or assigned EC numbers of 57 % of genes. The number of hypothetical and conserved hypothetical proteins was reduced by 152. This annotation was used as a template to annotate the most recent genome sequences of the strains 630Δerm and 630. CONCLUSION:Based on the genomic analysis, several new metabolic features of C. difficile are proposed and could be supported by literature and subsequent experiments.

journal_name

J Med Microbiol

authors

Dannheim H,Riedel T,Neumann-Schaal M,Bunk B,Schober I,Spröer C,Chibani CM,Gronow S,Liesegang H,Overmann J,Schomburg D

doi

10.1099/jmm.0.000427

subject

Has Abstract

pub_date

2017-03-01 00:00:00

pages

286-293

issue

3

eissn

0022-2615

issn

1473-5644

journal_volume

66

pub_type

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