title: The Mycoplasma conjunctivae genome sequencing, annotation and analysis.
abstract: BACKGROUND
  The mollicute Mycoplasma conjunctivae is the etiological agent leading to infectious keratoconjunctivitis (IKC) in domestic sheep and wild caprinae. Although this pathogen is relatively benign for domestic animals treated by antibiotics, it can lead wild animals to blindness and death. This is a major cause of death in the protected species in the Alps (e.g., Capra ibex, Rupicapra rupicapra).
  
  
  METHODS
  The genome was sequenced using a combined technique of GS-FLX (454) and Sanger sequencing, and annotated by an automatic pipeline that we designed using several tools interconnected via PERL scripts. The resulting annotations are stored in a MySQL database.
  
  
  RESULTS
  The annotated sequence is deposited in the EMBL database (FM864216) and uploaded into the mollicutes database MolliGen http://cbi.labri.fr/outils/molligen/ allowing for comparative genomics.
  
  
  CONCLUSIONS
  We show that our automatic pipeline allows for annotating a complete mycoplasma genome and present several examples of analysis in search for biological targets (e.g., pathogenic proteins).
authors.affiliation: Swiss Institute of Bioinformatics, Génopode-UNIL, 1015 Lausanne, Switzerland. Sandra.Calderon@unil.ch
authors.forename: Sandra P
authors.initials: SP
authors.lastname: Calderon-Copete
authors.forename: George
authors.initials: G
authors.lastname: Wigger
authors.forename: Christof
authors.initials: C
authors.lastname: Wunderlin
authors.forename: Tobias
authors.initials: T
authors.lastname: Schmidheini
authors.forename: Joachim
authors.initials: J
authors.lastname: Frey
authors.forename: Michael A
authors.initials: MA
authors.lastname: Quail
authors.forename: Laurent
authors.initials: L
authors.lastname: Falquet
mesh_terms: D019295:Computational Biology / Q000379:methods*; D030541:Databases, Genetic; D016680:Genome, Bacterial; D023281:Genomics; D045684:Mycoplasma conjunctivae / Q000235:genetics*; D017421:Sequence Analysis